Multiple sequence alignment - TraesCS7A01G176000

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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 TraesCS7A01G176000 chr7A 100.000 2831 0 0 1 2831 129056799 129059629 0.000000e+00 5228
1 TraesCS7A01G176000 chr7A 84.722 360 47 8 1 354 128986851 128986494 1.250000e-93 353
2 TraesCS7A01G176000 chr7B 91.353 2070 110 22 809 2828 91290077 91292127 0.000000e+00 2767
3 TraesCS7A01G176000 chr7B 91.523 814 49 11 1 811 91287780 91288576 0.000000e+00 1103
4 TraesCS7A01G176000 chr7B 94.465 542 18 6 2295 2828 91294376 91294913 0.000000e+00 824
5 TraesCS7A01G176000 chr7B 90.523 612 33 12 203 811 91288651 91289240 0.000000e+00 785
6 TraesCS7A01G176000 chr7B 90.523 612 33 12 203 811 91293355 91293944 0.000000e+00 785
7 TraesCS7A01G176000 chr7B 90.253 554 34 11 261 811 91292744 91293280 0.000000e+00 706
8 TraesCS7A01G176000 chr7B 89.149 470 30 13 346 811 91289451 91289903 1.470000e-157 566
9 TraesCS7A01G176000 chr7B 82.961 358 57 4 1 354 91267664 91267307 1.270000e-83 320
10 TraesCS7A01G176000 chr7B 95.238 189 9 0 346 534 91294155 91294343 1.650000e-77 300
11 TraesCS7A01G176000 chr7B 80.165 242 30 13 128 354 385324511 385324273 6.270000e-37 165
12 TraesCS7A01G176000 chr7D 91.590 547 26 11 2295 2828 129973164 129973703 0.000000e+00 737
13 TraesCS7A01G176000 chr7D 83.209 268 38 3 64 324 593633542 593633809 3.640000e-59 239
14 TraesCS7A01G176000 chr1B 92.715 302 21 1 2530 2831 210208166 210207866 4.330000e-118 435
15 TraesCS7A01G176000 chr1B 77.809 356 57 16 18 354 33942131 33941779 1.720000e-47 200
16 TraesCS7A01G176000 chr1A 92.632 285 21 0 2544 2828 167153418 167153702 7.300000e-111 411
17 TraesCS7A01G176000 chr6D 84.928 345 43 5 18 354 153457751 153458094 9.710000e-90 340
18 TraesCS7A01G176000 chr6D 77.941 340 50 17 18 337 34921836 34922170 3.720000e-44 189
19 TraesCS7A01G176000 chr5B 81.818 352 45 12 18 354 54689796 54690143 7.720000e-71 278
20 TraesCS7A01G176000 chr1D 92.896 183 13 0 2649 2831 136948143 136947961 1.670000e-67 267
21 TraesCS7A01G176000 chr1D 80.000 355 42 16 1 339 116439239 116439580 4.710000e-58 235
22 TraesCS7A01G176000 chr1D 84.685 222 25 4 2295 2512 136950242 136950026 2.210000e-51 213
23 TraesCS7A01G176000 chr1D 77.876 339 52 13 18 337 57902207 57901873 3.720000e-44 189
24 TraesCS7A01G176000 chr1D 92.308 130 9 1 2530 2659 136949849 136949721 1.730000e-42 183
25 TraesCS7A01G176000 chr3B 76.751 357 59 15 18 354 74341503 74341855 8.060000e-41 178
