Multiple sequence alignment - TraesCS4A01G114800

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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 TraesCS4A01G114800 chr4A 100.000 2519 0 0 1 2519 139612128 139614646 0.000000e+00 4652.0
1 TraesCS4A01G114800 chr4B 94.315 1759 62 19 732 2485 412084985 412083260 0.000000e+00 2660.0
2 TraesCS4A01G114800 chr4B 85.784 823 83 16 1 797 412086163 412085349 0.000000e+00 841.0
3 TraesCS4A01G114800 chr4B 83.636 220 21 8 532 738 412085479 412085262 2.560000e-45 193.0
4 TraesCS4A01G114800 chr4D 93.209 1399 58 16 555 1933 334110584 334109203 0.000000e+00 2023.0
5 TraesCS4A01G114800 chr4D 94.675 507 16 5 1992 2498 334109015 334108520 0.000000e+00 776.0
6 TraesCS4A01G114800 chr4D 89.403 519 43 4 1 507 334111212 334110694 0.000000e+00 643.0
7 TraesCS4A01G114800 chr4D 87.255 102 12 1 543 644 334110451 334110351 5.690000e-22 115.0
8 TraesCS4A01G114800 chr4D 92.500 40 2 1 504 542 384268239 384268278 3.500000e-04 56.5
9 TraesCS4A01G114800 chr3D 85.235 149 20 2 1000 1147 454677570 454677423 4.340000e-33 152.0
10 TraesCS4A01G114800 chr3A 84.768 151 21 2 998 1147 596752669 596752520 1.560000e-32 150.0
11 TraesCS4A01G114800 chr3A 89.655 58 6 0 668 725 641800647 641800590 9.660000e-10 75.0
12 TraesCS4A01G114800 chr3B 84.564 149 21 2 1000 1147 597461884 597461737 2.020000e-31 147.0
13 TraesCS4A01G114800 chr3B 100.000 28 0 0 2492 2519 417053361 417053388 5.000000e-03 52.8
14 TraesCS4A01G114800 chr3B 96.774 31 1 0 2489 2519 698242417 698242447 5.000000e-03 52.8
15 TraesCS4A01G114800 chr7D 85.915 71 7 2 663 731 249422541 249422610 3.480000e-09 73.1
16 TraesCS4A01G114800 chr7D 92.683 41 2 1 503 542 261818685 261818645 9.730000e-05 58.4
17 TraesCS4A01G114800 chr7D 82.540 63 7 3 532 592 249422561 249422501 5.000000e-03 52.8
18 TraesCS4A01G114800 chr7A 85.714 70 9 1 663 731 271736462 271736393 3.480000e-09 73.1
19 TraesCS4A01G114800 chr7A 100.000 29 0 0 2491 2519 31197040 31197012 1.000000e-03 54.7
20 TraesCS4A01G114800 chr7A 100.000 28 0 0 532 559 271736442 271736469 5.000000e-03 52.8
21 TraesCS4A01G114800 chr5B 86.567 67 8 1 665 731 188019616 188019681 3.480000e-09 73.1
22 TraesCS4A01G114800 chr2A 88.333 60 6 1 199 258 55942611 55942553 1.250000e-08 71.3
23 TraesCS4A01G114800 chr2A 90.698 43 1 3 502 542 688628929 688628888 1.000000e-03 54.7
