Multiple sequence alignment - TraesCS3A01G246600

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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 TraesCS3A01G246600 chr3A 100.000 2738 0 0 1 2738 464318741 464321478 0.000000e+00 5057
1 TraesCS3A01G246600 chr3A 71.522 460 118 10 1093 1546 66907967 66908419 8.010000e-21 111
2 TraesCS3A01G246600 chr3D 94.163 2193 78 19 557 2738 340416256 340414103 0.000000e+00 3295
3 TraesCS3A01G246600 chr3D 86.618 553 61 8 1 542 340418288 340417738 1.400000e-167 599
4 TraesCS3A01G246600 chr3D 71.800 461 118 10 1092 1546 58080799 58081253 1.330000e-23 121
5 TraesCS3A01G246600 chr3B 92.348 2091 84 26 689 2738 439334154 439332099 0.000000e+00 2905
6 TraesCS3A01G246600 chr3B 85.985 528 71 3 1 526 439340842 439340316 1.840000e-156 562
7 TraesCS3A01G246600 chr3B 71.429 462 118 11 1092 1546 90858382 90858836 2.880000e-20 110
8 TraesCS3A01G246600 chr3B 91.667 72 6 0 580 651 439340319 439340248 1.730000e-17 100
9 TraesCS3A01G246600 chr1B 80.478 502 80 12 1095 1589 649368730 649369220 4.310000e-98 368
10 TraesCS3A01G246600 chr1A 79.918 488 81 11 1104 1584 562784804 562785281 2.610000e-90 342
11 TraesCS3A01G246600 chr1D 79.424 486 81 13 1095 1572 469587034 469587508 2.630000e-85 326


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 TraesCS3A01G246600 chr3A 464318741 464321478 2737 False 5057 5057 100.0000 1 2738 1 chr3A.!!$F2 2737
1 TraesCS3A01G246600 chr3D 340414103 340418288 4185 True 1947 3295 90.3905 1 2738 2 chr3D.!!$R1 2737
2 TraesCS3A01G246600 chr3B 439332099 439334154 2055 True 2905 2905 92.3480 689 2738 1 chr3B.!!$R1 2049
3 TraesCS3A01G246600 chr3B 439340248 439340842 594 True 331 562 88.8260 1 651 2 chr3B.!!$R2 650

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
314 316 0.106894 GCCCGACATTTAGAGGGAGG 59.893 60.0 3.19 0.0 46.64 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 3555 0.378257 CTCAAATCGCAATGGGACCG 59.622 55.0 1.04 0.0 0.0 4.79 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
37 38 2.237534 GAGGTGGCAGAGGCAGAGTC 62.238 65.000 0.00 0.00 43.71 3.36
79 80 0.254462 GGCAGAAGAGGGGAAGAAGG 59.746 60.000 0.00 0.00 0.00 3.46
80 81 0.988063 GCAGAAGAGGGGAAGAAGGT 59.012 55.000 0.00 0.00 0.00 3.50
