Multiple sequence alignment - TraesCS5B01G421600

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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 TraesCS5B01G421600 chr5B 100.000 2480 0 0 1 2480 596981420 596983899 0.000000e+00 4580.0
1 TraesCS5B01G421600 chr5A 91.120 1678 110 19 9 1666 606699102 606700760 0.000000e+00 2237.0
2 TraesCS5B01G421600 chr5A 88.406 1518 125 26 855 2350 606769040 606770528 0.000000e+00 1781.0
3 TraesCS5B01G421600 chr5A 90.736 788 43 16 25 802 606768273 606769040 0.000000e+00 1024.0
4 TraesCS5B01G421600 chr5A 92.894 577 38 2 1148 1723 606579144 606579718 0.000000e+00 835.0
5 TraesCS5B01G421600 chr5A 90.087 575 53 3 2 575 606560424 606560995 0.000000e+00 743.0
6 TraesCS5B01G421600 chr5A 82.643 628 86 11 988 1601 606783413 606784031 3.630000e-148 534.0
7 TraesCS5B01G421600 chr5A 91.803 366 21 3 796 1152 606561409 606561774 3.680000e-138 501.0
8 TraesCS5B01G421600 chr5D 89.431 1722 120 28 2 1690 485604591 485606283 0.000000e+00 2115.0
9 TraesCS5B01G421600 chr5D 95.038 1169 50 5 518 1678 485928171 485929339 0.000000e+00 1831.0
10 TraesCS5B01G421600 chr5D 95.202 521 24 1 3 522 485919759 485920279 0.000000e+00 822.0
11 TraesCS5B01G421600 chr5D 86.483 762 73 23 626 1380 485768285 485769023 0.000000e+00 809.0
12 TraesCS5B01G421600 chr5D 91.319 576 49 1 2 576 485767479 485768054 0.000000e+00 785.0
13 TraesCS5B01G421600 chr5D 89.899 495 36 9 1205 1690 485768806 485769295 2.090000e-175 625.0
14 TraesCS5B01G421600 chr5D 82.678 687 88 21 969 1631 486031087 486031766 4.600000e-162 580.0
15 TraesCS5B01G421600 chr5D 83.412 633 84 12 988 1604 486015768 486016395 3.580000e-158 568.0
16 TraesCS5B01G421600 chr5D 100.000 28 0 0 2382 2409 485934238 485934265 4.000000e-03 52.8
17 TraesCS5B01G421600 chr7D 77.493 702 98 32 1708 2354 41697494 41696798 1.400000e-97 366.0
18 TraesCS5B01G421600 chr7D 76.020 588 106 27 1794 2359 19578403 19577829 3.140000e-69 272.0
19 TraesCS5B01G421600 chr2B 81.503 346 38 18 2029 2358 603192304 603191969 6.800000e-66 261.0
20 TraesCS5B01G421600 chr2B 75.240 626 92 41 1710 2292 694946860 694946255 3.190000e-59 239.0
21 TraesCS5B01G421600 chr7A 75.667 600 102 34 1794 2362 360230145 360229559 2.450000e-65 259.0
22 TraesCS5B01G421600 chr7A 77.574 437 58 29 1942 2359 29843732 29843317 6.900000e-56 228.0
23 TraesCS5B01G421600 chr7A 77.089 371 51 17 1967 2325 299283408 299283060 1.510000e-42 183.0
24 TraesCS5B01G421600 chr6B 76.231 467 85 18 1907 2359 43807192 43806738 8.930000e-55 224.0
25 TraesCS5B01G421600 chr3A 80.711 197 27 8 2122 2314 615927563 615927752 2.570000e-30 143.0


