Multiple sequence alignment - TraesCS3D01G244500

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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 TraesCS3D01G244500 chr3D 100.000 3078 0 0 1 3078 339848107 339845030 0.000000e+00 5685.0
1 TraesCS3D01G244500 chr3A 93.955 1588 64 9 1519 3076 464914872 464916457 0.000000e+00 2372.0
2 TraesCS3D01G244500 chr3A 93.744 1023 32 20 484 1488 464913862 464914870 0.000000e+00 1506.0
3 TraesCS3D01G244500 chr3A 85.317 504 23 21 1 482 464913351 464913825 9.990000e-130 473.0
4 TraesCS3D01G244500 chr3B 92.632 1208 40 23 274 1458 438538768 438537587 0.000000e+00 1692.0
5 TraesCS3D01G244500 chr3B 91.981 1060 38 8 1515 2555 438537579 438536548 0.000000e+00 1443.0
6 TraesCS3D01G244500 chr3B 91.475 305 10 9 1 289 438539107 438538803 3.700000e-109 405.0
7 TraesCS3D01G244500 chr3B 94.915 59 3 0 2617 2675 29250800 29250742 3.270000e-15 93.5
8 TraesCS3D01G244500 chr6B 90.642 374 33 2 2705 3078 331069927 331069556 2.130000e-136 496.0
9 TraesCS3D01G244500 chr7D 89.791 382 38 1 2698 3078 472803835 472803454 3.570000e-134 488.0
10 TraesCS3D01G244500 chr7D 88.859 377 39 2 2698 3073 509254657 509254283 7.780000e-126 460.0
11 TraesCS3D01G244500 chr2D 88.298 376 43 1 2703 3078 148973498 148973124 1.680000e-122 449.0
12 TraesCS3D01G244500 chr2D 86.702 376 47 3 2703 3078 352188230 352188602 6.140000e-112 414.0
13 TraesCS3D01G244500 chr7B 88.204 373 43 1 2703 3075 511470558 511470187 7.830000e-121 444.0
14 TraesCS3D01G244500 chr2A 87.766 376 43 3 2703 3078 470230639 470231011 1.310000e-118 436.0
15 TraesCS3D01G244500 chr2A 86.436 376 51 0 2703 3078 152598134 152598509 2.210000e-111 412.0
16 TraesCS3D01G244500 chr1A 85.020 247 36 1 987 1232 563685887 563685641 1.830000e-62 250.0
17 TraesCS3D01G244500 chr1D 84.524 252 36 3 979 1227 470076732 470076481 2.370000e-61 246.0
18 TraesCS3D01G244500 chr1B 86.818 220 29 0 1008 1227 652458941 652458722 2.370000e-61 246.0
19 TraesCS3D01G244500 chr5A 85.714 210 30 0 1019 1228 383883145 383882936 3.990000e-54 222.0
20 TraesCS3D01G244500 chr5A 80.861 209 38 2 1021 1228 526393850 526394057 2.460000e-36 163.0
21 TraesCS3D01G244500 chr5D 84.689 209 32 0 1019 1227 291501065 291500857 3.110000e-50 209.0
22 TraesCS3D01G244500 chr5B 84.689 209 32 0 1019 1227 332202989 332202781 3.110000e-50 209.0
23 TraesCS3D01G244500 chr6D 87.324 71 6 2 2603 2673 29637490 29637423 9.150000e-11 78.7


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 TraesCS3D01G244500 chr3D 339845030 339848107 3077 True 5685.000000 5685 100.000000 1 3078 1 chr3D.!!$R1 3077