24 TraesCS4A01G114800 chr2B 93.023 43 2 1 216 258 87350228 87350187 7.520000e-06 62.1
25 TraesCS4A01G114800 chr5D 90.909 44 4 0 661 704 474198596 474198553 2.710000e-05 60.2
26 TraesCS4A01G114800 chr1D 84.127 63 6 3 662 722 477288449 477288389 9.730000e-05 58.4
27 TraesCS4A01G114800 chr1D 100.000 28 0 0 2492 2519 29899424 29899397 5.000000e-03 52.8
28 TraesCS4A01G114800 chr2D 100.000 29 0 0 504 532 145890407 145890435 1.000000e-03 54.7
29 TraesCS4A01G114800 chr6D 100.000 28 0 0 2492 2519 140095062 140095089 5.000000e-03 52.8
30 TraesCS4A01G114800 chr6B 100.000 28 0 0 2492 2519 240048594 240048621 5.000000e-03 52.8
31 TraesCS4A01G114800 chr6A 100.000 28 0 0 2492 2519 558983167 558983140 5.000000e-03 52.8


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 TraesCS4A01G114800 chr4A 139612128 139614646 2518 False 4652.000000 4652 100.000000 1 2519 1 chr4A.!!$F1 2518
1 TraesCS4A01G114800 chr4B 412083260 412086163 2903 True 1231.333333 2660 87.911667 1 2485 3 chr4B.!!$R1 2484
2 TraesCS4A01G114800 chr4D 334108520 334111212 2692 True 889.250000 2023 91.135500 1 2498 4 chr4D.!!$R1 2497

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
459 479 0.035056 ATTTCAACCGAGGGAGCAGG 60.035 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2164 2775 0.03438 CAGTGGAGACCGAGACCCTA 60.034 60.0 0.0 0.0 0.0 3.53 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
27 28 6.700960 TGCAAAAGATTACAACCAAAGTGATG 59.299 34.615 0.00 0.00 0.00 3.07
41 42 6.869913 ACCAAAGTGATGCATTGAAGTATTTG 59.130 34.615 0.00 6.14 0.00 2.32
69 70 7.996098 TTATAGTTTCTGGAAAAGGGAACTG 57.004 36.000 0.00 0.00 42.68 3.16
208 222 6.253946 ACTACTCCCTCCATTCCAAATTAG 57.746 41.667 0.00 0.00 0.00 1.73
226 240 8.969267 CCAAATTAGCTAGTGTATTAGAGTTCG 58.031 37.037 0.00 0.00 0.00 3.95
233 247 7.720515 AGCTAGTGTATTAGAGTTCGTTAGGAT 59.279 37.037 0.00 0.00 0.00 3.24
307 327 7.779222 AAAGTTCTCTTTTGCAAAATTATGCGC 60.779 33.333 24.06 0.00 41.23 6.09
409 429 4.456566 GTGTAATTGTCCGGAAAAGGCTTA 59.543 41.667 13.66 4.08 0.00 3.09
411 431 5.712917 TGTAATTGTCCGGAAAAGGCTTATT 59.287 36.000 13.66 3.61 0.00 1.40
429 449 6.316890 GGCTTATTCCAACGAAACCTAATACA 59.683 38.462 0.00 0.00 0.00 2.29
456 476 2.618709 CCATAATTTCAACCGAGGGAGC 59.381 50.000 0.00 0.00 0.00 4.70