26 TraesCS7A01G176000 chr2B 76.190 357 60 16 18 353 191083790 191083438 6.270000e-37 165


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 TraesCS7A01G176000 chr7A 129056799 129059629 2830 False 5228.0 5228 100.000000 1 2831 1 chr7A.!!$F1 2830
1 TraesCS7A01G176000 chr7B 91287780 91294913 7133 False 979.5 2767 91.628375 1 2828 8 chr7B.!!$F1 2827
2 TraesCS7A01G176000 chr7D 129973164 129973703 539 False 737.0 737 91.590000 2295 2828 1 chr7D.!!$F1 533
3 TraesCS7A01G176000 chr1D 136947961 136950242 2281 True 221.0 267 89.963000 2295 2831 3 chr1D.!!$R2 536

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
570 1236 0.303493 GCAAGACACGACGCTTTGAA 59.697 50.0 0.0 0.0 0.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1847 3370 0.457166 CGGCAATGAACACATGCAGG 60.457 55.0 0.0 0.0 0.0 4.85 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
49 50 0.541863 AAGCCCCTTCATGTACTCCG 59.458 55.000 0.00 0.00 0.00 4.63
74 75 2.281761 CTTGGCAGGTTCGGCAGT 60.282 61.111 0.00 0.00 43.03 4.40
88 89 2.856032 CAGTGCAAGTCGCCTTCG 59.144 61.111 0.00 0.00 41.33 3.79
183 184 4.000988 TCGCTCATTTCACCCTTACTTTC 58.999 43.478 0.00 0.00 0.00 2.62
229 230 5.416952 CCATGGCTCTGTTGTTTATCTTCTT 59.583 40.000 0.00 0.00 0.00 2.52
258 259 0.320421 GTCTAGCCACGGTGCTTTCA 60.320 55.000 6.25 0.00 42.75 2.69
279 280 3.727258 CATCCTGGCCGGGGAACA 61.727 66.667 30.97 11.91 36.37 3.18
280 281 3.411517 ATCCTGGCCGGGGAACAG 61.412 66.667 30.97 3.57 36.37 3.16
281 282 3.943137 ATCCTGGCCGGGGAACAGA 62.943 63.158 30.97 10.64 36.37 3.41
347 348 2.649331 TCTTCCTTAAGGCTTCGTCG 57.351 50.000 17.32 0.15 33.22 5.12
376 377 4.979197 GCTCCATACTTATCAACGACTCAG 59.021 45.833 0.00 0.00 0.00 3.35
503 1169 2.159184 AGCAGTTCGTCGACATCATGAT 60.159 45.455 17.16 1.18 0.00 2.45
504 1170 2.604914 GCAGTTCGTCGACATCATGATT 59.395 45.455 17.16 0.00 0.00 2.57
517 1183 2.023673 TCATGATTAAAGGCTTGCCGG 58.976 47.619 0.00 0.00 0.00 6.13
570 1236 0.303493 GCAAGACACGACGCTTTGAA 59.697 50.000 0.00 0.00 0.00 2.69
574 1240 1.983605 AGACACGACGCTTTGAATACG 59.016 47.619 0.00 0.00 0.00 3.06
602 1268 5.066505 GGGGTGTTGACAGATGATTGTATTC 59.933 44.000 0.00 0.00 0.00 1.75
617 1283 8.262715 TGATTGTATTCATTTCGTGTGTACAT 57.737 30.769 0.00 0.00 32.81 2.29
618 1284 9.372369 TGATTGTATTCATTTCGTGTGTACATA 57.628 29.630 0.00 0.00 32.81 2.29
643 1310 6.837471 AGGTGATTCGTATAGTTATCCCTC 57.163 41.667 0.00 0.00 0.00 4.30
695 2018 7.834881 ATAATTAGGATTCTAGTCGTGGACA 57.165 36.000 0.00 0.00 34.60 4.02
696 2019 6.540438 AATTAGGATTCTAGTCGTGGACAA 57.460 37.500 0.00 0.00 34.60 3.18