84 85 1.487142 GAAGAGGGGAAGAAGGTAGGC 59.513 57.143 0.00 0.00 0.00 3.93
87 88 1.688187 GGGGAAGAAGGTAGGCCGA 60.688 63.158 0.00 0.00 40.50 5.54
94 95 3.657038 AAGGTAGGCCGAGCGAGGA 62.657 63.158 9.52 0.00 40.50 3.71
128 129 8.404000 CGATTTTGAGAGATTTTGAATGGATCT 58.596 33.333 0.00 0.00 33.05 2.75
133 134 3.303049 AGATTTTGAATGGATCTGGCCC 58.697 45.455 0.00 0.00 0.00 5.80
163 164 0.821517 ACATGACTAATGCGTCCGGA 59.178 50.000 0.00 0.00 40.22 5.14
298 300 1.002624 TGTTCGGAATGTCCAGCCC 60.003 57.895 0.00 0.00 35.91 5.19
302 304 2.668632 GGAATGTCCAGCCCGACA 59.331 61.111 5.97 5.97 46.36 4.35
312 314 0.830648 CAGCCCGACATTTAGAGGGA 59.169 55.000 3.19 0.00 46.64 4.20
314 316 0.106894 GCCCGACATTTAGAGGGAGG 59.893 60.000 3.19 0.00 46.64 4.30
317 319 2.158943 CCCGACATTTAGAGGGAGGAAC 60.159 54.545 0.00 0.00 46.64 3.62
318 320 2.481449 CCGACATTTAGAGGGAGGAACG 60.481 54.545 0.00 0.00 0.00 3.95
319 321 2.426024 CGACATTTAGAGGGAGGAACGA 59.574 50.000 0.00 0.00 0.00 3.85
320 322 3.119245 CGACATTTAGAGGGAGGAACGAA 60.119 47.826 0.00 0.00 0.00 3.85
329 331 4.079327 AGAGGGAGGAACGAAGTCCTATTA 60.079 45.833 6.99 0.00 45.00 0.98
335 337 7.833183 GGGAGGAACGAAGTCCTATTATAGATA 59.167 40.741 0.03 0.00 45.00 1.98
362 364 1.153107 CCAGCCAGAATGCCGATGA 60.153 57.895 0.00 0.00 31.97 2.92
385 388 2.158813 GGAGATTATTCCGCTGTTGGGA 60.159 50.000 0.00 0.00 0.00 4.37
404 407 4.284746 TGGGATTTTGTGGGGTGTTATTTC 59.715 41.667 0.00 0.00 0.00 2.17
413 416 4.021456 GTGGGGTGTTATTTCCAAGGAAAG 60.021 45.833 18.20 0.00 45.66 2.62
446 449 3.007635 GCAGTAAAATAGTGTCGGCCTT 58.992 45.455 0.00 0.00 0.00 4.35
508 808 4.204573 GTCATTAGCGAGACGTTGTACATC 59.795 45.833 0.00 0.00 0.00 3.06
518 818 8.013947 GCGAGACGTTGTACATCTATCTATTTA 58.986 37.037 0.00 0.00 0.00 1.40
544 2079 8.581253 ACAAGACAAATTTTAATAGGCTAGCT 57.419 30.769 15.72 3.22 0.00 3.32
545 2080 9.681062 ACAAGACAAATTTTAATAGGCTAGCTA 57.319 29.630 15.72 5.54 0.00 3.32
547 2082 9.907229 AAGACAAATTTTAATAGGCTAGCTAGT 57.093 29.630 21.62 5.88 0.00 2.57
561 2096 8.999905 AGGCTAGCTAGTACTAGTATTTTTCT 57.000 34.615 26.76 17.00 41.49 2.52
562 2097 9.423964 AGGCTAGCTAGTACTAGTATTTTTCTT 57.576 33.333 26.76 7.72 41.49 2.52
563 2098 9.465985 GGCTAGCTAGTACTAGTATTTTTCTTG 57.534 37.037 26.76 16.18 41.49 3.02