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 TraesCS5B01G421600 chr5B 596981420 596983899 2479 False 4580.000000 4580 100.000000 1 2480 1 chr5B.!!$F1 2479
1 TraesCS5B01G421600 chr5A 606699102 606700760 1658 False 2237.000000 2237 91.120000 9 1666 1 chr5A.!!$F2 1657
2 TraesCS5B01G421600 chr5A 606768273 606770528 2255 False 1402.500000 1781 89.571000 25 2350 2 chr5A.!!$F5 2325
3 TraesCS5B01G421600 chr5A 606579144 606579718 574 False 835.000000 835 92.894000 1148 1723 1 chr5A.!!$F1 575
4 TraesCS5B01G421600 chr5A 606560424 606561774 1350 False 622.000000 743 90.945000 2 1152 2 chr5A.!!$F4 1150
5 TraesCS5B01G421600 chr5A 606783413 606784031 618 False 534.000000 534 82.643000 988 1601 1 chr5A.!!$F3 613
6 TraesCS5B01G421600 chr5D 485604591 485606283 1692 False 2115.000000 2115 89.431000 2 1690 1 chr5D.!!$F1 1688
7 TraesCS5B01G421600 chr5D 485928171 485929339 1168 False 1831.000000 1831 95.038000 518 1678 1 chr5D.!!$F3 1160
8 TraesCS5B01G421600 chr5D 485919759 485920279 520 False 822.000000 822 95.202000 3 522 1 chr5D.!!$F2 519
9 TraesCS5B01G421600 chr5D 485767479 485769295 1816 False 739.666667 809 89.233667 2 1690 3 chr5D.!!$F7 1688
10 TraesCS5B01G421600 chr5D 486031087 486031766 679 False 580.000000 580 82.678000 969 1631 1 chr5D.!!$F6 662
11 TraesCS5B01G421600 chr5D 486015768 486016395 627 False 568.000000 568 83.412000 988 1604 1 chr5D.!!$F5 616
12 TraesCS5B01G421600 chr7D 41696798 41697494 696 True 366.000000 366 77.493000 1708 2354 1 chr7D.!!$R2 646
13 TraesCS5B01G421600 chr7D 19577829 19578403 574 True 272.000000 272 76.020000 1794 2359 1 chr7D.!!$R1 565
14 TraesCS5B01G421600 chr2B 694946255 694946860 605 True 239.000000 239 75.240000 1710 2292 1 chr2B.!!$R2 582
15 TraesCS5B01G421600 chr7A 360229559 360230145 586 True 259.000000 259 75.667000 1794 2362 1 chr7A.!!$R3 568

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
127 129 0.178953 AAGCATGTTTCTGCCAGGGT 60.179 50.0 0.0 0.0 43.33 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1525 2012 0.03563 GCCACTGGAACATGAGAGCT 60.036 55.0 0.0 0.0 38.2 4.09 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
34 35 4.142160 GGACAAAGGGGTGAATAATTGAGC 60.142 45.833 0.00 0.00 0.00 4.26
127 129 0.178953 AAGCATGTTTCTGCCAGGGT 60.179 50.000 0.00 0.00 43.33 4.34
156 158 3.956199 CCAAATACTCAGATGTTGGCCAT 59.044 43.478 6.09 0.00 32.90 4.40
175 179 4.263025 GCCATCAATTTCCTCCCTTTGTTT 60.263 41.667 0.00 0.00 0.00 2.83
391 395 4.401202 CACAAACAACCCACTCTAAAAGGT 59.599 41.667 0.00 0.00 0.00 3.50