459 479 0.035056 ATTTCAACCGAGGGAGCAGG 60.035 55.000 0.00 0.00 0.00 4.85
461 481 3.003173 CAACCGAGGGAGCAGGGA 61.003 66.667 0.00 0.00 0.00 4.20
483 503 6.223120 GGACTGTTTTGAGGCACAAATTATT 58.777 36.000 10.84 0.00 45.99 1.40
517 537 5.437191 AAAAATGTTACTCCCTCCGATCT 57.563 39.130 0.00 0.00 0.00 2.75
518 538 4.408182 AAATGTTACTCCCTCCGATCTG 57.592 45.455 0.00 0.00 0.00 2.90
533 553 4.873259 TCCGATCTGAATTAATTGACGCAA 59.127 37.500 5.17 0.00 0.00 4.85
538 575 7.902917 CGATCTGAATTAATTGACGCAACTTTA 59.097 33.333 5.17 0.00 0.00 1.85
562 599 7.845066 ATACTAAAGTTGTACTAAAGCTGCC 57.155 36.000 0.00 0.00 0.00 4.85
564 601 5.701290 ACTAAAGTTGTACTAAAGCTGCCTG 59.299 40.000 0.00 0.00 0.00 4.85
567 604 4.065789 AGTTGTACTAAAGCTGCCTGAAC 58.934 43.478 0.00 0.00 0.00 3.18
568 605 3.762407 TGTACTAAAGCTGCCTGAACA 57.238 42.857 0.00 0.00 0.00 3.18
577 614 2.901839 AGCTGCCTGAACAAATTTGGAT 59.098 40.909 21.74 10.48 0.00 3.41
595 632 5.894298 TGGATCGTAGGGAGTAGTACTAA 57.106 43.478 3.61 0.00 0.00 2.24
603 640 9.125026 TCGTAGGGAGTAGTACTAATTTTTAGG 57.875 37.037 3.61 3.88 0.00 2.69
606 643 6.618610 AGGGAGTAGTACTAATTTTTAGGGGG 59.381 42.308 3.61 0.00 0.00 5.40
609 646 8.373981 GGAGTAGTACTAATTTTTAGGGGGATC 58.626 40.741 3.61 0.00 0.00 3.36
610 647 8.865244 AGTAGTACTAATTTTTAGGGGGATCA 57.135 34.615 3.61 0.00 0.00 2.92
711 755 6.655078 AAGCTGTGTCAACTAATTTGGATT 57.345 33.333 0.00 0.00 35.69 3.01
713 757 5.047802 AGCTGTGTCAACTAATTTGGATTGG 60.048 40.000 0.00 0.00 35.69 3.16
723 767 6.122964 ACTAATTTGGATTGGAAGGAGTAGC 58.877 40.000 0.00 0.00 0.00 3.58
728 772 4.298626 TGGATTGGAAGGAGTAGCACTAT 58.701 43.478 0.00 0.00 0.00 2.12
841 1316 3.071874 TCCTGCACAATAGAACCCTTG 57.928 47.619 0.00 0.00 0.00 3.61
868 1343 1.211703 TGCAACAACTGGAACCTCTCA 59.788 47.619 0.00 0.00 0.00 3.27
974 1449 2.611974 AATCAAGCAACGTTTAGCCG 57.388 45.000 0.00 0.00 0.00 5.52
975 1450 0.168128 ATCAAGCAACGTTTAGCCGC 59.832 50.000 0.00 0.00 0.00 6.53
976 1451 1.442017 CAAGCAACGTTTAGCCGCC 60.442 57.895 0.00 0.00 0.00 6.13
1322 1798 2.879462 GCGGTCATCGTCCACGTC 60.879 66.667 0.00 0.00 41.72 4.34
1575 2053 1.166531 GGTCTGGTCTGGTTGTGCAC 61.167 60.000 10.75 10.75 0.00 4.57
1709 2187 4.479993 CGGCTGCCTCTCCCTTGG 62.480 72.222 17.92 0.00 0.00 3.61
1792 2270 2.751166 TTGAAGGCAGTGAGAGTAGC 57.249 50.000 0.00 0.00 0.00 3.58
1844 2323 4.156455 ACAGGAGAAGCAGAAAACAAGA 57.844 40.909 0.00 0.00 0.00 3.02
