Multiple sequence alignment - TraesCS1B01G128000

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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 TraesCS1B01G128000 chr1B 100.000 3430 0 0 1 3430 156839976 156836547 0.000000e+00 6335.0
1 TraesCS1B01G128000 chr1D 90.912 3455 194 64 1 3430 95934643 95938002 0.000000e+00 4530.0
2 TraesCS1B01G128000 chr1A 92.993 2469 107 27 300 2743 91173923 91176350 0.000000e+00 3541.0
3 TraesCS1B01G128000 chr1A 84.798 421 37 16 3006 3408 91176368 91176779 6.900000e-107 398.0
4 TraesCS1B01G128000 chr1A 86.667 315 39 3 2 315 91173492 91173804 2.530000e-91 346.0
5 TraesCS1B01G128000 chr6B 89.122 763 71 7 1508 2270 35515358 35516108 0.000000e+00 939.0
6 TraesCS1B01G128000 chr6B 89.216 204 22 0 982 1185 35514867 35515070 4.390000e-64 255.0
7 TraesCS1B01G128000 chr6A 88.560 778 77 7 1508 2285 20508970 20509735 0.000000e+00 933.0
8 TraesCS1B01G128000 chr6A 85.938 256 35 1 973 1228 20508459 20508713 4.360000e-69 272.0
9 TraesCS1B01G128000 chr6D 83.112 1054 124 31 1508 2539 20590333 20591354 0.000000e+00 911.0
10 TraesCS1B01G128000 chr6D 86.328 256 34 1 973 1228 20589823 20590077 9.370000e-71 278.0
11 TraesCS1B01G128000 chr6D 76.634 505 75 26 358 850 20588993 20589466 4.420000e-59 239.0
12 TraesCS1B01G128000 chr6D 89.474 95 10 0 1330 1424 20590116 20590210 1.670000e-23 121.0
13 TraesCS1B01G128000 chr5A 82.041 245 33 10 2764 3004 7004909 7005146 7.510000e-47 198.0
14 TraesCS1B01G128000 chr5A 85.455 55 7 1 2815 2868 639294833 639294779 4.780000e-04 56.5


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 TraesCS1B01G128000 chr1B 156836547 156839976 3429 True 6335.000000 6335 100.000000 1 3430 1 chr1B.!!$R1 3429
1 TraesCS1B01G128000 chr1D 95934643 95938002 3359 False 4530.000000 4530 90.912000 1 3430 1 chr1D.!!$F1 3429
2 TraesCS1B01G128000 chr1A 91173492 91176779 3287 False 1428.333333 3541 88.152667 2 3408 3 chr1A.!!$F1 3406
3 TraesCS1B01G128000 chr6B 35514867 35516108 1241 False 597.000000 939 89.169000 982 2270 2 chr6B.!!$F1 1288
4 TraesCS1B01G128000 chr6A 20508459 20509735 1276 False 602.500000 933 87.249000 973 2285 2 chr6A.!!$F1 1312
5 TraesCS1B01G128000 chr6D 20588993 20591354 2361 False 387.250000 911 83.887000 358 2539 4 chr6D.!!$F1 2181

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
129 130 0.174845 TTCCTGACCGCGGATAACAG 59.825 55.0 35.9 29.27 0.0 3.16 F
1003 1433 0.107643 GGAGAAGGAGGTAGCCATGC 59.892 60.0 0.0 0.00 0.0 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1628 2126 0.105593 TGATGGCTTCGAGATGGAGC 59.894 55.0 0.0 0.0 0.00 4.70 R
2913 3447 0.179129 GCGTGAGGATGCCCAATTTG 60.179 55.0 0.0 0.0 33.88 2.32 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