1 TraesCS3D01G244500 chr3A 464913351 464916457 3106 False 1450.333333 2372 91.005333 1 3076 3 chr3A.!!$F1 3075
2 TraesCS3D01G244500 chr3B 438536548 438539107 2559 True 1180.000000 1692 92.029333 1 2555 3 chr3B.!!$R2 2554

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
409 480 0.587242 CGCCGTGCTTGATCGAAATG 60.587 55.0 0.00 0.0 0.0 2.32 F
1471 1622 0.445436 CAACTGCAGATGTCCTTCGC 59.555 55.0 23.35 0.0 0.0 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1637 1792 0.759436 ATGGCCCGGTACCTACAGAG 60.759 60.0 10.9 0.0 0.00 3.35 R
2974 3159 0.319641 AAGCTGGTCGAACCGAGAAC 60.320 55.0 0.0 0.0 42.58 3.01 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
130 133 3.119849 GCACGAGTTTTTCAGCATATGGT 60.120 43.478 0.40 0.40 0.00 3.55
150 153 3.042887 GTTTTGGACGACAATGTTCTGC 58.957 45.455 0.00 0.00 39.21 4.26
169 172 8.210265 TGTTCTGCACTGTATAATGGATGATTA 58.790 33.333 0.00 0.00 0.00 1.75
205 208 5.577835 CAGTTTGGTCGAAACATGAGAAAA 58.422 37.500 12.30 0.00 45.69 2.29
229 243 5.517322 AACCTCGTATCTCCTATTGTGAC 57.483 43.478 0.00 0.00 0.00 3.67
247 261 6.249035 TGTGACGGGATTTGTCTTAATTTC 57.751 37.500 0.00 0.00 37.26 2.17
292 309 9.329913 CTGTCATTGTTTTCGTATCTTTTAAGG 57.670 33.333 0.00 0.00 0.00 2.69
296 313 6.490566 TGTTTTCGTATCTTTTAAGGAGGC 57.509 37.500 0.00 0.00 0.00 4.70
340 411 4.511082 GTGGCTGTACCGTACAAGTAAAAA 59.489 41.667 12.39 0.00 43.94 1.94
368 439 0.833949 GCCCTAGAACTCTTCCCCTG 59.166 60.000 0.00 0.00 0.00 4.45
378 449 9.762381 CTAGAACTCTTCCCCTGATATTATAGT 57.238 37.037 0.00 0.00 0.00 2.12
396 467 1.445410 TACTAGCTTGTGCGCCGTG 60.445 57.895 11.27 0.00 45.42 4.94
409 480 0.587242 CGCCGTGCTTGATCGAAATG 60.587 55.000 0.00 0.00 0.00 2.32
531 644 4.655762 TGCTACTACTACATGAAGCCAG 57.344 45.455 0.00 0.00 0.00 4.85
538 651 2.026822 ACTACATGAAGCCAGGTCAAGG 60.027 50.000 0.00 0.00 38.39 3.61
615 729 3.254060 AGAGTCGTTGACACATGTATGC 58.746 45.455 0.00 0.00 34.60 3.14
729 844 3.966543 CCTCCCCACCACACCACC 61.967 72.222 0.00 0.00 0.00 4.61
883 1014 3.697190 TTAGCTCAAGAGGGAGAGGAT 57.303 47.619 0.00 0.00 37.05 3.24
914 1045 0.763223 GCGGGAAGGGGAAGGAGATA 60.763 60.000 0.00 0.00 0.00 1.98
915 1046 1.802553 CGGGAAGGGGAAGGAGATAA 58.197 55.000 0.00 0.00 0.00 1.75
916 1047 2.124411 CGGGAAGGGGAAGGAGATAAA 58.876 52.381 0.00 0.00 0.00 1.40
917 1048 2.508300 CGGGAAGGGGAAGGAGATAAAA 59.492 50.000 0.00 0.00 0.00 1.52
918 1049 3.138468 CGGGAAGGGGAAGGAGATAAAAT 59.862 47.826 0.00 0.00 0.00 1.82
919 1050 4.730966 GGGAAGGGGAAGGAGATAAAATC 58.269 47.826 0.00 0.00 0.00 2.17
920 1051 4.168088 GGGAAGGGGAAGGAGATAAAATCA 59.832 45.833 0.00 0.00 0.00 2.57