1854 2336 3.625938 CAGAAAACAAGACTGCAAGAGC 58.374 45.455 0.00 0.00 42.57 4.09
1910 2393 8.131100 CAGAAAAGTTCAGCAGAAACTTCAATA 58.869 33.333 10.37 0.00 35.08 1.90
1952 2466 5.690409 AGGATATATTACGTGCGTTGTTCAG 59.310 40.000 1.66 0.00 0.00 3.02
1977 2491 2.707257 TGATGCATCCTCCAATGAGCTA 59.293 45.455 23.67 0.00 37.29 3.32
1981 2495 3.906218 TGCATCCTCCAATGAGCTATACT 59.094 43.478 0.00 0.00 37.29 2.12
1983 2497 4.622695 GCATCCTCCAATGAGCTATACTCC 60.623 50.000 0.00 0.00 45.61 3.85
1985 2499 4.155709 TCCTCCAATGAGCTATACTCCTG 58.844 47.826 0.00 0.00 45.61 3.86
1986 2500 3.900601 CCTCCAATGAGCTATACTCCTGT 59.099 47.826 0.00 0.00 45.61 4.00
1987 2501 4.262377 CCTCCAATGAGCTATACTCCTGTG 60.262 50.000 0.00 0.00 45.61 3.66
1988 2502 4.290093 TCCAATGAGCTATACTCCTGTGT 58.710 43.478 0.00 0.00 45.61 3.72
1989 2503 5.454966 TCCAATGAGCTATACTCCTGTGTA 58.545 41.667 0.00 0.00 45.61 2.90
1991 2505 5.215903 CAATGAGCTATACTCCTGTGTACG 58.784 45.833 0.00 0.00 45.61 3.67
1992 2506 3.882444 TGAGCTATACTCCTGTGTACGT 58.118 45.455 0.00 0.00 45.61 3.57
1993 2507 5.027293 TGAGCTATACTCCTGTGTACGTA 57.973 43.478 0.00 0.00 45.61 3.57
1994 2508 5.618236 TGAGCTATACTCCTGTGTACGTAT 58.382 41.667 0.00 0.00 45.61 3.06
2000 2611 6.874288 ATACTCCTGTGTACGTATAGGTTC 57.126 41.667 17.59 0.00 0.00 3.62
2037 2648 0.179121 CGCACGGTAATCAGTAGCCA 60.179 55.000 0.00 0.00 0.00 4.75
2038 2649 1.571919 GCACGGTAATCAGTAGCCAG 58.428 55.000 0.00 0.00 0.00 4.85
2039 2650 1.136305 GCACGGTAATCAGTAGCCAGA 59.864 52.381 0.00 0.00 0.00 3.86
2040 2651 2.810650 CACGGTAATCAGTAGCCAGAC 58.189 52.381 0.00 0.00 0.00 3.51
2082 2693 4.115199 GCGGGTGGCTCATCCCTT 62.115 66.667 0.00 0.00 41.40 3.95
2098 2709 6.985225 TCATCCCTTTCCCATATTTTCTTCT 58.015 36.000 0.00 0.00 0.00 2.85
2099 2710 7.421684 TCATCCCTTTCCCATATTTTCTTCTT 58.578 34.615 0.00 0.00 0.00 2.52
2100 2711 7.561356 TCATCCCTTTCCCATATTTTCTTCTTC 59.439 37.037 0.00 0.00 0.00 2.87
2114 2725 3.878778 TCTTCTTCAGATTTAGCTGCCC 58.121 45.455 0.00 0.00 35.86 5.36
2144 2755 0.319083 ATACCGGAGCACACGAAACA 59.681 50.000 9.46 0.00 0.00 2.83
2145 2756 0.319083 TACCGGAGCACACGAAACAT 59.681 50.000 9.46 0.00 0.00 2.71
2146 2757 0.319083 ACCGGAGCACACGAAACATA 59.681 50.000 9.46 0.00 0.00 2.29
2147 2758 1.066430 ACCGGAGCACACGAAACATAT 60.066 47.619 9.46 0.00 0.00 1.78