474 482 5.920273 CGAATGCCACTGAAATTTGTTAACT 59.080 36.000 7.22 0.00 0.00 2.24
476 484 7.593273 CGAATGCCACTGAAATTTGTTAACTAA 59.407 33.333 7.22 6.03 0.00 2.24
570 586 7.552050 TCTTATTTGATTTCACATTGGGGTT 57.448 32.000 0.00 0.00 0.00 4.11
665 874 0.697079 AGTGACGAGGAGAGGTACCA 59.303 55.000 15.94 0.00 0.00 3.25
700 909 4.187694 CTCCTCACCTAAGCACAGAAATC 58.812 47.826 0.00 0.00 0.00 2.17
775 989 9.725019 AATTTCCTGCTCGATCATATAAACATA 57.275 29.630 0.00 0.00 0.00 2.29
816 1270 5.164061 CGTAACACGTTATGGTTACCAACTC 60.164 44.000 8.63 0.61 43.94 3.01
912 1376 4.170468 CTGGGTATAAGTTCCAGGCATT 57.830 45.455 0.00 0.00 43.09 3.56
922 1386 1.077265 CCAGGCATTGACCCCTGTT 59.923 57.895 6.00 0.00 45.68 3.16
931 1395 0.321564 TGACCCCTGTTCTTGCATCG 60.322 55.000 0.00 0.00 0.00 3.84
1257 1744 2.267642 GTGACACTGCCGCCCATA 59.732 61.111 0.00 0.00 0.00 2.74
1391 1878 2.120909 CGATGCCCGCCATTCCTTT 61.121 57.895 0.00 0.00 33.29 3.11
1393 1880 2.063541 GATGCCCGCCATTCCTTTCG 62.064 60.000 0.00 0.00 33.29 3.46
1428 1915 1.292223 GCCGCCGATGCCTTCTATA 59.708 57.895 0.00 0.00 0.00 1.31
1525 2012 0.598942 CACCATGTCGACGGTCACAA 60.599 55.000 11.69 0.00 31.41 3.33
1615 2130 9.979578 TGCTTTACATTTCAATTCAGTTGTTAT 57.020 25.926 0.00 0.00 38.95 1.89
1666 2183 6.492429 TGTTCTTGTCCTAGTATATATGCGGT 59.508 38.462 0.00 0.00 0.00 5.68
1750 2269 2.009774 GCTTCTTGCGGTATGTCACAT 58.990 47.619 0.00 0.00 0.00 3.21
1758 2277 2.850631 GCGGTATGTCACATGAATTGCG 60.851 50.000 0.00 0.00 0.00 4.85
1780 2299 5.804979 GCGTCCAAACATGCAAAATATTACT 59.195 36.000 0.00 0.00 0.00 2.24
1793 2312 8.473219 TGCAAAATATTACTCAACAATGCCATA 58.527 29.630 0.00 0.00 0.00 2.74
1794 2313 9.311916 GCAAAATATTACTCAACAATGCCATAA 57.688 29.630 0.00 0.00 0.00 1.90
1862 2394 2.583024 AGGACCTCCTATACTACGCC 57.417 55.000 0.00 0.00 46.48 5.68
1898 2434 1.332144 AAGATGTAGCGCCCCCGTTA 61.332 55.000 2.29 0.00 36.67 3.18
1938 2474 5.078153 GGCGACCTGTTTTTCAAATTTTC 57.922 39.130 0.00 0.00 0.00 2.29
1981 2558 7.852971 TTCCTACTGTAAATAATTTGGGACG 57.147 36.000 0.00 0.00 0.00 4.79
2082 2664 9.393249 TCAAAAAGTGCTCGTGATTTTATAAAG 57.607 29.630 0.00 0.00 0.00 1.85
2378 2979 5.705905 TGAATCTAGATTCGCGGATTCTAGA 59.294 40.000 30.84 28.78 46.30 2.43
2379 2980 6.206829 TGAATCTAGATTCGCGGATTCTAGAA 59.793 38.462 30.84 19.31 45.85 2.10
2380 2981 6.576662 ATCTAGATTCGCGGATTCTAGAAA 57.423 37.500 29.58 18.14 45.85 2.52
2381 2982 5.759963 TCTAGATTCGCGGATTCTAGAAAC 58.240 41.667 26.63 6.74 42.99 2.78
2382 2983 3.372954 AGATTCGCGGATTCTAGAAACG 58.627 45.455 21.65 21.65 0.00 3.60
2383 2984 1.274596 TTCGCGGATTCTAGAAACGC 58.725 50.000 31.53 31.53 42.88 4.84