921 1052 5.380900 GGAAGGGGAAGGAGATAAAATCAG 58.619 45.833 0.00 0.00 0.00 2.90
922 1053 5.132816 GGAAGGGGAAGGAGATAAAATCAGA 59.867 44.000 0.00 0.00 0.00 3.27
923 1054 6.183361 GGAAGGGGAAGGAGATAAAATCAGAT 60.183 42.308 0.00 0.00 0.00 2.90
1244 1385 3.272551 AGGTACCAATACTCTCCACCTCT 59.727 47.826 15.94 0.00 28.84 3.69
1310 1451 1.072331 TGCCTGTCCACCTCTTTCTTC 59.928 52.381 0.00 0.00 0.00 2.87
1311 1452 1.349357 GCCTGTCCACCTCTTTCTTCT 59.651 52.381 0.00 0.00 0.00 2.85
1357 1498 7.320399 TCAGTTTAGTTTAGCTTGATCGATCA 58.680 34.615 23.99 23.99 34.44 2.92
1358 1499 7.981789 TCAGTTTAGTTTAGCTTGATCGATCAT 59.018 33.333 27.75 16.13 36.56 2.45
1359 1500 9.249457 CAGTTTAGTTTAGCTTGATCGATCATA 57.751 33.333 27.75 15.10 36.56 2.15
1395 1546 3.340814 AACTCAAGGACTTGCGATGAT 57.659 42.857 8.84 0.00 40.24 2.45
1471 1622 0.445436 CAACTGCAGATGTCCTTCGC 59.555 55.000 23.35 0.00 0.00 4.70
1474 1625 0.725686 CTGCAGATGTCCTTCGCAAG 59.274 55.000 8.42 0.00 31.10 4.01
1488 1639 4.514401 CTTCGCAAGTAGGGGTATCTTTT 58.486 43.478 0.00 0.00 39.48 2.27
1489 1640 4.563140 TCGCAAGTAGGGGTATCTTTTT 57.437 40.909 0.00 0.00 39.48 1.94
1611 1766 0.986992 ATCACTTTACGTACGTGCGC 59.013 50.000 30.25 0.00 34.88 6.09
1637 1792 2.815647 CACCCGCGGCTCTTTCTC 60.816 66.667 22.85 0.00 0.00 2.87
1639 1794 2.202810 CCCGCGGCTCTTTCTCTC 60.203 66.667 22.85 0.00 0.00 3.20
1879 2036 4.379243 CGCCACCGCACCTTCTCT 62.379 66.667 0.00 0.00 34.03 3.10
1978 2135 0.678048 GCAAGAAGGCCCTCGACATT 60.678 55.000 0.00 0.00 0.00 2.71
2047 2204 2.522436 AAGGACGACGTCACCCCA 60.522 61.111 27.77 0.00 33.68 4.96
2059 2216 2.770904 ACCCCAGTGAACACGGGT 60.771 61.111 22.55 19.04 43.77 5.28
2168 2339 1.996898 TGTTGCGACCGTGATGATTAC 59.003 47.619 0.45 0.00 0.00 1.89
2253 2433 2.099141 ACAGCGTGTAGTACTACCGA 57.901 50.000 30.98 15.44 35.26 4.69
2369 2549 1.647084 AAAAACGCGTCAGGCTGTC 59.353 52.632 14.44 8.16 40.44 3.51
2408 2588 4.202050 GGCGCTTCATCATCAGGTAAAAAT 60.202 41.667 7.64 0.00 0.00 1.82
2500 2680 4.217159 ACGGCCGCGGAAGGATAC 62.217 66.667 33.48 9.05 0.00 2.24
2530 2710 8.633075 AATTTAAGAACATGATTATGCGTTGG 57.367 30.769 0.00 0.00 37.85 3.77
2643 2828 6.272822 AGCCAACTTTATTCATCAAAGTCC 57.727 37.500 1.31 0.00 43.62 3.85
2677 2862 4.747108 GGATACAACTCCGATCATGTGAAG 59.253 45.833 0.00 0.00 0.00 3.02
2696 2881 2.803956 AGCTGGGCTTTAAGGTTAACC 58.196 47.619 17.41 17.41 33.89 2.85
2697 2882 2.109304 AGCTGGGCTTTAAGGTTAACCA 59.891 45.455 26.26 3.80 33.89 3.67
2722 2907 1.308998 GTCATATTTGGCGAGTGGGG 58.691 55.000 0.00 0.00 0.00 4.96
2727 2912 0.331278 ATTTGGCGAGTGGGGAATGA 59.669 50.000 0.00 0.00 0.00 2.57