2436 3047 2.203480 GGGAAGTGCCAGTGCCAA 60.203 61.111 0.00 0.00 38.95 4.52
2437 3048 1.607467 GGGAAGTGCCAGTGCCAAT 60.607 57.895 0.00 0.00 38.95 3.16
2445 3056 2.693762 CCAGTGCCAATGCGTCCAG 61.694 63.158 0.00 0.00 41.78 3.86
2498 3109 3.822167 GCCGAGAGAGTAGTAATAAGGCT 59.178 47.826 0.00 0.00 37.97 4.58
2499 3110 4.320641 GCCGAGAGAGTAGTAATAAGGCTG 60.321 50.000 0.00 0.00 37.97 4.85
2500 3111 4.216687 CCGAGAGAGTAGTAATAAGGCTGG 59.783 50.000 0.00 0.00 0.00 4.85
2501 3112 4.822896 CGAGAGAGTAGTAATAAGGCTGGT 59.177 45.833 0.00 0.00 0.00 4.00
2502 3113 5.049267 CGAGAGAGTAGTAATAAGGCTGGTC 60.049 48.000 0.00 0.00 0.00 4.02
2503 3114 5.767670 AGAGAGTAGTAATAAGGCTGGTCA 58.232 41.667 0.00 0.00 0.00 4.02
2504 3115 6.377912 AGAGAGTAGTAATAAGGCTGGTCAT 58.622 40.000 0.00 0.00 0.00 3.06
2505 3116 7.527796 AGAGAGTAGTAATAAGGCTGGTCATA 58.472 38.462 0.00 0.00 0.00 2.15
2506 3117 7.668052 AGAGAGTAGTAATAAGGCTGGTCATAG 59.332 40.741 0.00 0.00 0.00 2.23
2507 3118 7.299134 AGAGTAGTAATAAGGCTGGTCATAGT 58.701 38.462 0.00 0.00 0.00 2.12
2508 3119 7.231722 AGAGTAGTAATAAGGCTGGTCATAGTG 59.768 40.741 0.00 0.00 0.00 2.74
2509 3120 5.552870 AGTAATAAGGCTGGTCATAGTGG 57.447 43.478 0.00 0.00 0.00 4.00
2510 3121 3.864789 AATAAGGCTGGTCATAGTGGG 57.135 47.619 0.00 0.00 0.00 4.61
2511 3122 2.561209 TAAGGCTGGTCATAGTGGGA 57.439 50.000 0.00 0.00 0.00 4.37
2512 3123 1.668826 AAGGCTGGTCATAGTGGGAA 58.331 50.000 0.00 0.00 0.00 3.97
2513 3124 1.207791 AGGCTGGTCATAGTGGGAAG 58.792 55.000 0.00 0.00 0.00 3.46
2514 3125 0.912486 GGCTGGTCATAGTGGGAAGT 59.088 55.000 0.00 0.00 0.00 3.01
2515 3126 2.116238 GGCTGGTCATAGTGGGAAGTA 58.884 52.381 0.00 0.00 0.00 2.24
2516 3127 2.504175 GGCTGGTCATAGTGGGAAGTAA 59.496 50.000 0.00 0.00 0.00 2.24
2517 3128 3.532542 GCTGGTCATAGTGGGAAGTAAC 58.467 50.000 0.00 0.00 0.00 2.50
2518 3129 3.197983 GCTGGTCATAGTGGGAAGTAACT 59.802 47.826 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 7.754851 TCCCTTTTCCAGAAACTATAAACAC 57.245 36.000 0.00 0.00 0.00 3.32
169 182 8.530804 AGGGAGTAGTATAAACATAAACTCGT 57.469 34.615 0.00 0.00 0.00 4.18
170 183 8.081025 GGAGGGAGTAGTATAAACATAAACTCG 58.919 40.741 0.00 0.00 0.00 4.18
208 222 7.256756 TCCTAACGAACTCTAATACACTAGC 57.743 40.000 0.00 0.00 0.00 3.42
226 240 6.509418 TGTTGGTCAAATGCTTATCCTAAC 57.491 37.500 0.00 0.00 0.00 2.34