564 2099 8.970293 GCTAGCTAGTACTAGTATTTTTCTTGC 58.030 37.037 26.76 20.53 41.49 4.01
567 2102 9.589111 AGCTAGTACTAGTATTTTTCTTGCTTC 57.411 33.333 26.76 8.00 35.65 3.86
568 2103 9.589111 GCTAGTACTAGTATTTTTCTTGCTTCT 57.411 33.333 26.76 0.00 35.65 2.85
571 2106 9.425577 AGTACTAGTATTTTTCTTGCTTCTCAC 57.574 33.333 5.75 0.00 0.00 3.51
572 2107 7.674471 ACTAGTATTTTTCTTGCTTCTCACC 57.326 36.000 0.00 0.00 0.00 4.02
573 2108 7.454225 ACTAGTATTTTTCTTGCTTCTCACCT 58.546 34.615 0.00 0.00 0.00 4.00
574 2109 6.566197 AGTATTTTTCTTGCTTCTCACCTG 57.434 37.500 0.00 0.00 0.00 4.00
575 2110 3.715628 TTTTTCTTGCTTCTCACCTGC 57.284 42.857 0.00 0.00 0.00 4.85
576 2111 2.645838 TTTCTTGCTTCTCACCTGCT 57.354 45.000 0.00 0.00 0.00 4.24
577 2112 3.769739 TTTCTTGCTTCTCACCTGCTA 57.230 42.857 0.00 0.00 0.00 3.49
578 2113 2.751166 TCTTGCTTCTCACCTGCTAC 57.249 50.000 0.00 0.00 0.00 3.58
579 2114 1.970640 TCTTGCTTCTCACCTGCTACA 59.029 47.619 0.00 0.00 0.00 2.74
580 2115 2.028658 TCTTGCTTCTCACCTGCTACAG 60.029 50.000 0.00 0.00 0.00 2.74
581 2116 1.632589 TGCTTCTCACCTGCTACAGA 58.367 50.000 0.00 0.00 32.44 3.41
582 2117 1.273606 TGCTTCTCACCTGCTACAGAC 59.726 52.381 0.00 0.00 32.44 3.51
718 2253 4.216411 ACGCACCATTAACCTTACTCAT 57.784 40.909 0.00 0.00 0.00 2.90
719 2254 5.347620 ACGCACCATTAACCTTACTCATA 57.652 39.130 0.00 0.00 0.00 2.15
725 2272 6.037172 CACCATTAACCTTACTCATACTGCAC 59.963 42.308 0.00 0.00 0.00 4.57
789 2343 3.090219 ATTCCCGCTACTCCACGCC 62.090 63.158 0.00 0.00 0.00 5.68
807 2361 3.454812 ACGCCCAGAGAATAACATAACCT 59.545 43.478 0.00 0.00 0.00 3.50
810 2364 4.747009 GCCCAGAGAATAACATAACCTCCC 60.747 50.000 0.00 0.00 0.00 4.30
861 2415 3.859414 AGCTCATCTCCAGCCGGC 61.859 66.667 21.89 21.89 37.63 6.13
864 2418 3.746949 CTCATCTCCAGCCGGCCAC 62.747 68.421 26.15 0.00 0.00 5.01
910 2464 3.071602 CCTCCCTATATCACCCAACACTG 59.928 52.174 0.00 0.00 0.00 3.66
922 2476 2.824880 AACACTGCCCGCCCTGTAA 61.825 57.895 0.00 0.00 0.00 2.41
945 2499 1.069090 CACACGCACTACCACCACT 59.931 57.895 0.00 0.00 0.00 4.00
946 2500 0.944311 CACACGCACTACCACCACTC 60.944 60.000 0.00 0.00 0.00 3.51
954 2511 1.997040 ACTACCACCACTCCTCTCTCT 59.003 52.381 0.00 0.00 0.00 3.10
968 2525 1.000955 TCTCTCTTGCAACCTCCGTTC 59.999 52.381 0.00 0.00 0.00 3.95
1419 2976 1.144936 CGAGAAGGAGCCCATCACC 59.855 63.158 0.00 0.00 0.00 4.02