2758 2943 8.712285 AAATTAACATTTGAGAAGATGCATGG 57.288 30.769 2.46 0.00 30.89 3.66
2762 2947 4.583489 ACATTTGAGAAGATGCATGGATCC 59.417 41.667 22.14 4.20 0.00 3.36
2767 2952 3.563223 AGAAGATGCATGGATCCCAAAG 58.437 45.455 22.14 0.00 36.95 2.77
2769 2954 4.166725 AGAAGATGCATGGATCCCAAAGTA 59.833 41.667 22.14 0.00 36.95 2.24
2772 2957 2.309613 TGCATGGATCCCAAAGTATGC 58.690 47.619 20.29 20.29 36.95 3.14
2786 2971 6.813152 CCCAAAGTATGCCACTAGAAAAATTG 59.187 38.462 0.00 0.00 36.04 2.32
2792 2977 6.569179 ATGCCACTAGAAAAATTGTAACGT 57.431 33.333 0.00 0.00 0.00 3.99
2799 2984 9.199982 CACTAGAAAAATTGTAACGTCTAAGGA 57.800 33.333 0.00 0.00 0.00 3.36
2803 2988 5.750352 AAATTGTAACGTCTAAGGAGGGA 57.250 39.130 0.00 0.00 0.00 4.20
2816 3001 6.606395 GTCTAAGGAGGGACATCTGTTAACTA 59.394 42.308 7.22 0.00 33.19 2.24
2820 3005 4.470304 GGAGGGACATCTGTTAACTAAGGT 59.530 45.833 7.22 2.61 0.00 3.50
2832 3017 9.647918 TCTGTTAACTAAGGTAGATGATCTCAT 57.352 33.333 7.22 0.00 39.70 2.90
2873 3058 4.487714 TGGGATGAACACCTAATCAGAC 57.512 45.455 0.00 0.00 0.00 3.51
2895 3080 3.386932 AACTATGTGGCCCATTGATGT 57.613 42.857 17.69 8.39 34.86 3.06
2901 3086 2.166829 GTGGCCCATTGATGTACAACA 58.833 47.619 0.00 0.00 41.52 3.33
2910 3095 7.605449 CCCATTGATGTACAACAGATTCTTTT 58.395 34.615 5.92 0.00 41.52 2.27
2949 3134 5.779922 ACATGATATGCCAGATTTCATTGC 58.220 37.500 0.00 0.00 0.00 3.56
2974 3159 7.855904 GCTTGGAGTTATACGAAAAATGGTATG 59.144 37.037 0.00 0.00 32.05 2.39
3076 3261 4.155280 CGAACCACAGTTAACCCTATTTGG 59.845 45.833 0.88 0.00 35.94 3.28
3077 3262 5.318630 GAACCACAGTTAACCCTATTTGGA 58.681 41.667 0.88 0.00 35.94 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
130 133 2.685388 TGCAGAACATTGTCGTCCAAAA 59.315 40.909 0.00 0.00 36.44 2.44
150 153 8.712363 CGGAGTTTAATCATCCATTATACAGTG 58.288 37.037 0.00 0.00 33.51 3.66
205 208 6.338937 GTCACAATAGGAGATACGAGGTTTT 58.661 40.000 0.00 0.00 0.00 2.43
209 212 3.058155 CCGTCACAATAGGAGATACGAGG 60.058 52.174 0.00 0.00 0.00 4.63
211 214 2.882761 CCCGTCACAATAGGAGATACGA 59.117 50.000 0.00 0.00 0.00 3.43
212 215 2.882761 TCCCGTCACAATAGGAGATACG 59.117 50.000 0.00 0.00 0.00 3.06
213 216 5.470047 AATCCCGTCACAATAGGAGATAC 57.530 43.478 0.00 0.00 0.00 2.24
214 217 5.365605 ACAAATCCCGTCACAATAGGAGATA 59.634 40.000 0.00 0.00 0.00 1.98
216 219 3.517901 ACAAATCCCGTCACAATAGGAGA 59.482 43.478 0.00 0.00 0.00 3.71
217 220 3.871594 GACAAATCCCGTCACAATAGGAG 59.128 47.826 0.00 0.00 33.43 3.69
218 221 3.517901 AGACAAATCCCGTCACAATAGGA 59.482 43.478 0.00 0.00 35.77 2.94
219 222 3.873910 AGACAAATCCCGTCACAATAGG 58.126 45.455 0.00 0.00 35.77 2.57