697 2020 5.988310 TTAGGATTCTAGTCGTGGACAAA 57.012 39.130 0.00 0.00 34.60 2.83
698 2021 4.457834 AGGATTCTAGTCGTGGACAAAG 57.542 45.455 0.00 0.00 34.60 2.77
699 2022 4.087182 AGGATTCTAGTCGTGGACAAAGA 58.913 43.478 0.00 0.00 34.60 2.52
700 2023 4.082136 AGGATTCTAGTCGTGGACAAAGAC 60.082 45.833 0.00 2.24 34.60 3.01
701 2024 2.983402 TCTAGTCGTGGACAAAGACG 57.017 50.000 0.00 0.00 39.65 4.18
702 2025 2.497138 TCTAGTCGTGGACAAAGACGA 58.503 47.619 0.00 0.00 42.10 4.20
710 2033 2.740447 GTGGACAAAGACGAACATACCC 59.260 50.000 0.00 0.00 0.00 3.69
727 2050 8.463055 AACATACCCCTGGACATGTTATATAT 57.537 34.615 14.73 0.00 38.77 0.86
728 2051 7.861629 ACATACCCCTGGACATGTTATATATG 58.138 38.462 0.00 5.50 31.62 1.78
740 2063 9.453572 GACATGTTATATATGAACACCCATGAT 57.546 33.333 0.00 0.00 39.51 2.45
741 2064 9.234827 ACATGTTATATATGAACACCCATGATG 57.765 33.333 10.26 0.00 39.51 3.07
742 2065 9.452287 CATGTTATATATGAACACCCATGATGA 57.548 33.333 7.06 0.00 39.51 2.92
743 2066 9.676861 ATGTTATATATGAACACCCATGATGAG 57.323 33.333 7.06 0.00 39.51 2.90
762 2085 1.583054 GGTGGATACCATCGTCTTGC 58.417 55.000 0.00 0.00 46.71 4.01
833 2333 2.888834 GAGCTCTCCTCCAATGAGTC 57.111 55.000 6.43 0.00 36.86 3.36
842 2342 2.029020 CCTCCAATGAGTCGAGTGTTCA 60.029 50.000 0.00 0.00 36.86 3.18
868 2368 2.369394 GAATCGGAGTTTGGCTTGGAT 58.631 47.619 0.00 0.00 0.00 3.41
910 2410 0.537188 AGTGTAGGCCTCGTGGATTG 59.463 55.000 9.68 0.00 34.57 2.67
932 2432 3.780054 CCGTTTTTGTAACGAAGTCGAG 58.220 45.455 7.87 0.00 45.00 4.04
936 2436 0.387622 TTGTAACGAAGTCGAGCCGG 60.388 55.000 7.87 0.00 45.00 6.13
983 2486 2.668632 GGTGATCCCGAACTGCCA 59.331 61.111 0.00 0.00 0.00 4.92
986 2489 0.804989 GTGATCCCGAACTGCCAAAG 59.195 55.000 0.00 0.00 0.00 2.77
1001 2504 1.341080 CAAAGCCCCAGTTTCACCAT 58.659 50.000 0.00 0.00 0.00 3.55
1014 2517 0.179020 TCACCATGGAATCCGCATCC 60.179 55.000 21.47 0.00 37.48 3.51
1015 2518 1.151450 ACCATGGAATCCGCATCCC 59.849 57.895 21.47 0.00 36.04 3.85
1072 2581 3.533720 CCGTCGAGGAGGCCATTA 58.466 61.111 5.01 0.00 45.00 1.90
1083 2592 1.451387 GGCCATTACCACCCTGACG 60.451 63.158 0.00 0.00 0.00 4.35
1138 2647 1.281960 CGCTTCTATGCCATGCTGC 59.718 57.895 0.00 0.00 0.00 5.25
1221 2736 2.030562 ACGGCGTTCAACTCAGGG 59.969 61.111 6.77 0.00 0.00 4.45
1352 2873 2.116772 ACGGAGGGACCAAGACGA 59.883 61.111 0.00 0.00 38.90 4.20
1353 2874 2.273912 ACGGAGGGACCAAGACGAC 61.274 63.158 0.00 0.00 38.90 4.34
1354 2875 1.977544 CGGAGGGACCAAGACGACT 60.978 63.158 0.00 0.00 38.90 4.18