1548 3105 3.710722 AAGGTGCTCCTGCCCGAG 61.711 66.667 8.37 0.00 44.35 4.63
1742 3299 1.833630 TGGCTACCTCTTGTGAGATGG 59.166 52.381 0.00 0.00 42.73 3.51
1764 3321 1.123077 TAGCTTGGGATGATCGCACT 58.877 50.000 11.98 9.41 39.12 4.40
1787 3344 1.829456 CCAGGACGCCATGGTCATA 59.171 57.895 14.67 0.00 38.70 2.15
1998 3555 2.092211 CGGTAGTGCGATTGAAAGACAC 59.908 50.000 0.00 0.00 0.00 3.67
2005 3562 1.606994 CGATTGAAAGACACGGTCCCA 60.607 52.381 1.06 0.00 32.18 4.37
2065 3622 3.294493 TGCCCGGCAAAAGACTGC 61.294 61.111 10.50 0.00 41.85 4.40
2159 3740 3.893813 AGATTTTAGCAGCCCCATTGATC 59.106 43.478 0.00 0.00 0.00 2.92
2227 3808 7.947282 AGTTTTCGGTTTTGGATTTATCAAGA 58.053 30.769 0.00 0.00 0.00 3.02
2232 3813 6.318648 TCGGTTTTGGATTTATCAAGAGATGG 59.681 38.462 0.00 0.00 35.67 3.51
2233 3814 6.318648 CGGTTTTGGATTTATCAAGAGATGGA 59.681 38.462 0.00 0.00 35.67 3.41
2234 3815 7.013655 CGGTTTTGGATTTATCAAGAGATGGAT 59.986 37.037 0.00 0.00 35.67 3.41
2235 3816 8.139989 GGTTTTGGATTTATCAAGAGATGGATG 58.860 37.037 0.00 0.00 35.67 3.51
2349 3932 5.268118 TGAGTGAGTCGATTCTATTGCAT 57.732 39.130 9.50 0.00 0.00 3.96
2350 3933 6.391227 TGAGTGAGTCGATTCTATTGCATA 57.609 37.500 9.50 0.00 0.00 3.14
2351 3934 6.442112 TGAGTGAGTCGATTCTATTGCATAG 58.558 40.000 9.50 0.00 0.00 2.23
2352 3935 6.039829 TGAGTGAGTCGATTCTATTGCATAGT 59.960 38.462 9.50 0.00 34.47 2.12
2353 3936 6.212235 AGTGAGTCGATTCTATTGCATAGTG 58.788 40.000 9.50 0.00 34.47 2.74
2354 3937 5.403766 GTGAGTCGATTCTATTGCATAGTGG 59.596 44.000 9.50 0.00 34.47 4.00
2376 3959 3.671008 AGTGGTACTGCATTGTACGAA 57.329 42.857 9.42 0.00 42.53 3.85
2401 3984 4.223800 CACCCTATGTGCGTGCAT 57.776 55.556 0.00 0.12 38.34 3.96
2402 3985 2.016961 CACCCTATGTGCGTGCATC 58.983 57.895 0.00 0.00 38.34 3.91
2403 3986 0.744057 CACCCTATGTGCGTGCATCA 60.744 55.000 0.00 0.00 38.34 3.07
2446 4029 4.916831 TGCAACACATTCTATTTTGCTTCG 59.083 37.500 6.22 0.00 42.48 3.79
2473 4056 7.139392 GTGAAAATGTTTAGTCTGGAAACCTC 58.861 38.462 0.00 0.00 36.20 3.85
2645 4228 4.143305 CCGGTAGCTTCGTACTACGTATAC 60.143 50.000 8.42 0.77 43.14 1.47
2646 4229 4.681942 CGGTAGCTTCGTACTACGTATACT 59.318 45.833 8.42 5.31 43.14 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 57 0.251634 CTTCCCCTCTTCTGCCTCAC 59.748 60.000 0.00 0.00 0.00 3.51