2384 2985 0.526954 TCGCGGATTCTAGAAACGCC 60.527 55.000 33.24 23.13 43.16 5.68
2385 2986 1.488261 CGCGGATTCTAGAAACGCCC 61.488 60.000 33.24 21.06 43.16 6.13
2386 2987 1.488261 GCGGATTCTAGAAACGCCCG 61.488 60.000 31.38 27.17 41.56 6.13
2387 2988 0.874607 CGGATTCTAGAAACGCCCGG 60.875 60.000 21.27 0.00 32.64 5.73
2388 2989 0.177373 GGATTCTAGAAACGCCCGGT 59.823 55.000 9.71 0.00 0.00 5.28
2389 2990 1.406477 GGATTCTAGAAACGCCCGGTT 60.406 52.381 9.71 0.00 41.76 4.44
2390 2991 1.664151 GATTCTAGAAACGCCCGGTTG 59.336 52.381 9.71 0.00 39.30 3.77
2391 2992 0.952010 TTCTAGAAACGCCCGGTTGC 60.952 55.000 1.68 0.00 39.30 4.17
2392 2993 1.375523 CTAGAAACGCCCGGTTGCT 60.376 57.895 0.00 0.00 46.64 3.91
2393 2994 1.359459 CTAGAAACGCCCGGTTGCTC 61.359 60.000 0.00 0.00 40.79 4.26
2394 2995 2.791501 TAGAAACGCCCGGTTGCTCC 62.792 60.000 0.00 0.00 40.79 4.70
2400 3001 4.047125 CCCGGTTGCTCCCCATGT 62.047 66.667 0.00 0.00 0.00 3.21
2401 3002 2.438434 CCGGTTGCTCCCCATGTC 60.438 66.667 0.00 0.00 0.00 3.06
2402 3003 2.671070 CGGTTGCTCCCCATGTCT 59.329 61.111 0.00 0.00 0.00 3.41
2403 3004 1.746615 CGGTTGCTCCCCATGTCTG 60.747 63.158 0.00 0.00 0.00 3.51
2404 3005 1.685224 GGTTGCTCCCCATGTCTGA 59.315 57.895 0.00 0.00 0.00 3.27
2405 3006 0.257039 GGTTGCTCCCCATGTCTGAT 59.743 55.000 0.00 0.00 0.00 2.90
2406 3007 1.490490 GGTTGCTCCCCATGTCTGATA 59.510 52.381 0.00 0.00 0.00 2.15
2407 3008 2.565841 GTTGCTCCCCATGTCTGATAC 58.434 52.381 0.00 0.00 0.00 2.24
2408 3009 1.878211 TGCTCCCCATGTCTGATACA 58.122 50.000 0.00 0.00 43.86 2.29
2409 3010 1.764723 TGCTCCCCATGTCTGATACAG 59.235 52.381 0.00 0.00 42.70 2.74
2410 3011 1.765314 GCTCCCCATGTCTGATACAGT 59.235 52.381 0.00 0.00 42.70 3.55
2411 3012 2.224161 GCTCCCCATGTCTGATACAGTC 60.224 54.545 0.00 0.00 42.70 3.51
2412 3013 2.366916 CTCCCCATGTCTGATACAGTCC 59.633 54.545 0.00 0.00 42.70 3.85
2413 3014 1.417890 CCCCATGTCTGATACAGTCCC 59.582 57.143 0.00 0.00 42.70 4.46
2414 3015 2.402564 CCCATGTCTGATACAGTCCCT 58.597 52.381 0.00 0.00 42.70 4.20
2415 3016 2.103771 CCCATGTCTGATACAGTCCCTG 59.896 54.545 0.00 0.00 42.70 4.45
2417 3018 3.431346 CCATGTCTGATACAGTCCCTGTG 60.431 52.174 7.13 0.00 45.01 3.66
2418 3019 1.550524 TGTCTGATACAGTCCCTGTGC 59.449 52.381 7.13 0.57 45.01 4.57
2419 3020 1.550524 GTCTGATACAGTCCCTGTGCA 59.449 52.381 7.13 4.77 45.01 4.57
2420 3021 2.169352 GTCTGATACAGTCCCTGTGCAT 59.831 50.000 7.13 0.00 45.01 3.96
2421 3022 2.432146 TCTGATACAGTCCCTGTGCATC 59.568 50.000 7.13 4.12 45.01 3.91
2422 3023 1.486310 TGATACAGTCCCTGTGCATCC 59.514 52.381 7.13 0.00 45.01 3.51