220 223 6.978343 TTAAGACAAATCCCGTCACAATAG 57.022 37.500 0.00 0.00 35.77 1.73
221 224 7.931578 AATTAAGACAAATCCCGTCACAATA 57.068 32.000 0.00 0.00 35.77 1.90
229 243 6.034898 GTGCAATGAAATTAAGACAAATCCCG 59.965 38.462 0.00 0.00 32.46 5.14
247 261 6.151004 TGACAGAAAATACACATGTGCAATG 58.849 36.000 25.68 15.76 0.00 2.82
291 308 5.842907 AGAAAACAAAAACACTATGCCTCC 58.157 37.500 0.00 0.00 0.00 4.30
292 309 8.135529 ACTAAGAAAACAAAAACACTATGCCTC 58.864 33.333 0.00 0.00 0.00 4.70
296 313 7.920682 AGCCACTAAGAAAACAAAAACACTATG 59.079 33.333 0.00 0.00 0.00 2.23
340 411 6.181190 GGAAGAGTTCTAGGGCAAAACTATT 58.819 40.000 1.93 1.93 37.21 1.73
368 439 6.472808 GGCGCACAAGCTAGTACTATAATATC 59.527 42.308 10.83 0.00 39.10 1.63
378 449 1.445410 CACGGCGCACAAGCTAGTA 60.445 57.895 10.83 0.00 39.10 1.82
396 467 2.247311 ACGCAACATTTCGATCAAGC 57.753 45.000 0.00 0.00 0.00 4.01
409 480 1.370900 CTCAAGGCAGCAACGCAAC 60.371 57.895 0.00 0.00 0.00 4.17
531 644 2.998279 GCATGTGCCAGCCTTGACC 61.998 63.158 0.00 0.00 34.31 4.02
538 651 2.666619 GCGAATATAAGCATGTGCCAGC 60.667 50.000 0.57 0.00 43.38 4.85
586 700 4.324267 TGTGTCAACGACTCTCTATCTCA 58.676 43.478 0.00 0.00 33.15 3.27
592 706 4.738124 CATACATGTGTCAACGACTCTCT 58.262 43.478 9.11 0.00 33.15 3.10
615 729 2.184830 CCGGGCATGCATCTCTGTG 61.185 63.158 21.36 0.00 0.00 3.66
729 844 1.737201 GTGTTGGTTTCGTTGGGGG 59.263 57.895 0.00 0.00 0.00 5.40
734 849 0.948678 CGGATGGTGTTGGTTTCGTT 59.051 50.000 0.00 0.00 0.00 3.85
914 1045 7.393234 TGGTTTCCTACGATTTGATCTGATTTT 59.607 33.333 0.00 0.00 0.00 1.82
915 1046 6.884295 TGGTTTCCTACGATTTGATCTGATTT 59.116 34.615 0.00 0.00 0.00 2.17
916 1047 6.414732 TGGTTTCCTACGATTTGATCTGATT 58.585 36.000 0.00 0.00 0.00 2.57
917 1048 5.989477 TGGTTTCCTACGATTTGATCTGAT 58.011 37.500 0.00 0.00 0.00 2.90
918 1049 5.414789 TGGTTTCCTACGATTTGATCTGA 57.585 39.130 0.00 0.00 0.00 3.27
919 1050 5.050769 CGATGGTTTCCTACGATTTGATCTG 60.051 44.000 0.00 0.00 0.00 2.90
920 1051 5.050490 CGATGGTTTCCTACGATTTGATCT 58.950 41.667 0.00 0.00 0.00 2.75
921 1052 4.211374 CCGATGGTTTCCTACGATTTGATC 59.789 45.833 0.00 0.00 0.00 2.92
922 1053 4.127171 CCGATGGTTTCCTACGATTTGAT 58.873 43.478 0.00 0.00 0.00 2.57
923 1054 3.055675 ACCGATGGTTTCCTACGATTTGA 60.056 43.478 0.00 0.00 27.29 2.69
965 1106 3.036783 CTTCCTGCTGCTTCTGCGC 62.037 63.158 0.00 0.00 43.34 6.09
1244 1385 1.608590 CGGGCAAAAGAGAAAGAGCAA 59.391 47.619 0.00 0.00 0.00 3.91
1358 1499 9.524496 TCCTTGAGTTAGTCAATTACTACTGTA 57.476 33.333 2.71 0.00 44.44 2.74
1359 1500 8.305317 GTCCTTGAGTTAGTCAATTACTACTGT 58.695 37.037 2.71 0.00 44.44 3.55