1355 2876 1.592223 GGAGGGACCAAGACGACTG 59.408 63.158 0.00 0.00 38.79 3.51
1356 2877 1.592223 GAGGGACCAAGACGACTGG 59.408 63.158 0.00 0.00 0.00 4.00
1357 2878 0.898789 GAGGGACCAAGACGACTGGA 60.899 60.000 8.77 0.00 0.00 3.86
1361 2882 0.670854 GACCAAGACGACTGGAAGGC 60.671 60.000 8.77 0.00 40.17 4.35
1394 2915 0.605589 GACAACCGGAAGAACCCCAG 60.606 60.000 9.46 0.00 34.64 4.45
1557 3078 3.702048 GGAGCACCTGTACGGGCA 61.702 66.667 21.25 0.00 36.97 5.36
1584 3105 2.685380 AAGAGGGAGAGGCCGGTG 60.685 66.667 1.90 0.00 37.63 4.94
1587 3108 4.787280 AGGGAGAGGCCGGTGGAG 62.787 72.222 1.90 0.00 37.63 3.86
1647 3168 2.098280 CGACCTCGATCAGTTCATGTCT 59.902 50.000 0.00 0.00 43.02 3.41
1661 3182 4.927267 TCATGTCTAAGGTGGGTGAAAT 57.073 40.909 0.00 0.00 0.00 2.17
1676 3197 2.173569 GTGAAATATGGGGAGGAGCACT 59.826 50.000 0.00 0.00 0.00 4.40
1682 3203 2.107953 GGGAGGAGCACTGATCGC 59.892 66.667 0.00 0.00 0.00 4.58
1773 3296 5.401550 TCTGTTCTTCAGTTTGCTTGTTTG 58.598 37.500 0.00 0.00 43.97 2.93
1782 3305 1.350071 TTGCTTGTTTGGGCATGGAT 58.650 45.000 0.00 0.00 38.30 3.41
1789 3312 2.166050 TGTTTGGGCATGGATGATTTCG 59.834 45.455 0.00 0.00 0.00 3.46
1794 3317 2.746362 GGGCATGGATGATTTCGATCTC 59.254 50.000 0.00 0.00 0.00 2.75
1843 3366 6.897966 ACATATCCGATAGTATGGTGAGGATT 59.102 38.462 0.00 0.00 37.99 3.01
1854 3377 1.022735 GTGAGGATTCAGCCTGCATG 58.977 55.000 0.00 0.00 38.73 4.06
1875 3398 2.486203 GTGTTCATTGCCGGTAATGTCA 59.514 45.455 34.80 30.16 38.77 3.58
1876 3399 2.746904 TGTTCATTGCCGGTAATGTCAG 59.253 45.455 34.80 17.14 38.77 3.51
1877 3400 2.747446 GTTCATTGCCGGTAATGTCAGT 59.253 45.455 34.80 6.57 38.77 3.41
1945 3468 5.593909 TGTGCTGCCTAATTTATGCTGTATT 59.406 36.000 0.00 0.00 0.00 1.89
1947 3470 5.593909 TGCTGCCTAATTTATGCTGTATTGT 59.406 36.000 0.00 0.00 0.00 2.71
1948 3471 6.096705 TGCTGCCTAATTTATGCTGTATTGTT 59.903 34.615 0.00 0.00 0.00 2.83
2008 3531 0.388294 CTGCTCGATCCAGCTGATGA 59.612 55.000 17.39 5.01 39.97 2.92
2019 3542 1.469703 CAGCTGATGATGCAACGGAAA 59.530 47.619 8.42 0.00 0.00 3.13
2035 3558 2.420022 CGGAAAGCCACAGTAAAGGATG 59.580 50.000 0.00 0.00 0.00 3.51
2054 3577 8.915871 AAGGATGATTTTGTCAAAATACATCG 57.084 30.769 29.05 0.00 40.97 3.84
2056 3579 8.739039 AGGATGATTTTGTCAAAATACATCGAA 58.261 29.630 29.05 14.29 40.97 3.71
2057 3580 9.352784 GGATGATTTTGTCAAAATACATCGAAA 57.647 29.630 29.05 13.46 40.97 3.46
2060 3583 9.393249 TGATTTTGTCAAAATACATCGAAAGAC 57.607 29.630 20.82 7.11 41.49 3.01
2074 3597 2.706890 GAAAGACGGTCCTAATTGCCA 58.293 47.619 4.14 0.00 0.00 4.92