26 27 1.140161 CGGTGGTCGCTTCGGATAA 59.860 57.895 0.00 0.00 0.00 1.75
46 47 3.049674 CCGTCAACGCATGGCTGT 61.050 61.111 0.00 0.00 38.18 4.40
72 73 2.305635 TGGATTCTTTACTGCTCTGCCA 59.694 45.455 0.00 0.00 0.00 4.92
74 75 3.950395 GGATTCTTTACTGCTCTGCCAAT 59.050 43.478 0.00 0.00 0.00 3.16
124 125 1.330655 ATGACTTCCTGACCGCGGAT 61.331 55.000 35.90 16.95 0.00 4.18
129 130 0.174845 TTCCTGACCGCGGATAACAG 59.825 55.000 35.90 29.27 0.00 3.16
174 175 3.764885 GCGACAATAGTGGCTCATTTT 57.235 42.857 0.00 0.00 44.87 1.82
178 179 5.698832 CGACAATAGTGGCTCATTTTGAAA 58.301 37.500 0.00 0.00 0.00 2.69
187 188 6.944862 AGTGGCTCATTTTGAAATAGAAGACT 59.055 34.615 0.00 0.00 0.00 3.24
193 194 9.727627 CTCATTTTGAAATAGAAGACTATTGGC 57.272 33.333 0.00 0.00 45.19 4.52
197 198 5.601662 TGAAATAGAAGACTATTGGCTCCG 58.398 41.667 0.00 0.00 45.19 4.63
280 281 1.003580 GTGGATCTGGTGGCTTCTTCA 59.996 52.381 0.00 0.00 0.00 3.02
289 290 5.774690 TCTGGTGGCTTCTTCACAAAATAAT 59.225 36.000 0.00 0.00 36.90 1.28
290 291 6.024552 TGGTGGCTTCTTCACAAAATAATC 57.975 37.500 0.00 0.00 36.90 1.75
291 292 5.095490 GGTGGCTTCTTCACAAAATAATCG 58.905 41.667 0.00 0.00 36.90 3.34
292 293 5.335661 GGTGGCTTCTTCACAAAATAATCGT 60.336 40.000 0.00 0.00 36.90 3.73
294 295 5.705441 TGGCTTCTTCACAAAATAATCGTCT 59.295 36.000 0.00 0.00 0.00 4.18
295 296 6.024049 GGCTTCTTCACAAAATAATCGTCTG 58.976 40.000 0.00 0.00 0.00 3.51
296 297 5.509622 GCTTCTTCACAAAATAATCGTCTGC 59.490 40.000 0.00 0.00 0.00 4.26
297 298 6.552859 TTCTTCACAAAATAATCGTCTGCA 57.447 33.333 0.00 0.00 0.00 4.41
298 299 6.169419 TCTTCACAAAATAATCGTCTGCAG 57.831 37.500 7.63 7.63 0.00 4.41
460 595 4.141205 TGAGATCCCAATGGACATTGCATA 60.141 41.667 17.35 6.98 45.58 3.14
570 706 5.273944 TCAACAACGAGTGATCATCTATCG 58.726 41.667 16.22 16.22 37.42 2.92
587 723 0.944386 TCGTTTGGCAGAAGCAAGAC 59.056 50.000 0.00 0.00 44.61 3.01
601 741 2.095161 AGCAAGACGAGTACAGCACTAC 60.095 50.000 0.00 0.00 37.72 2.73
630 770 4.700213 TGGCTAGTTTCCAAAATGAGCTAC 59.300 41.667 0.00 0.00 0.00 3.58
799 951 5.359194 AAATCGCCAGAAGGAAATAGAGA 57.641 39.130 0.00 0.00 36.89 3.10
943 1365 3.123804 GTCGCTCAAGTCTCAACTCAAA 58.876 45.455 0.00 0.00 33.48 2.69
945 1367 2.221981 CGCTCAAGTCTCAACTCAAACC 59.778 50.000 0.00 0.00 33.48 3.27
946 1368 3.206150 GCTCAAGTCTCAACTCAAACCA 58.794 45.455 0.00 0.00 33.48 3.67
947 1369 3.002759 GCTCAAGTCTCAACTCAAACCAC 59.997 47.826 0.00 0.00 33.48 4.16
948 1370 4.446371 CTCAAGTCTCAACTCAAACCACT 58.554 43.478 0.00 0.00 33.48 4.00
949 1371 4.191544 TCAAGTCTCAACTCAAACCACTG 58.808 43.478 0.00 0.00 33.48 3.66
950 1372 4.081142 TCAAGTCTCAACTCAAACCACTGA 60.081 41.667 0.00 0.00 33.48 3.41