57 58 0.117140 TCTTCCCCTCTTCTGCCTCA 59.883 55.000 0.00 0.00 0.00 3.86
79 80 2.829458 AGTCCTCGCTCGGCCTAC 60.829 66.667 0.00 0.00 0.00 3.18
80 81 2.829003 CAGTCCTCGCTCGGCCTA 60.829 66.667 0.00 0.00 0.00 3.93
87 88 3.663815 ATCGTCCCCAGTCCTCGCT 62.664 63.158 0.00 0.00 0.00 4.93
94 95 2.257207 TCTCTCAAAATCGTCCCCAGT 58.743 47.619 0.00 0.00 0.00 4.00
133 134 0.739462 TAGTCATGTTGGCTTCGGCG 60.739 55.000 0.00 0.00 42.91 6.46
143 144 1.206132 TCCGGACGCATTAGTCATGTT 59.794 47.619 0.00 0.00 42.62 2.71
173 174 7.202038 CCCATATATGAGACAATACGGGATGAT 60.202 40.741 14.54 0.00 31.21 2.45
185 186 5.341169 TGTATCCAGCCCATATATGAGACA 58.659 41.667 14.54 4.00 0.00 3.41
210 212 2.209690 TATGGGCTATCCGACATCGA 57.790 50.000 2.09 0.00 43.02 3.59
211 213 4.855715 ATATATGGGCTATCCGACATCG 57.144 45.455 0.00 0.00 38.76 3.84
270 272 3.666274 ACATTCCGAACACCGTTGAATA 58.334 40.909 0.00 0.00 36.31 1.75
298 300 2.426024 TCGTTCCTCCCTCTAAATGTCG 59.574 50.000 0.00 0.00 0.00 4.35
302 304 3.451540 GGACTTCGTTCCTCCCTCTAAAT 59.548 47.826 0.00 0.00 32.24 1.40
314 316 9.452287 AGGAGTATCTATAATAGGACTTCGTTC 57.548 37.037 0.00 0.00 33.73 3.95
317 319 8.795842 ACAGGAGTATCTATAATAGGACTTCG 57.204 38.462 0.00 0.00 33.73 3.79
319 321 9.536510 GGAACAGGAGTATCTATAATAGGACTT 57.463 37.037 0.00 0.00 33.73 3.01
320 322 8.679725 TGGAACAGGAGTATCTATAATAGGACT 58.320 37.037 0.00 0.00 33.73 3.85
362 364 3.545703 CCAACAGCGGAATAATCTCCTT 58.454 45.455 0.00 0.00 32.82 3.36
385 388 5.221823 CCTTGGAAATAACACCCCACAAAAT 60.222 40.000 0.00 0.00 0.00 1.82
404 407 0.028110 GCGCGCTATTCTTTCCTTGG 59.972 55.000 26.67 0.00 0.00 3.61
413 416 0.650512 TTTACTGCAGCGCGCTATTC 59.349 50.000 36.02 24.73 43.06 1.75
487 498 4.352039 AGATGTACAACGTCTCGCTAATG 58.648 43.478 0.00 0.00 40.22 1.90
518 818 9.025041 AGCTAGCCTATTAAAATTTGTCTTGTT 57.975 29.630 12.13 0.00 0.00 2.83
536 2071 8.999905 AGAAAAATACTAGTACTAGCTAGCCT 57.000 34.615 26.54 17.81 41.49 4.58
537 2072 9.465985 CAAGAAAAATACTAGTACTAGCTAGCC 57.534 37.037 26.54 11.47 41.49 3.93
538 2073 8.970293 GCAAGAAAAATACTAGTACTAGCTAGC 58.030 37.037 26.54 6.62 41.49 3.42
541 2076 9.589111 GAAGCAAGAAAAATACTAGTACTAGCT 57.411 33.333 26.54 16.93 36.66 3.32
542 2077 9.589111 AGAAGCAAGAAAAATACTAGTACTAGC 57.411 33.333 26.54 11.19 36.66 3.42