2123 3646 4.094294 TGGTACTGCGCTTGTGATAATTTC 59.906 41.667 9.73 0.00 0.00 2.17
2161 3684 0.462581 ATCTGCATGGTACTGGCACG 60.463 55.000 0.00 0.00 34.76 5.34
2207 3730 4.572389 CAGCAAGGGATGTGATACTGTAAC 59.428 45.833 0.00 0.00 0.00 2.50
2226 3749 7.016153 TGTAACCATTGTACTGATCCTTTCT 57.984 36.000 0.00 0.00 0.00 2.52
2232 3755 8.383175 ACCATTGTACTGATCCTTTCTAAGAAA 58.617 33.333 0.00 0.00 0.00 2.52
2264 3790 8.008513 TGAGGTGGTTATCAGATTCTAGTTAC 57.991 38.462 0.00 0.00 0.00 2.50
2270 3796 8.909923 TGGTTATCAGATTCTAGTTACGATTCA 58.090 33.333 0.00 0.00 0.00 2.57
2271 3797 9.915629 GGTTATCAGATTCTAGTTACGATTCAT 57.084 33.333 0.00 0.00 0.00 2.57
2293 3819 4.851639 AGAGGAAACTTGCCACTGATAT 57.148 40.909 0.00 0.00 44.43 1.63
2363 3910 7.703298 TGCAGTTTTTCTCAATCATGAAAAG 57.297 32.000 0.00 0.00 41.31 2.27
2484 6826 2.240160 ACCAGTCACCAAACCAAGTACA 59.760 45.455 0.00 0.00 0.00 2.90
2500 7022 9.547753 AACCAAGTACATGATCACATATTAGAC 57.452 33.333 0.00 0.00 35.09 2.59
2505 7027 9.716531 AGTACATGATCACATATTAGACCATTG 57.283 33.333 0.00 0.00 35.09 2.82
2685 8798 4.498682 GCATCATGTTGACTTATTCCAGCC 60.499 45.833 7.98 0.00 0.00 4.85
2828 8941 0.814457 TTGTTGCCCTGTGAACACAC 59.186 50.000 3.39 0.00 36.21 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.519013 GGCTTCAGGAAAGGAACACAT 58.481 47.619 0.00 0.00 35.37 3.21
15 16 1.478654 GGGCTTCAGGAAAGGAACACA 60.479 52.381 0.00 0.00 35.37 3.72
88 89 7.730364 TTAGGGAAGAGCAATTCGAAATATC 57.270 36.000 0.00 0.00 0.00 1.63
95 96 4.260375 CGACAATTAGGGAAGAGCAATTCG 60.260 45.833 0.00 0.00 0.00 3.34
99 100 3.695830 ACGACAATTAGGGAAGAGCAA 57.304 42.857 0.00 0.00 0.00 3.91
163 164 4.079253 TGGAAAGTAAGGGTGAAATGAGC 58.921 43.478 0.00 0.00 0.00 4.26
183 184 0.397564 AAGTTTTGCAATGCCCCTGG 59.602 50.000 1.53 0.00 0.00 4.45
258 259 3.252284 CCCCGGCCAGGATGCTAT 61.252 66.667 6.57 0.00 45.00 2.97
279 280 3.070018 CGAAGTTGCACCAGAGATTTCT 58.930 45.455 0.00 0.00 0.00 2.52
280 281 2.808543 ACGAAGTTGCACCAGAGATTTC 59.191 45.455 0.00 0.00 37.78 2.17
281 282 2.851195 ACGAAGTTGCACCAGAGATTT 58.149 42.857 0.00 0.00 37.78 2.17
314 315 7.391833 GCCTTAAGGAAGATACCAAATATGGAG 59.608 40.741 26.21 0.00 43.37 3.86
347 348 5.753438 TCGTTGATAAGTATGGAGCATCAAC 59.247 40.000 13.21 13.21 46.10 3.18
376 377 4.832590 ACACCTAGTACATCGACTATGC 57.167 45.455 0.00 0.00 39.39 3.14
503 1169 1.319614 GGATGCCGGCAAGCCTTTAA 61.320 55.000 36.33 6.47 0.00 1.52
504 1170 1.752694 GGATGCCGGCAAGCCTTTA 60.753 57.895 36.33 7.40 0.00 1.85
517 1183 2.489722 GGAACTCCTCAAAAGTGGATGC 59.510 50.000 0.00 0.00 0.00 3.91