1003 1433 0.107643 GGAGAAGGAGGTAGCCATGC 59.892 60.000 0.00 0.00 0.00 4.06
1388 1830 2.031120 CCCATGTCACTGTGGTTGTTT 58.969 47.619 8.11 0.00 33.55 2.83
1409 1851 2.540515 ACCAAGATCTTCATGTACGCG 58.459 47.619 4.57 3.53 0.00 6.01
1460 1944 6.665695 TGATCTCCCTTTGAATTCATCATCA 58.334 36.000 9.40 6.65 38.03 3.07
1473 1971 8.985805 TGAATTCATCATCATCTATATATGCGC 58.014 33.333 3.38 0.00 31.50 6.09
1487 1985 8.856247 TCTATATATGCGCGTAAAAGTAACATG 58.144 33.333 14.31 0.00 0.00 3.21
1488 1986 5.728351 ATATGCGCGTAAAAGTAACATGT 57.272 34.783 14.31 0.00 0.00 3.21
1489 1987 6.831727 ATATGCGCGTAAAAGTAACATGTA 57.168 33.333 14.31 0.00 0.00 2.29
1490 1988 4.571375 TGCGCGTAAAAGTAACATGTAG 57.429 40.909 8.43 0.00 0.00 2.74
1562 2060 2.370281 ACATCAGCCTCAAGTACACG 57.630 50.000 0.00 0.00 0.00 4.49
1571 2069 2.084681 CAAGTACACGTCGGCGACC 61.085 63.158 31.86 18.47 42.00 4.79
1628 2126 1.153745 CTTCCTCTTCGCCGTCCTG 60.154 63.158 0.00 0.00 0.00 3.86
1874 2399 1.064946 GTCGCTCTGGATCGTCCTG 59.935 63.158 5.77 5.42 37.46 3.86
2084 2609 1.328430 CGGGGGTGTCCTTCTACCTC 61.328 65.000 0.00 0.00 36.69 3.85
2314 2842 1.284198 AGCTCCTGCATCAGAAACCAT 59.716 47.619 0.00 0.00 42.74 3.55
2561 3090 2.496070 AGCACTAGGAAATGCACGAGTA 59.504 45.455 5.91 0.00 44.59 2.59
2562 3091 2.860735 GCACTAGGAAATGCACGAGTAG 59.139 50.000 0.00 0.00 41.65 2.57
2563 3092 3.676324 GCACTAGGAAATGCACGAGTAGT 60.676 47.826 0.00 0.00 41.65 2.73
2564 3093 4.439700 GCACTAGGAAATGCACGAGTAGTA 60.440 45.833 0.00 0.00 41.65 1.82
2565 3094 5.035443 CACTAGGAAATGCACGAGTAGTAC 58.965 45.833 0.00 0.00 0.00 2.73
2566 3095 3.146618 AGGAAATGCACGAGTAGTACG 57.853 47.619 0.00 0.00 0.00 3.67
2567 3096 1.587034 GGAAATGCACGAGTAGTACGC 59.413 52.381 0.00 0.00 0.00 4.42
2568 3097 2.527100 GAAATGCACGAGTAGTACGCT 58.473 47.619 2.45 0.00 0.00 5.07
2735 3268 1.869342 GCCCACATTGTGCAACTTGAC 60.869 52.381 11.41 0.00 38.04 3.18
2774 3307 4.553330 ACGACTCCATTACAAACCTGAT 57.447 40.909 0.00 0.00 0.00 2.90
2775 3308 4.253685 ACGACTCCATTACAAACCTGATG 58.746 43.478 0.00 0.00 0.00 3.07
2780 3313 5.221925 ACTCCATTACAAACCTGATGTCAGT 60.222 40.000 9.03 0.00 42.27 3.41
2808 3341 1.086696 AGCCATGACAAATCGAACGG 58.913 50.000 0.00 0.00 0.00 4.44
2824 3357 6.010294 TCGAACGGTTTTTATGGCAATTTA 57.990 33.333 0.00 0.00 0.00 1.40
2845 3379 7.624360 TTTATGTTTATCGAGATGGCAAGTT 57.376 32.000 0.00 0.00 0.00 2.66
2868 3402 8.088365 AGTTTAGTTGGCAAGTATGAAAATTCC 58.912 33.333 15.14 0.00 0.00 3.01
2875 3409 5.447818 GGCAAGTATGAAAATTCCGTCTCAG 60.448 44.000 0.00 0.00 0.00 3.35
2884 3418 8.160521 TGAAAATTCCGTCTCAGTTCATTTTA 57.839 30.769 0.00 0.00 0.00 1.52
2891 3425 4.201851 CGTCTCAGTTCATTTTATGGCCAG 60.202 45.833 13.05 0.00 0.00 4.85