2423 3024 0.839946 ATACAGTCCCTGTGCATCCC 59.160 55.000 7.13 0.00 45.01 3.85
2424 3025 0.546507 TACAGTCCCTGTGCATCCCA 60.547 55.000 7.13 0.00 45.01 4.37
2425 3026 1.377725 CAGTCCCTGTGCATCCCAC 60.378 63.158 0.00 0.00 44.90 4.61
2433 3034 3.457263 TGCATCCCACGCTCGCTA 61.457 61.111 0.00 0.00 0.00 4.26
2434 3035 2.659897 GCATCCCACGCTCGCTAG 60.660 66.667 0.00 0.00 0.00 3.42
2435 3036 2.659897 CATCCCACGCTCGCTAGC 60.660 66.667 4.06 4.06 45.86 3.42
2450 3051 5.972018 CTCGCTAGCAGACTGAAAATATTG 58.028 41.667 16.45 0.00 0.00 1.90
2451 3052 5.419542 TCGCTAGCAGACTGAAAATATTGT 58.580 37.500 16.45 0.00 0.00 2.71
2452 3053 6.569780 TCGCTAGCAGACTGAAAATATTGTA 58.430 36.000 16.45 0.00 0.00 2.41
2453 3054 7.039270 TCGCTAGCAGACTGAAAATATTGTAA 58.961 34.615 16.45 0.00 0.00 2.41
2454 3055 7.547722 TCGCTAGCAGACTGAAAATATTGTAAA 59.452 33.333 16.45 0.00 0.00 2.01
2455 3056 7.636359 CGCTAGCAGACTGAAAATATTGTAAAC 59.364 37.037 16.45 0.00 0.00 2.01
2456 3057 8.450964 GCTAGCAGACTGAAAATATTGTAAACA 58.549 33.333 10.63 0.00 0.00 2.83
2468 3069 7.979444 AATATTGTAAACATACATCCCTCCG 57.021 36.000 0.00 0.00 0.00 4.63
2469 3070 4.829872 TTGTAAACATACATCCCTCCGT 57.170 40.909 0.00 0.00 0.00 4.69
2470 3071 4.395959 TGTAAACATACATCCCTCCGTC 57.604 45.455 0.00 0.00 0.00 4.79
2471 3072 2.596904 AAACATACATCCCTCCGTCG 57.403 50.000 0.00 0.00 0.00 5.12
2472 3073 1.481871 AACATACATCCCTCCGTCGT 58.518 50.000 0.00 0.00 0.00 4.34
2473 3074 0.744874 ACATACATCCCTCCGTCGTG 59.255 55.000 0.00 0.00 0.00 4.35
2474 3075 0.744874 CATACATCCCTCCGTCGTGT 59.255 55.000 0.00 0.00 0.00 4.49
2475 3076 1.951602 CATACATCCCTCCGTCGTGTA 59.048 52.381 0.00 0.00 0.00 2.90
2476 3077 2.127271 TACATCCCTCCGTCGTGTAA 57.873 50.000 0.00 0.00 0.00 2.41
2477 3078 1.259609 ACATCCCTCCGTCGTGTAAA 58.740 50.000 0.00 0.00 0.00 2.01
2478 3079 1.067354 ACATCCCTCCGTCGTGTAAAC 60.067 52.381 0.00 0.00 0.00 2.01
2479 3080 1.203994 CATCCCTCCGTCGTGTAAACT 59.796 52.381 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.334881 ACCCCTTTGTCCAATGAAGAGAT 59.665 43.478 0.00 0.00 0.00 2.75
34 35 1.802960 GCTCAGCCATCCAACATATCG 59.197 52.381 0.00 0.00 0.00 2.92
127 129 5.698741 ACATCTGAGTATTTGGTGGATGA 57.301 39.130 0.00 0.00 34.86 2.92
156 158 4.343814 GTGGAAACAAAGGGAGGAAATTGA 59.656 41.667 0.00 0.00 46.06 2.57
259 263 5.845103 TGTTCATCCGTTCAACTACTTACA 58.155 37.500 0.00 0.00 0.00 2.41
260 264 6.672357 GCATGTTCATCCGTTCAACTACTTAC 60.672 42.308 0.00 0.00 0.00 2.34
391 395 4.757657 TGCCTTTGATTTTTCTAGCACGTA 59.242 37.500 0.00 0.00 0.00 3.57
474 482 9.431887 GTTGACTACAGATATTTGGTGAACTTA 57.568 33.333 0.00 0.00 0.00 2.24