1395 1546 1.531739 GCATGGCAACGGGAAAGGAA 61.532 55.000 0.00 0.00 42.51 3.36
1441 1592 5.798132 ACATCTGCAGTTGAGAATGAGTTA 58.202 37.500 27.42 0.00 0.00 2.24
1491 1642 4.901868 ACCCTACTTGCGTAGATCAAAAA 58.098 39.130 0.00 0.00 44.77 1.94
1492 1643 4.546829 ACCCTACTTGCGTAGATCAAAA 57.453 40.909 0.00 0.00 44.77 2.44
1493 1644 4.546829 AACCCTACTTGCGTAGATCAAA 57.453 40.909 0.00 0.00 44.77 2.69
1494 1645 5.597182 AGATAACCCTACTTGCGTAGATCAA 59.403 40.000 0.00 0.00 44.77 2.57
1495 1646 5.138276 AGATAACCCTACTTGCGTAGATCA 58.862 41.667 0.00 0.00 44.77 2.92
1496 1647 5.708877 AGATAACCCTACTTGCGTAGATC 57.291 43.478 0.78 0.00 44.77 2.75
1497 1648 6.294620 GCTAAGATAACCCTACTTGCGTAGAT 60.295 42.308 0.78 0.00 44.77 1.98
1498 1649 5.009410 GCTAAGATAACCCTACTTGCGTAGA 59.991 44.000 0.78 0.00 44.77 2.59
1499 1650 5.221130 GCTAAGATAACCCTACTTGCGTAG 58.779 45.833 0.00 0.00 42.24 3.51
1500 1651 4.646040 TGCTAAGATAACCCTACTTGCGTA 59.354 41.667 0.00 0.00 0.00 4.42
1501 1652 3.449737 TGCTAAGATAACCCTACTTGCGT 59.550 43.478 0.00 0.00 0.00 5.24
1502 1653 4.054780 TGCTAAGATAACCCTACTTGCG 57.945 45.455 0.00 0.00 0.00 4.85
1503 1654 6.990349 TGTATTGCTAAGATAACCCTACTTGC 59.010 38.462 0.00 0.00 0.00 4.01
1504 1655 8.958119 TTGTATTGCTAAGATAACCCTACTTG 57.042 34.615 0.00 0.00 0.00 3.16
1505 1656 9.561069 CATTGTATTGCTAAGATAACCCTACTT 57.439 33.333 0.00 0.00 0.00 2.24
1506 1657 8.714906 ACATTGTATTGCTAAGATAACCCTACT 58.285 33.333 0.00 0.00 0.00 2.57
1507 1658 8.774586 CACATTGTATTGCTAAGATAACCCTAC 58.225 37.037 0.00 0.00 0.00 3.18
1508 1659 7.444183 GCACATTGTATTGCTAAGATAACCCTA 59.556 37.037 0.00 0.00 35.74 3.53
1509 1660 6.263168 GCACATTGTATTGCTAAGATAACCCT 59.737 38.462 0.00 0.00 35.74 4.34
1510 1661 6.039270 TGCACATTGTATTGCTAAGATAACCC 59.961 38.462 0.00 0.00 39.62 4.11
1511 1662 7.026631 TGCACATTGTATTGCTAAGATAACC 57.973 36.000 0.00 0.00 39.62 2.85
1512 1663 8.562892 AGATGCACATTGTATTGCTAAGATAAC 58.437 33.333 0.00 0.00 39.62 1.89
1513 1664 8.681486 AGATGCACATTGTATTGCTAAGATAA 57.319 30.769 0.00 0.00 39.62 1.75
1514 1665 8.681486 AAGATGCACATTGTATTGCTAAGATA 57.319 30.769 0.00 0.00 39.62 1.98
1515 1666 7.578310 AAGATGCACATTGTATTGCTAAGAT 57.422 32.000 0.00 0.00 39.62 2.40
1516 1667 7.337689 AGAAAGATGCACATTGTATTGCTAAGA 59.662 33.333 0.00 0.00 39.62 2.10
1517 1668 7.431376 CAGAAAGATGCACATTGTATTGCTAAG 59.569 37.037 0.00 0.00 39.62 2.18
1633 1788 1.684248 GCCCGGTACCTACAGAGAGAA 60.684 57.143 10.90 0.00 0.00 2.87
1637 1792 0.759436 ATGGCCCGGTACCTACAGAG 60.759 60.000 10.90 0.00 0.00 3.35
1639 1794 1.046472 TGATGGCCCGGTACCTACAG 61.046 60.000 10.90 0.00 0.00 2.74
1879 2036 2.827190 AGCGCGGACGTCTCCATA 60.827 61.111 16.46 0.00 42.83 2.74