269 288 9.282247 GCAAAAGAGAACTTTATATCACACATG 57.718 33.333 0.00 0.00 44.32 3.21
272 291 9.677567 TTTGCAAAAGAGAACTTTATATCACAC 57.322 29.630 10.02 0.00 44.32 3.82
300 320 7.686438 ATGATATCAACTTTATGGCGCATAA 57.314 32.000 10.83 8.90 34.95 1.90
305 325 9.897744 AATACAAATGATATCAACTTTATGGCG 57.102 29.630 9.99 0.00 0.00 5.69
409 429 7.618137 AGTAGTGTATTAGGTTTCGTTGGAAT 58.382 34.615 0.00 0.00 30.88 3.01
411 431 6.350445 GGAGTAGTGTATTAGGTTTCGTTGGA 60.350 42.308 0.00 0.00 0.00 3.53
429 449 5.396436 CCCTCGGTTGAAATTATGGAGTAGT 60.396 44.000 0.00 0.00 0.00 2.73
444 464 3.003173 TCCCTGCTCCCTCGGTTG 61.003 66.667 0.00 0.00 0.00 3.77
456 476 0.954452 GTGCCTCAAAACAGTCCCTG 59.046 55.000 0.00 0.00 37.52 4.45
459 479 3.733443 ATTTGTGCCTCAAAACAGTCC 57.267 42.857 7.94 0.00 46.97 3.85
461 481 6.701400 GTGAATAATTTGTGCCTCAAAACAGT 59.299 34.615 7.94 0.38 46.97 3.55
467 487 6.489700 TCAAGAGTGAATAATTTGTGCCTCAA 59.510 34.615 0.00 0.00 0.00 3.02
509 529 4.507756 TGCGTCAATTAATTCAGATCGGAG 59.492 41.667 0.00 0.00 0.00 4.63
511 531 4.794248 TGCGTCAATTAATTCAGATCGG 57.206 40.909 0.00 0.00 0.00 4.18
512 532 5.799960 AGTTGCGTCAATTAATTCAGATCG 58.200 37.500 0.00 2.88 0.00 3.69
538 575 7.549488 CAGGCAGCTTTAGTACAACTTTAGTAT 59.451 37.037 0.00 0.00 0.00 2.12
554 591 3.134442 TCCAAATTTGTTCAGGCAGCTTT 59.866 39.130 16.73 0.00 0.00 3.51
559 596 2.890311 ACGATCCAAATTTGTTCAGGCA 59.110 40.909 16.73 0.00 0.00 4.75
562 599 4.941263 TCCCTACGATCCAAATTTGTTCAG 59.059 41.667 16.73 8.12 0.00 3.02
564 601 4.941873 ACTCCCTACGATCCAAATTTGTTC 59.058 41.667 16.73 11.74 0.00 3.18
567 604 5.671493 ACTACTCCCTACGATCCAAATTTG 58.329 41.667 11.40 11.40 0.00 2.32
568 605 5.952347 ACTACTCCCTACGATCCAAATTT 57.048 39.130 0.00 0.00 0.00 1.82
577 614 9.125026 CCTAAAAATTAGTACTACTCCCTACGA 57.875 37.037 0.91 0.00 0.00 3.43
595 632 6.845975 AGTTGCATATTGATCCCCCTAAAAAT 59.154 34.615 0.00 0.00 0.00 1.82
603 640 9.077885 TCTAAAAATAGTTGCATATTGATCCCC 57.922 33.333 0.00 0.00 0.00 4.81
679 723 5.986004 AGTTGACACAGCTTTAGTACAAC 57.014 39.130 12.58 12.58 36.57 3.32
681 725 8.556194 CAAATTAGTTGACACAGCTTTAGTACA 58.444 33.333 0.00 0.00 39.87 2.90
682 726 8.015658 CCAAATTAGTTGACACAGCTTTAGTAC 58.984 37.037 0.00 0.00 39.87 2.73
694 738 6.310941 TCCTTCCAATCCAAATTAGTTGACA 58.689 36.000 0.00 0.00 39.87 3.58
858 1333 5.307196 TGCCTTTATATAGGTGAGAGGTTCC 59.693 44.000 10.51 0.00 37.63 3.62