476 484 6.879458 GGTTGACTACAGATATTTGGTGAACT 59.121 38.462 0.00 0.00 0.00 3.01
775 989 7.271440 CGTGTTACGTTAGTCAGAGTGACAAT 61.271 42.308 9.62 0.00 42.25 2.71
816 1270 1.873591 CACAACTTTCTCCGGAACCAG 59.126 52.381 5.23 3.58 0.00 4.00
853 1307 2.610438 AGATTGGTTGTTGGCCAGAT 57.390 45.000 5.11 0.00 37.31 2.90
912 1376 0.321564 CGATGCAAGAACAGGGGTCA 60.322 55.000 0.00 0.00 0.00 4.02
931 1395 3.631144 CGAGATGTCTCTGATCTCTTGC 58.369 50.000 8.28 0.00 42.54 4.01
935 1399 2.618241 ACTGCGAGATGTCTCTGATCTC 59.382 50.000 8.28 0.00 41.68 2.75
974 1438 5.278957 GCTAGCTCCTAGATTTTCTCTGAGG 60.279 48.000 7.70 0.00 36.26 3.86
1187 1656 4.335647 CAGTCAAGGCCGGCACCT 62.336 66.667 30.85 14.88 43.91 4.00
1350 1837 1.736645 CACCGTCACCTTAGGCACG 60.737 63.158 14.35 14.35 33.66 5.34
1391 1878 2.434185 GCGTCATCTTGGGCACGA 60.434 61.111 0.00 0.00 34.06 4.35
1393 1880 3.044059 GCAGCGTCATCTTGGGCAC 62.044 63.158 0.00 0.00 0.00 5.01
1428 1915 3.982241 GGGACGTTGACGGTCGGT 61.982 66.667 8.52 1.41 44.95 4.69
1525 2012 0.035630 GCCACTGGAACATGAGAGCT 60.036 55.000 0.00 0.00 38.20 4.09
1615 2130 9.315363 ACCCCTTTAATATCAACACACAATAAA 57.685 29.630 0.00 0.00 0.00 1.40
1723 2240 0.607762 TACCGCAAGAAGCAATGCCA 60.608 50.000 0.00 0.00 46.13 4.92
1726 2243 2.419673 TGACATACCGCAAGAAGCAATG 59.580 45.455 0.00 0.00 46.13 2.82
1750 2269 1.339291 TGCATGTTTGGACGCAATTCA 59.661 42.857 0.00 0.00 0.00 2.57
1758 2277 8.647226 GTTGAGTAATATTTTGCATGTTTGGAC 58.353 33.333 0.00 0.00 0.00 4.02
1794 2313 1.770294 TCCCTTGCGTGGAACTTTTT 58.230 45.000 0.00 0.00 31.75 1.94
1796 2315 1.886542 GATTCCCTTGCGTGGAACTTT 59.113 47.619 3.80 0.00 44.30 2.66
1862 2394 3.510388 TCTTCTCACAGCGTGAATAGG 57.490 47.619 11.49 5.24 42.26 2.57
1898 2434 2.602676 CCGGACATGGGTTGGACCT 61.603 63.158 0.00 0.00 38.64 3.85
1959 2519 6.819649 TGACGTCCCAAATTATTTACAGTAGG 59.180 38.462 14.12 0.00 0.00 3.18
2167 2752 7.672351 TTCGTTAACAGTTTTAATGCACTTG 57.328 32.000 6.39 0.00 0.00 3.16
2168 2753 8.865590 ATTTCGTTAACAGTTTTAATGCACTT 57.134 26.923 6.39 0.00 0.00 3.16
2188 2776 7.849496 TGAATTGGTGACATTTTTCAATTTCG 58.151 30.769 0.00 0.00 42.32 3.46
2201 2789 7.270779 TCATGACAATTTTTGAATTGGTGACA 58.729 30.769 14.27 9.68 42.78 3.58
2202 2790 7.712264 TCATGACAATTTTTGAATTGGTGAC 57.288 32.000 14.27 5.69 42.78 3.67
2218 2808 8.592529 TCAGGATATTTTTCCATTCATGACAA 57.407 30.769 0.00 0.00 38.32 3.18
2219 2810 8.592529 TTCAGGATATTTTTCCATTCATGACA 57.407 30.769 0.00 0.00 38.32 3.58
2354 2955 4.855715 AGAATCCGCGAATCTAGATTCA 57.144 40.909 33.88 20.91 45.60 2.57
2355 2956 6.184580 TCTAGAATCCGCGAATCTAGATTC 57.815 41.667 28.51 28.51 42.62 2.52