1918 2075 3.240134 GAGCACCTCCGTGAAGGCA 62.240 63.158 0.00 0.00 43.14 4.75
2026 2183 2.028484 GTGACGTCGTCCTTGCCA 59.972 61.111 22.05 0.26 0.00 4.92
2047 2204 2.111043 CAGCCACCCGTGTTCACT 59.889 61.111 1.53 0.00 0.00 3.41
2168 2339 5.327091 CAGAGCGTTTTGACCAATAATCAG 58.673 41.667 0.00 0.00 0.00 2.90
2293 2473 2.028484 GAACACAGACGCGGACCA 59.972 61.111 12.47 0.00 0.00 4.02
2361 2541 1.608590 ACCGAAAATTGTGACAGCCTG 59.391 47.619 0.00 0.00 0.00 4.85
2365 2545 3.853307 GCCTTGACCGAAAATTGTGACAG 60.853 47.826 0.00 0.00 0.00 3.51
2369 2549 1.685302 CGCCTTGACCGAAAATTGTG 58.315 50.000 0.00 0.00 0.00 3.33
2408 2588 3.014623 TCTTCATCGGAGTCGCTTCTAA 58.985 45.455 0.00 0.00 36.13 2.10
2555 2735 1.768870 CAATATCCTTCTCCCACCCGT 59.231 52.381 0.00 0.00 0.00 5.28
2626 2811 7.031372 CACCATGTGGACTTTGATGAATAAAG 58.969 38.462 5.96 0.00 38.52 1.85
2633 2818 3.564235 CACACCATGTGGACTTTGATG 57.436 47.619 5.96 0.00 44.27 3.07
2677 2862 2.521126 TGGTTAACCTTAAAGCCCAGC 58.479 47.619 24.78 0.00 36.82 4.85
2696 2881 3.941483 ACTCGCCAAATATGACCTCTTTG 59.059 43.478 0.00 0.00 0.00 2.77
2697 2882 3.941483 CACTCGCCAAATATGACCTCTTT 59.059 43.478 0.00 0.00 0.00 2.52
2713 2898 1.243902 TTTGTTCATTCCCCACTCGC 58.756 50.000 0.00 0.00 0.00 5.03
2758 2943 4.689612 TCTAGTGGCATACTTTGGGATC 57.310 45.455 0.00 0.00 40.89 3.36
2762 2947 7.378181 ACAATTTTTCTAGTGGCATACTTTGG 58.622 34.615 0.00 0.00 40.89 3.28
2767 2952 7.524065 ACGTTACAATTTTTCTAGTGGCATAC 58.476 34.615 0.00 0.00 0.00 2.39
2769 2954 6.430000 AGACGTTACAATTTTTCTAGTGGCAT 59.570 34.615 0.00 0.00 0.00 4.40
2772 2957 8.440833 CCTTAGACGTTACAATTTTTCTAGTGG 58.559 37.037 0.00 0.00 0.00 4.00
2786 2971 3.952967 AGATGTCCCTCCTTAGACGTTAC 59.047 47.826 0.00 0.00 35.71 2.50
2792 2977 5.590818 AGTTAACAGATGTCCCTCCTTAGA 58.409 41.667 8.61 0.00 0.00 2.10
2799 2984 6.500336 TCTACCTTAGTTAACAGATGTCCCT 58.500 40.000 8.61 0.00 0.00 4.20
2803 2988 9.427821 AGATCATCTACCTTAGTTAACAGATGT 57.572 33.333 21.46 13.77 40.05 3.06
2832 3017 2.827322 CAATTGTTGGAGGCAGGATCAA 59.173 45.455 0.00 0.00 0.00 2.57
2873 3058 3.448301 ACATCAATGGGCCACATAGTTTG 59.552 43.478 9.28 8.87 39.40 2.93
2915 3100 2.222678 GCATATCATGTTGCGAGAGTGG 59.777 50.000 0.00 0.00 0.00 4.00
2949 3134 8.889717 ACATACCATTTTTCGTATAACTCCAAG 58.110 33.333 0.00 0.00 0.00 3.61
2974 3159 0.319641 AAGCTGGTCGAACCGAGAAC 60.320 55.000 0.00 0.00 42.58 3.01
3013 3198 9.722056 GAGTATTTTAATTTGCTGTCATACTGG 57.278 33.333 0.00 0.00 0.00 4.00
3021 3206 9.474313 TCCCATTAGAGTATTTTAATTTGCTGT 57.526 29.630 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.