868 1343 3.458118 TGTGCCACTGCCTTTATATAGGT 59.542 43.478 10.51 0.00 37.63 3.08
926 1401 1.362224 AAAACTCTCCCTGCTGGCTA 58.638 50.000 3.63 0.00 0.00 3.93
1363 1839 1.930567 TTCGTCACCTTATTAGCGCC 58.069 50.000 2.29 0.00 0.00 6.53
1364 1840 3.000022 GTCTTTCGTCACCTTATTAGCGC 60.000 47.826 0.00 0.00 0.00 5.92
1365 1841 3.550678 GGTCTTTCGTCACCTTATTAGCG 59.449 47.826 0.00 0.00 0.00 4.26
1366 1842 3.550678 CGGTCTTTCGTCACCTTATTAGC 59.449 47.826 0.00 0.00 0.00 3.09
1367 1843 3.550678 GCGGTCTTTCGTCACCTTATTAG 59.449 47.826 0.00 0.00 0.00 1.73
1368 1844 3.514645 GCGGTCTTTCGTCACCTTATTA 58.485 45.455 0.00 0.00 0.00 0.98
1709 2187 4.918583 CACCGAGAGAGTGAGAAAAACTAC 59.081 45.833 0.00 0.00 37.42 2.73
1910 2393 4.371624 TCCTGACAAGATGGACAACAAT 57.628 40.909 0.00 0.00 0.00 2.71
1952 2466 1.880675 CATTGGAGGATGCATCAGAGC 59.119 52.381 27.25 10.57 35.22 4.09
1977 2491 5.767168 GGAACCTATACGTACACAGGAGTAT 59.233 44.000 20.81 8.36 34.58 2.12
1981 2495 3.949754 CTGGAACCTATACGTACACAGGA 59.050 47.826 20.81 3.74 32.25 3.86
1983 2497 3.949754 TCCTGGAACCTATACGTACACAG 59.050 47.826 0.00 0.00 0.00 3.66
1985 2499 4.989279 TTCCTGGAACCTATACGTACAC 57.011 45.455 4.68 0.00 0.00 2.90
1986 2500 5.018809 AGTTTCCTGGAACCTATACGTACA 58.981 41.667 9.04 0.00 0.00 2.90
1987 2501 5.588958 AGTTTCCTGGAACCTATACGTAC 57.411 43.478 9.04 1.29 0.00 3.67
1988 2502 5.127682 GGAAGTTTCCTGGAACCTATACGTA 59.872 44.000 9.04 0.00 44.11 3.57
1989 2503 4.081254 GGAAGTTTCCTGGAACCTATACGT 60.081 45.833 9.04 2.44 44.11 3.57
2098 2709 0.618458 ACGGGGCAGCTAAATCTGAA 59.382 50.000 0.00 0.00 36.19 3.02
2099 2710 0.107703 CACGGGGCAGCTAAATCTGA 60.108 55.000 0.00 0.00 36.19 3.27
2100 2711 0.107703 TCACGGGGCAGCTAAATCTG 60.108 55.000 0.00 0.00 37.15 2.90
2114 2725 2.199236 GCTCCGGTATTTAGTTCACGG 58.801 52.381 0.00 0.00 42.45 4.94
2147 2758 8.967918 CGAGACCCTATTTGGATTAGATGTATA 58.032 37.037 0.00 0.00 38.35 1.47
2164 2775 0.034380 CAGTGGAGACCGAGACCCTA 60.034 60.000 0.00 0.00 0.00 3.53
2436 3047 1.913951 TTCCATGGAGCTGGACGCAT 61.914 55.000 15.53 0.00 44.97 4.73
2437 3048 2.526450 CTTCCATGGAGCTGGACGCA 62.526 60.000 15.53 0.00 44.97 5.24
2445 3056 4.232310 GGAGTGCTTCCATGGAGC 57.768 61.111 22.16 22.16 46.01 4.70


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

AutoCloner maintained by Alex Coulton.