570 1236 0.545787 TGTCAACACCCCCTCCGTAT 60.546 55.000 0.00 0.00 0.00 3.06
574 1240 0.035056 CATCTGTCAACACCCCCTCC 60.035 60.000 0.00 0.00 0.00 4.30
602 1268 7.946655 ATCACCTATATGTACACACGAAATG 57.053 36.000 0.00 0.00 0.00 2.32
617 1283 9.624373 GAGGGATAACTATACGAATCACCTATA 57.376 37.037 0.00 0.00 0.00 1.31
618 1284 8.337739 AGAGGGATAACTATACGAATCACCTAT 58.662 37.037 0.00 0.00 0.00 2.57
621 1287 6.208994 ACAGAGGGATAACTATACGAATCACC 59.791 42.308 0.00 0.00 0.00 4.02
637 1304 4.551671 ACATACTTGAGCTACAGAGGGAT 58.448 43.478 0.00 0.00 0.00 3.85
680 2003 3.504906 TCGTCTTTGTCCACGACTAGAAT 59.495 43.478 0.00 0.00 40.05 2.40
689 2012 2.740447 GGGTATGTTCGTCTTTGTCCAC 59.260 50.000 0.00 0.00 0.00 4.02
692 2015 3.000727 CAGGGGTATGTTCGTCTTTGTC 58.999 50.000 0.00 0.00 0.00 3.18
694 2017 2.027561 TCCAGGGGTATGTTCGTCTTTG 60.028 50.000 0.00 0.00 0.00 2.77
695 2018 2.027469 GTCCAGGGGTATGTTCGTCTTT 60.027 50.000 0.00 0.00 0.00 2.52
696 2019 1.553704 GTCCAGGGGTATGTTCGTCTT 59.446 52.381 0.00 0.00 0.00 3.01
697 2020 1.192428 GTCCAGGGGTATGTTCGTCT 58.808 55.000 0.00 0.00 0.00 4.18
698 2021 0.899720 TGTCCAGGGGTATGTTCGTC 59.100 55.000 0.00 0.00 0.00 4.20
699 2022 1.209504 CATGTCCAGGGGTATGTTCGT 59.790 52.381 0.00 0.00 0.00 3.85
700 2023 1.209504 ACATGTCCAGGGGTATGTTCG 59.790 52.381 0.00 0.00 31.58 3.95
701 2024 3.366052 AACATGTCCAGGGGTATGTTC 57.634 47.619 0.00 0.00 37.16 3.18
702 2025 6.780198 ATATAACATGTCCAGGGGTATGTT 57.220 37.500 18.29 18.29 40.95 2.71
710 2033 6.655003 GGGTGTTCATATATAACATGTCCAGG 59.345 42.308 0.00 0.00 38.95 4.45
727 2050 2.495155 CACCTCATCATGGGTGTTCA 57.505 50.000 14.23 0.00 45.52 3.18
740 2063 2.430694 CAAGACGATGGTATCCACCTCA 59.569 50.000 0.00 0.00 45.98 3.86
741 2064 2.803492 GCAAGACGATGGTATCCACCTC 60.803 54.545 0.00 0.00 45.98 3.85
742 2065 1.139058 GCAAGACGATGGTATCCACCT 59.861 52.381 0.00 0.00 45.98 4.00
743 2066 1.134521 TGCAAGACGATGGTATCCACC 60.135 52.381 0.00 0.00 46.00 4.61
747 2070 2.309528 TGGTGCAAGACGATGGTATC 57.690 50.000 0.00 0.00 0.00 2.24
752 2075 2.772568 TTGTTTGGTGCAAGACGATG 57.227 45.000 0.00 0.00 0.00 3.84
753 2076 5.643379 ATAATTGTTTGGTGCAAGACGAT 57.357 34.783 0.00 0.00 0.00 3.73
793 2117 3.383825 TCCTAATGGGCGAAGACTACTTC 59.616 47.826 0.00 0.00 46.21 3.01
830 2330 0.611062 TCGGGGATGAACACTCGACT 60.611 55.000 0.00 0.00 0.00 4.18
833 2333 1.571919 GATTCGGGGATGAACACTCG 58.428 55.000 0.00 0.00 0.00 4.18
868 2368 5.462530 TGTTCGGATCACTCTAACTTCAA 57.537 39.130 0.00 0.00 0.00 2.69
910 2410 2.033832 TCGACTTCGTTACAAAAACGGC 60.034 45.455 10.05 0.00 43.24 5.68