545 2080 9.425577 GTGAGAAGCAAGAAAAATACTAGTACT 57.574 33.333 4.31 0.00 0.00 2.73
546 2081 8.657729 GGTGAGAAGCAAGAAAAATACTAGTAC 58.342 37.037 4.31 0.00 0.00 2.73
547 2082 8.594550 AGGTGAGAAGCAAGAAAAATACTAGTA 58.405 33.333 4.77 4.77 0.00 1.82
548 2083 7.389053 CAGGTGAGAAGCAAGAAAAATACTAGT 59.611 37.037 0.00 0.00 0.00 2.57
549 2084 7.625185 GCAGGTGAGAAGCAAGAAAAATACTAG 60.625 40.741 0.00 0.00 0.00 2.57
550 2085 6.149474 GCAGGTGAGAAGCAAGAAAAATACTA 59.851 38.462 0.00 0.00 0.00 1.82
551 2086 5.048434 GCAGGTGAGAAGCAAGAAAAATACT 60.048 40.000 0.00 0.00 0.00 2.12
552 2087 5.048434 AGCAGGTGAGAAGCAAGAAAAATAC 60.048 40.000 0.00 0.00 0.00 1.89
553 2088 5.072741 AGCAGGTGAGAAGCAAGAAAAATA 58.927 37.500 0.00 0.00 0.00 1.40
554 2089 3.893813 AGCAGGTGAGAAGCAAGAAAAAT 59.106 39.130 0.00 0.00 0.00 1.82
555 2090 3.290710 AGCAGGTGAGAAGCAAGAAAAA 58.709 40.909 0.00 0.00 0.00 1.94
556 2091 2.936202 AGCAGGTGAGAAGCAAGAAAA 58.064 42.857 0.00 0.00 0.00 2.29
557 2092 2.645838 AGCAGGTGAGAAGCAAGAAA 57.354 45.000 0.00 0.00 0.00 2.52
558 2093 2.368548 TGTAGCAGGTGAGAAGCAAGAA 59.631 45.455 0.00 0.00 0.00 2.52
559 2094 1.970640 TGTAGCAGGTGAGAAGCAAGA 59.029 47.619 0.00 0.00 0.00 3.02
560 2095 2.028658 TCTGTAGCAGGTGAGAAGCAAG 60.029 50.000 0.00 0.00 31.51 4.01
561 2096 1.970640 TCTGTAGCAGGTGAGAAGCAA 59.029 47.619 0.00 0.00 31.51 3.91
562 2097 1.273606 GTCTGTAGCAGGTGAGAAGCA 59.726 52.381 0.00 0.00 31.51 3.91
563 2098 1.548269 AGTCTGTAGCAGGTGAGAAGC 59.452 52.381 0.00 0.00 31.51 3.86
564 2099 3.951775 AAGTCTGTAGCAGGTGAGAAG 57.048 47.619 0.00 0.00 31.51 2.85
565 2100 4.100963 TGAAAAGTCTGTAGCAGGTGAGAA 59.899 41.667 0.00 0.00 31.51 2.87
566 2101 3.641436 TGAAAAGTCTGTAGCAGGTGAGA 59.359 43.478 0.00 0.00 31.51 3.27
567 2102 3.995199 TGAAAAGTCTGTAGCAGGTGAG 58.005 45.455 0.00 0.00 31.51 3.51
568 2103 4.623932 ATGAAAAGTCTGTAGCAGGTGA 57.376 40.909 0.00 0.00 31.51 4.02
569 2104 4.154918 GGAATGAAAAGTCTGTAGCAGGTG 59.845 45.833 0.00 0.00 31.51 4.00
570 2105 4.327680 GGAATGAAAAGTCTGTAGCAGGT 58.672 43.478 0.00 0.00 31.51 4.00
571 2106 3.691609 GGGAATGAAAAGTCTGTAGCAGG 59.308 47.826 0.00 0.00 31.51 4.85
572 2107 4.583871 AGGGAATGAAAAGTCTGTAGCAG 58.416 43.478 0.00 0.00 0.00 4.24