2357 2958 6.383415 GTTTCTAGAATCCGCGAATCTAGAT 58.617 40.000 29.14 14.24 45.07 1.98
2359 2960 4.613448 CGTTTCTAGAATCCGCGAATCTAG 59.387 45.833 24.54 24.54 41.16 2.43
2360 2961 4.534168 CGTTTCTAGAATCCGCGAATCTA 58.466 43.478 8.23 11.26 0.00 1.98
2361 2962 3.372954 CGTTTCTAGAATCCGCGAATCT 58.627 45.455 8.23 10.65 0.00 2.40
2362 2963 2.097347 GCGTTTCTAGAATCCGCGAATC 60.097 50.000 24.91 2.14 33.60 2.52
2363 2964 1.859080 GCGTTTCTAGAATCCGCGAAT 59.141 47.619 24.91 0.00 33.60 3.34
2364 2965 1.274596 GCGTTTCTAGAATCCGCGAA 58.725 50.000 24.91 0.00 33.60 4.70
2365 2966 0.526954 GGCGTTTCTAGAATCCGCGA 60.527 55.000 28.67 6.18 39.98 5.87
2366 2967 1.488261 GGGCGTTTCTAGAATCCGCG 61.488 60.000 28.67 20.78 39.98 6.46
2367 2968 1.488261 CGGGCGTTTCTAGAATCCGC 61.488 60.000 28.35 28.35 39.05 5.54
2368 2969 0.874607 CCGGGCGTTTCTAGAATCCG 60.875 60.000 20.53 20.53 36.23 4.18
2369 2970 0.177373 ACCGGGCGTTTCTAGAATCC 59.823 55.000 6.32 8.03 0.00 3.01
2370 2971 1.664151 CAACCGGGCGTTTCTAGAATC 59.336 52.381 6.32 4.69 29.93 2.52
2371 2972 1.734163 CAACCGGGCGTTTCTAGAAT 58.266 50.000 6.32 0.00 29.93 2.40
2372 2973 0.952010 GCAACCGGGCGTTTCTAGAA 60.952 55.000 6.32 0.00 29.93 2.10
2373 2974 1.375013 GCAACCGGGCGTTTCTAGA 60.375 57.895 6.32 0.00 29.93 2.43
2374 2975 1.359459 GAGCAACCGGGCGTTTCTAG 61.359 60.000 6.32 0.00 39.27 2.43
2375 2976 1.375013 GAGCAACCGGGCGTTTCTA 60.375 57.895 6.32 0.00 39.27 2.10
2376 2977 2.668550 GAGCAACCGGGCGTTTCT 60.669 61.111 6.32 0.00 39.27 2.52
2377 2978 3.733960 GGAGCAACCGGGCGTTTC 61.734 66.667 6.32 0.00 39.27 2.78
2383 2984 3.995506 GACATGGGGAGCAACCGGG 62.996 68.421 6.32 0.00 40.11 5.73
2384 2985 2.438434 GACATGGGGAGCAACCGG 60.438 66.667 0.00 0.00 40.11 5.28
2385 2986 1.746615 CAGACATGGGGAGCAACCG 60.747 63.158 0.00 0.00 40.11 4.44
2386 2987 0.257039 ATCAGACATGGGGAGCAACC 59.743 55.000 0.00 0.00 38.08 3.77
2387 2988 2.092968 TGTATCAGACATGGGGAGCAAC 60.093 50.000 0.00 0.00 31.20 4.17
2388 2989 2.171237 CTGTATCAGACATGGGGAGCAA 59.829 50.000 0.00 0.00 37.45 3.91
2389 2990 1.764723 CTGTATCAGACATGGGGAGCA 59.235 52.381 0.00 0.00 37.45 4.26
2390 2991 1.765314 ACTGTATCAGACATGGGGAGC 59.235 52.381 0.00 0.00 37.45 4.70
2391 2992 2.366916 GGACTGTATCAGACATGGGGAG 59.633 54.545 0.00 0.00 37.45 4.30
2392 2993 2.398588 GGACTGTATCAGACATGGGGA 58.601 52.381 0.00 0.00 37.45 4.81
2393 2994 1.417890 GGGACTGTATCAGACATGGGG 59.582 57.143 0.00 0.00 37.45 4.96
2394 2995 2.402564 AGGGACTGTATCAGACATGGG 58.597 52.381 0.00 0.00 37.45 4.00
2408 3009 2.959484 CGTGGGATGCACAGGGACT 61.959 63.158 0.00 0.00 43.88 3.85