932 2432 4.821589 CAGAGGGAACGAGCCGGC 62.822 72.222 21.89 21.89 0.00 6.13
936 2436 4.201871 CGAGATATATCAGAGGGAACGAGC 60.202 50.000 15.08 0.00 0.00 5.03
968 2471 0.960364 GCTTTGGCAGTTCGGGATCA 60.960 55.000 0.00 0.00 38.54 2.92
983 2486 1.341080 CATGGTGAAACTGGGGCTTT 58.659 50.000 0.00 0.00 36.74 3.51
986 2489 0.541764 TTCCATGGTGAAACTGGGGC 60.542 55.000 12.58 0.00 36.74 5.80
1001 2504 3.087253 ACGGGGATGCGGATTCCA 61.087 61.111 17.08 0.00 34.77 3.53
1054 2563 2.792947 TAATGGCCTCCTCGACGGC 61.793 63.158 3.32 7.01 45.55 5.68
1072 2581 2.430367 GGCTTTCGTCAGGGTGGT 59.570 61.111 0.00 0.00 0.00 4.16
1083 2592 0.250513 ACTCCTCCATGTCGGCTTTC 59.749 55.000 0.00 0.00 33.14 2.62
1112 2621 2.104331 CATAGAAGCGGCGGACGT 59.896 61.111 9.78 0.00 46.52 4.34
1125 2634 3.028130 CCGTGCAGCATGGCATAG 58.972 61.111 21.05 0.00 46.92 2.23
1178 2693 0.172578 CCGTGCTGGATCGTACTTGA 59.827 55.000 0.00 0.00 42.00 3.02
1335 2856 2.116772 TCGTCTTGGTCCCTCCGT 59.883 61.111 0.00 0.00 39.52 4.69
1372 2893 0.949397 GGGTTCTTCCGGTTGTCAAC 59.051 55.000 7.20 7.20 37.00 3.18
1425 2946 3.432051 CTGATCGTCCAGCGTCCCC 62.432 68.421 0.00 0.00 42.13 4.81
1494 3015 0.759436 TCCGTATCAGGAAGGCCTCC 60.759 60.000 5.23 9.66 44.80 4.30
1536 3057 1.682684 CCGTACAGGTGCTCCTCCT 60.683 63.158 3.81 0.00 43.07 3.69
1539 3060 3.391382 GCCCGTACAGGTGCTCCT 61.391 66.667 0.18 0.18 46.37 3.69
1540 3061 3.665675 CTGCCCGTACAGGTGCTCC 62.666 68.421 0.00 0.00 38.74 4.70
1541 3062 2.125512 CTGCCCGTACAGGTGCTC 60.126 66.667 0.00 0.00 38.74 4.26
1542 3063 4.394712 GCTGCCCGTACAGGTGCT 62.395 66.667 0.00 0.00 38.16 4.40
1627 3148 3.791973 AGACATGAACTGATCGAGGTC 57.208 47.619 0.00 3.95 39.12 3.85
1647 3168 3.461831 CTCCCCATATTTCACCCACCTTA 59.538 47.826 0.00 0.00 0.00 2.69
1661 3182 1.722034 GATCAGTGCTCCTCCCCATA 58.278 55.000 0.00 0.00 0.00 2.74
1676 3197 5.607939 TGATAGTAAAGAAAGGGCGATCA 57.392 39.130 0.00 0.00 0.00 2.92
1736 3259 6.847400 TGAAGAACAGAAACATGAAACGAAA 58.153 32.000 0.00 0.00 0.00 3.46
1773 3296 2.746362 GAGATCGAAATCATCCATGCCC 59.254 50.000 0.00 0.00 34.07 5.36
1789 3312 1.941294 TCCTAGCAGTTCGTCGAGATC 59.059 52.381 0.00 0.00 0.00 2.75
1794 3317 0.656259 TCGATCCTAGCAGTTCGTCG 59.344 55.000 0.00 0.00 33.52 5.12
1843 3366 1.542472 CAATGAACACATGCAGGCTGA 59.458 47.619 20.86 3.68 0.00 4.26
1847 3370 0.457166 CGGCAATGAACACATGCAGG 60.457 55.000 0.00 0.00 0.00 4.85
1854 3377 2.486203 TGACATTACCGGCAATGAACAC 59.514 45.455 30.01 18.21 38.01 3.32
1909 3432 3.077359 AGGCAGCACAGAATGAAGTTAC 58.923 45.455 0.00 0.00 39.69 2.50