573 2108 4.579869 GAGGGAATGAAAAGTCTGTAGCA 58.420 43.478 0.00 0.00 0.00 3.49
574 2109 3.619038 CGAGGGAATGAAAAGTCTGTAGC 59.381 47.826 0.00 0.00 0.00 3.58
575 2110 4.184629 CCGAGGGAATGAAAAGTCTGTAG 58.815 47.826 0.00 0.00 0.00 2.74
576 2111 3.618997 GCCGAGGGAATGAAAAGTCTGTA 60.619 47.826 0.00 0.00 0.00 2.74
577 2112 2.876079 GCCGAGGGAATGAAAAGTCTGT 60.876 50.000 0.00 0.00 0.00 3.41
578 2113 1.740025 GCCGAGGGAATGAAAAGTCTG 59.260 52.381 0.00 0.00 0.00 3.51
579 2114 1.630878 AGCCGAGGGAATGAAAAGTCT 59.369 47.619 0.00 0.00 0.00 3.24
580 2115 2.115343 AGCCGAGGGAATGAAAAGTC 57.885 50.000 0.00 0.00 0.00 3.01
581 2116 2.586648 AAGCCGAGGGAATGAAAAGT 57.413 45.000 0.00 0.00 0.00 2.66
582 2117 3.084786 AGAAAGCCGAGGGAATGAAAAG 58.915 45.455 0.00 0.00 0.00 2.27
631 2166 0.790814 GCCGTGCAGAACTACTTGTC 59.209 55.000 0.00 0.00 0.00 3.18
658 2193 0.955428 GCACACGAGAATCTTGCCCA 60.955 55.000 0.00 0.00 38.00 5.36
660 2195 1.421485 CGCACACGAGAATCTTGCC 59.579 57.895 0.00 0.00 43.93 4.52
718 2253 0.321564 AAATGAGCCGCAGTGCAGTA 60.322 50.000 16.83 0.00 0.00 2.74
719 2254 1.580845 GAAATGAGCCGCAGTGCAGT 61.581 55.000 16.83 0.00 0.00 4.40
725 2272 0.864377 CGCAATGAAATGAGCCGCAG 60.864 55.000 0.00 0.00 0.00 5.18
758 2305 1.883084 GGGAATGTGCGCTACGAGG 60.883 63.158 9.73 0.00 0.00 4.63
781 2335 1.207089 TGTTATTCTCTGGGCGTGGAG 59.793 52.381 0.00 0.00 0.00 3.86
789 2343 4.503296 CGGGGAGGTTATGTTATTCTCTGG 60.503 50.000 0.00 0.00 0.00 3.86
861 2415 3.344176 GGTGGGGTTAGGGGGTGG 61.344 72.222 0.00 0.00 0.00 4.61
864 2418 4.705216 TGGGGTGGGGTTAGGGGG 62.705 72.222 0.00 0.00 0.00 5.40
910 2464 2.588034 GATCGTTACAGGGCGGGC 60.588 66.667 0.00 0.00 0.00 6.13
922 2476 0.388134 GTGGTAGTGCGTGTGATCGT 60.388 55.000 0.00 0.00 0.00 3.73
945 2499 1.270907 GGAGGTTGCAAGAGAGAGGA 58.729 55.000 0.00 0.00 0.00 3.71
946 2500 0.108424 CGGAGGTTGCAAGAGAGAGG 60.108 60.000 0.00 0.00 0.00 3.69
954 2511 1.140052 TCTGAAGAACGGAGGTTGCAA 59.860 47.619 0.00 0.00 36.24 4.08
968 2525 2.039405 GGCTGGTGCTGCTCTGAAG 61.039 63.158 0.00 0.00 39.59 3.02
1419 2976 2.726691 GGTGGCGACGATGTTGACG 61.727 63.158 0.00 0.00 0.00 4.35
1716 3273 3.239449 TCACAAGAGGTAGCCAAGAAGA 58.761 45.455 0.00 0.00 0.00 2.87
1742 3299 0.603975 GCGATCATCCCAAGCTACCC 60.604 60.000 0.00 0.00 0.00 3.69