2409 3010 2.436646 CGTGGGATGCACAGGGAC 60.437 66.667 0.00 0.00 0.00 4.46
2410 3011 4.408821 GCGTGGGATGCACAGGGA 62.409 66.667 0.00 0.00 0.00 4.20
2411 3012 4.415150 AGCGTGGGATGCACAGGG 62.415 66.667 0.00 0.00 31.07 4.45
2412 3013 2.821366 GAGCGTGGGATGCACAGG 60.821 66.667 0.00 0.00 31.07 4.00
2413 3014 3.190849 CGAGCGTGGGATGCACAG 61.191 66.667 0.00 0.00 31.07 3.66
2415 3016 3.716539 TAGCGAGCGTGGGATGCAC 62.717 63.158 0.00 0.00 31.07 4.57
2416 3017 3.430565 CTAGCGAGCGTGGGATGCA 62.431 63.158 0.00 0.00 31.07 3.96
2417 3018 2.659897 CTAGCGAGCGTGGGATGC 60.660 66.667 0.00 0.00 0.00 3.91
2418 3019 2.659897 GCTAGCGAGCGTGGGATG 60.660 66.667 2.13 0.00 39.39 3.51
2427 3028 5.521735 ACAATATTTTCAGTCTGCTAGCGAG 59.478 40.000 10.77 8.90 0.00 5.03
2428 3029 5.419542 ACAATATTTTCAGTCTGCTAGCGA 58.580 37.500 10.77 7.69 0.00 4.93
2429 3030 5.725110 ACAATATTTTCAGTCTGCTAGCG 57.275 39.130 10.77 5.22 0.00 4.26
2430 3031 8.450964 TGTTTACAATATTTTCAGTCTGCTAGC 58.549 33.333 8.10 8.10 0.00 3.42
2442 3043 8.846211 CGGAGGGATGTATGTTTACAATATTTT 58.154 33.333 0.00 0.00 41.51 1.82
2443 3044 7.996644 ACGGAGGGATGTATGTTTACAATATTT 59.003 33.333 0.00 0.00 41.51 1.40
2444 3045 7.514721 ACGGAGGGATGTATGTTTACAATATT 58.485 34.615 0.00 0.00 41.51 1.28
2445 3046 7.074653 ACGGAGGGATGTATGTTTACAATAT 57.925 36.000 0.00 0.00 41.51 1.28
2446 3047 6.488769 ACGGAGGGATGTATGTTTACAATA 57.511 37.500 0.00 0.00 41.51 1.90
2447 3048 5.365619 GACGGAGGGATGTATGTTTACAAT 58.634 41.667 0.00 0.00 41.51 2.71
2448 3049 4.678574 CGACGGAGGGATGTATGTTTACAA 60.679 45.833 0.00 0.00 41.51 2.41
2449 3050 3.181484 CGACGGAGGGATGTATGTTTACA 60.181 47.826 0.00 0.00 42.35 2.41
2450 3051 3.181483 ACGACGGAGGGATGTATGTTTAC 60.181 47.826 0.00 0.00 0.00 2.01
2451 3052 3.025978 ACGACGGAGGGATGTATGTTTA 58.974 45.455 0.00 0.00 0.00 2.01
2452 3053 1.829222 ACGACGGAGGGATGTATGTTT 59.171 47.619 0.00 0.00 0.00 2.83
2453 3054 1.136305 CACGACGGAGGGATGTATGTT 59.864 52.381 0.00 0.00 0.00 2.71
2454 3055 0.744874 CACGACGGAGGGATGTATGT 59.255 55.000 0.00 0.00 0.00 2.29
2455 3056 0.744874 ACACGACGGAGGGATGTATG 59.255 55.000 0.00 0.00 0.00 2.39
2456 3057 2.353357 TACACGACGGAGGGATGTAT 57.647 50.000 0.00 0.00 0.00 2.29
2457 3058 2.127271 TTACACGACGGAGGGATGTA 57.873 50.000 0.00 0.00 0.00 2.29
2458 3059 1.067354 GTTTACACGACGGAGGGATGT 60.067 52.381 0.00 0.00 0.00 3.06
2459 3060 1.203994 AGTTTACACGACGGAGGGATG 59.796 52.381 0.00 0.00 0.00 3.51
2460 3061 1.553706 AGTTTACACGACGGAGGGAT 58.446 50.000 0.00 0.00 0.00 3.85
2461 3062 3.040965 AGTTTACACGACGGAGGGA 57.959 52.632 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.