1911 3434 2.283145 AGGCAGCACAGAATGAAGTT 57.717 45.000 0.00 0.00 39.69 2.66
1915 3438 5.221106 GCATAAATTAGGCAGCACAGAATGA 60.221 40.000 4.66 0.00 35.77 2.57
1916 3439 4.980434 GCATAAATTAGGCAGCACAGAATG 59.020 41.667 4.66 0.00 37.53 2.67
1962 3485 6.765989 AGCAACTACTGTTCAAGAATGTACAA 59.234 34.615 0.00 0.00 36.56 2.41
2008 3531 0.823356 ACTGTGGCTTTCCGTTGCAT 60.823 50.000 0.00 0.00 34.14 3.96
2019 3542 5.079643 ACAAAATCATCCTTTACTGTGGCT 58.920 37.500 0.00 0.00 0.00 4.75
2035 3558 8.567221 CGTCTTTCGATGTATTTTGACAAAATC 58.433 33.333 25.53 17.97 40.56 2.17
2049 3572 4.181578 CAATTAGGACCGTCTTTCGATGT 58.818 43.478 0.00 0.00 42.86 3.06
2050 3573 3.001330 GCAATTAGGACCGTCTTTCGATG 59.999 47.826 0.00 0.00 42.86 3.84
2052 3575 2.613691 GCAATTAGGACCGTCTTTCGA 58.386 47.619 0.00 0.00 42.86 3.71
2054 3577 2.678336 CTGGCAATTAGGACCGTCTTTC 59.322 50.000 0.00 0.00 0.00 2.62
2056 3579 1.065418 CCTGGCAATTAGGACCGTCTT 60.065 52.381 0.00 0.00 37.52 3.01
2057 3580 0.541863 CCTGGCAATTAGGACCGTCT 59.458 55.000 0.00 0.00 37.52 4.18
2074 3597 5.435291 CATCTTGCTTAATTCCTCTGTCCT 58.565 41.667 0.00 0.00 0.00 3.85
2082 3605 4.660789 ACCATGCATCTTGCTTAATTCC 57.339 40.909 0.00 0.00 45.31 3.01
2123 3646 6.203530 TGCAGATTGCTTAATTCCTCTTATCG 59.796 38.462 2.48 0.00 45.31 2.92
2137 3660 2.372264 CCAGTACCATGCAGATTGCTT 58.628 47.619 2.48 0.00 45.31 3.91
2144 3667 1.361668 GACGTGCCAGTACCATGCAG 61.362 60.000 0.00 1.05 35.33 4.41
2161 3684 6.966021 TGTATTTGCAAAAGGAGTAACAGAC 58.034 36.000 17.19 0.00 0.00 3.51
2207 3730 8.792830 TTTCTTAGAAAGGATCAGTACAATGG 57.207 34.615 2.94 0.00 0.00 3.16
2264 3790 4.034510 GTGGCAAGTTTCCTCTATGAATCG 59.965 45.833 0.00 0.00 0.00 3.34
2270 3796 4.851639 ATCAGTGGCAAGTTTCCTCTAT 57.148 40.909 0.00 0.00 0.00 1.98
2271 3797 5.957771 ATATCAGTGGCAAGTTTCCTCTA 57.042 39.130 0.00 0.00 0.00 2.43
2293 3819 6.762333 TGCTCTTGCTGCTTATCTATGAATA 58.238 36.000 0.00 0.00 40.48 1.75
2347 3889 3.191162 CCGTGCCTTTTCATGATTGAGAA 59.809 43.478 0.00 0.00 32.27 2.87
2363 3910 3.438017 TTTTGCCTTGCACCGTGCC 62.438 57.895 20.67 5.83 44.23 5.01
2500 7022 5.173664 GGAAAGATTCTGGCTTTTCAATGG 58.826 41.667 0.00 0.00 35.83 3.16
2505 7027 3.435275 AGGGGAAAGATTCTGGCTTTTC 58.565 45.455 0.00 0.00 35.83 2.29
2584 7109 2.930682 GCTTAACCTAGCTGTTCCTTCG 59.069 50.000 0.00 0.00 38.15 3.79
2662 8775 4.498682 GGCTGGAATAAGTCAACATGATGC 60.499 45.833 0.00 0.00 0.00 3.91
2685 8798 5.925969 AGTCAGCCAAAAATACCAAAAATCG 59.074 36.000 0.00 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.