2913 3447 3.531262 AAATTGTCGTGCTCGTAAACC 57.469 42.857 8.17 0.00 38.33 3.27
2917 3451 2.485903 TGTCGTGCTCGTAAACCAAAT 58.514 42.857 8.17 0.00 38.33 2.32
2919 3453 3.223157 GTCGTGCTCGTAAACCAAATTG 58.777 45.455 8.17 0.00 38.33 2.32
2930 3464 1.560505 ACCAAATTGGGCATCCTCAC 58.439 50.000 17.27 0.00 43.37 3.51
2939 3473 3.153024 GCATCCTCACGCCAACTAA 57.847 52.632 0.00 0.00 0.00 2.24
2944 3478 4.095782 GCATCCTCACGCCAACTAAATTTA 59.904 41.667 0.00 0.00 0.00 1.40
3003 3537 8.988934 TCTAATAGCAGATTTTTAGCATTACCG 58.011 33.333 0.00 0.00 0.00 4.02
3004 3538 4.900635 AGCAGATTTTTAGCATTACCGG 57.099 40.909 0.00 0.00 0.00 5.28
3027 3562 7.201670 CCGGTTGGTGATTTAGAAATAGTAACC 60.202 40.741 0.00 0.00 31.73 2.85
3087 3630 7.684062 TTACGGTAAGAATTAATACGTGCTC 57.316 36.000 0.00 0.00 37.89 4.26
3088 3631 5.045872 ACGGTAAGAATTAATACGTGCTCC 58.954 41.667 0.00 0.00 36.68 4.70
3089 3632 4.147653 CGGTAAGAATTAATACGTGCTCCG 59.852 45.833 0.00 0.00 35.61 4.63
3108 3651 5.107298 GCTCCGTATGATTAGTTTGATCTGC 60.107 44.000 0.00 0.00 0.00 4.26
3110 3653 4.452455 CCGTATGATTAGTTTGATCTGCCC 59.548 45.833 0.00 0.00 0.00 5.36
3111 3654 4.150627 CGTATGATTAGTTTGATCTGCCCG 59.849 45.833 0.00 0.00 0.00 6.13
3112 3655 3.904800 TGATTAGTTTGATCTGCCCGA 57.095 42.857 0.00 0.00 0.00 5.14
3124 3680 0.940126 CTGCCCGATACATGTTCAGC 59.060 55.000 2.30 8.10 0.00 4.26
3151 3709 5.624159 TGTTGGTCTCTTCTCATGATTGTT 58.376 37.500 0.00 0.00 0.00 2.83
3365 3926 8.387813 TGAAAAGTTATGGTCTAGTTAACCCAT 58.612 33.333 15.61 15.61 40.66 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.570347 GCCATGCGTTGACGGTGTTA 61.570 55.000 5.62 0.00 40.23 2.41
26 27 3.353836 GCCATGCGTTGACGGTGT 61.354 61.111 5.62 0.00 40.23 4.16
46 47 3.764434 AGAGCAGTAAAGAATCCAGTCGA 59.236 43.478 0.00 0.00 0.00 4.20
72 73 3.049080 GCCCGAGGGAGAAGCCATT 62.049 63.158 13.28 0.00 38.95 3.16
124 125 0.898320 GAGCTGGCCTCACTCTGTTA 59.102 55.000 3.32 0.00 40.45 2.41
129 130 4.154347 CCGGAGCTGGCCTCACTC 62.154 72.222 3.32 8.03 42.62 3.51
147 148 0.249120 CCACTATTGTCGCTCCACCA 59.751 55.000 0.00 0.00 0.00 4.17
174 175 5.601662 CGGAGCCAATAGTCTTCTATTTCA 58.398 41.667 0.00 0.00 42.76 2.69
193 194 1.115467 ACATCTAGGTCCTTGCGGAG 58.885 55.000 0.00 0.00 40.84 4.63
197 198 4.414337 AGAATCACATCTAGGTCCTTGC 57.586 45.455 0.00 0.00 0.00 4.01
280 281 7.648142 TCTTTTTCTGCAGACGATTATTTTGT 58.352 30.769 18.03 0.00 0.00 2.83
289 290 5.239306 ACATTCATTCTTTTTCTGCAGACGA 59.761 36.000 18.03 5.27 0.00 4.20
290 291 5.455392 ACATTCATTCTTTTTCTGCAGACG 58.545 37.500 18.03 5.54 0.00 4.18
291 292 8.976986 AATACATTCATTCTTTTTCTGCAGAC 57.023 30.769 18.03 0.00 0.00 3.51