1764 3321 2.717044 CCATGGCGTCCTGGTCGTA 61.717 63.158 14.41 5.26 0.00 3.43
1771 3328 2.172505 TGATTTATGACCATGGCGTCCT 59.827 45.455 13.04 0.00 31.35 3.85
1783 3340 7.209475 TCGAGTCTATGCACATTGATTTATGA 58.791 34.615 0.00 0.00 0.00 2.15
1787 3344 5.237996 CCATCGAGTCTATGCACATTGATTT 59.762 40.000 0.00 0.00 0.00 2.17
1998 3555 0.378257 CTCAAATCGCAATGGGACCG 59.622 55.000 1.04 0.00 0.00 4.79
2005 3562 1.068333 GGCACACACTCAAATCGCAAT 60.068 47.619 0.00 0.00 0.00 3.56
2069 3626 0.782384 CGTGAGTAAAGCACCGACAC 59.218 55.000 0.00 0.00 32.74 3.67
2147 3728 1.064166 CACTTCCAGATCAATGGGGCT 60.064 52.381 0.00 0.00 41.01 5.19
2159 3740 3.475566 TTGACCAGAGAACACTTCCAG 57.524 47.619 0.00 0.00 0.00 3.86
2227 3808 4.246143 ACTCCATGATTACCCATCCATCT 58.754 43.478 0.00 0.00 0.00 2.90
2232 3813 3.885297 CACCAACTCCATGATTACCCATC 59.115 47.826 0.00 0.00 0.00 3.51
2233 3814 3.902218 CACCAACTCCATGATTACCCAT 58.098 45.455 0.00 0.00 0.00 4.00
2234 3815 2.620367 GCACCAACTCCATGATTACCCA 60.620 50.000 0.00 0.00 0.00 4.51
2235 3816 2.024414 GCACCAACTCCATGATTACCC 58.976 52.381 0.00 0.00 0.00 3.69
2318 3899 0.741326 CGACTCACTCATCACCGGAT 59.259 55.000 9.46 0.00 0.00 4.18
2349 3932 3.835978 ACAATGCAGTACCACTACCACTA 59.164 43.478 0.00 0.00 0.00 2.74
2350 3933 2.637872 ACAATGCAGTACCACTACCACT 59.362 45.455 0.00 0.00 0.00 4.00
2351 3934 3.053831 ACAATGCAGTACCACTACCAC 57.946 47.619 0.00 0.00 0.00 4.16
2352 3935 3.367600 CGTACAATGCAGTACCACTACCA 60.368 47.826 9.86 0.00 40.94 3.25
2353 3936 3.119388 TCGTACAATGCAGTACCACTACC 60.119 47.826 9.86 0.00 40.94 3.18
2354 3937 4.100707 TCGTACAATGCAGTACCACTAC 57.899 45.455 9.86 0.00 40.94 2.73
2399 3982 2.831366 GCCGCTCCATGCACTGATG 61.831 63.158 0.00 0.00 43.06 3.07
2400 3983 2.515523 GCCGCTCCATGCACTGAT 60.516 61.111 0.00 0.00 43.06 2.90
2401 3984 3.963687 CTGCCGCTCCATGCACTGA 62.964 63.158 0.00 0.00 43.06 3.41
2402 3985 3.506096 CTGCCGCTCCATGCACTG 61.506 66.667 0.00 0.00 43.06 3.66
2446 4029 6.213677 GTTTCCAGACTAAACATTTTCACCC 58.786 40.000 0.00 0.00 36.92 4.61
2473 4056 5.122396 GTGAGTAGGCTGTGAAGTAAAATGG 59.878 44.000 0.00 0.00 0.00 3.16
2645 4228 7.397892 ACGATGAATCCCTGTATGATACTAG 57.602 40.000 4.03 0.42 0.00 2.57
2646 4229 7.232737 ACAACGATGAATCCCTGTATGATACTA 59.767 37.037 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.