351 486 8.763356 TGCATTGAAATAACTCATTTTTGTGTC 58.237 29.630 0.00 0.00 36.96 3.67
387 522 6.140108 GCAACTATACGTGTTGTTGTTTCTTG 59.860 38.462 29.11 12.49 44.54 3.02
460 595 1.710244 TGTCCTCCAACACCATCCATT 59.290 47.619 0.00 0.00 0.00 3.16
570 706 0.944386 TCGTCTTGCTTCTGCCAAAC 59.056 50.000 0.00 0.00 38.71 2.93
587 723 3.181499 CCAACTAGGTAGTGCTGTACTCG 60.181 52.174 0.46 0.00 40.89 4.18
861 1014 5.634859 GCAAGTATGTTGATGTTTCAAAGGG 59.365 40.000 0.00 0.00 43.29 3.95
943 1365 4.703897 TCGATTGAGAAGTTTTCAGTGGT 58.296 39.130 0.00 0.00 0.00 4.16
945 1367 6.401903 CCTGATCGATTGAGAAGTTTTCAGTG 60.402 42.308 0.00 0.00 0.00 3.66
946 1368 5.641209 CCTGATCGATTGAGAAGTTTTCAGT 59.359 40.000 0.00 0.00 0.00 3.41
947 1369 5.871524 TCCTGATCGATTGAGAAGTTTTCAG 59.128 40.000 0.00 0.00 0.00 3.02
948 1370 5.793817 TCCTGATCGATTGAGAAGTTTTCA 58.206 37.500 0.00 0.00 0.00 2.69
949 1371 5.872070 ACTCCTGATCGATTGAGAAGTTTTC 59.128 40.000 20.62 0.00 0.00 2.29
950 1372 5.799213 ACTCCTGATCGATTGAGAAGTTTT 58.201 37.500 20.62 2.17 0.00 2.43
1003 1433 3.197790 CTTGCCTGCATCCGTCGG 61.198 66.667 4.39 4.39 0.00 4.79
1017 1447 2.584791 GCAACAACATACGCCTTCTTG 58.415 47.619 0.00 0.00 0.00 3.02
1234 1667 4.751060 CATAGCCACTGATTGTTTGCATT 58.249 39.130 0.00 0.00 0.00 3.56
1274 1707 7.885922 TGGATCAACTAATTTTAACAGGTGCTA 59.114 33.333 0.00 0.00 0.00 3.49
1276 1709 6.919721 TGGATCAACTAATTTTAACAGGTGC 58.080 36.000 0.00 0.00 0.00 5.01
1388 1830 3.702330 CGCGTACATGAAGATCTTGGTA 58.298 45.455 14.00 9.60 0.00 3.25
1409 1851 1.470098 TCGTGTTCTTACCCGAGTAGC 59.530 52.381 0.00 0.00 30.63 3.58
1431 1880 4.403432 TGAATTCAAAGGGAGATCAATGGC 59.597 41.667 5.45 0.00 0.00 4.40
1460 1944 8.975410 TGTTACTTTTACGCGCATATATAGAT 57.025 30.769 5.73 0.00 0.00 1.98
1470 1968 3.368843 ACCTACATGTTACTTTTACGCGC 59.631 43.478 5.73 0.00 0.00 6.86
1473 1971 7.901377 GTGCAATACCTACATGTTACTTTTACG 59.099 37.037 2.30 0.00 0.00 3.18
1487 1985 3.478516 CGTAACGTACGTGCAATACCTAC 59.521 47.826 23.57 15.89 46.41 3.18
1488 1986 3.679725 CGTAACGTACGTGCAATACCTA 58.320 45.455 23.57 4.80 46.41 3.08
1489 1987 2.518949 CGTAACGTACGTGCAATACCT 58.481 47.619 23.57 5.90 46.41 3.08
1490 1988 2.957657 CGTAACGTACGTGCAATACC 57.042 50.000 23.57 4.12 46.41 2.73
1628 2126 0.105593 TGATGGCTTCGAGATGGAGC 59.894 55.000 0.00 0.00 0.00 4.70
2006 2531 4.680237 TCCAACCGCAGCGTCCAG 62.680 66.667 15.05 0.00 0.00 3.86
2084 2609 4.758251 TCGATGCACCACGCCTGG 62.758 66.667 0.00 0.00 44.26 4.45
2121 2646 0.916086 ACCGGATTAGACATGGCCAA 59.084 50.000 10.96 0.00 0.00 4.52
2234 2759 1.446792 CCAGAGCACGCTGTACAGG 60.447 63.158 23.95 15.85 34.06 4.00
2308 2833 4.618927 CGCATCCTTGTTTCATGATGGTTT 60.619 41.667 0.00 0.00 0.00 3.27
2314 2842 2.684374 CCATCGCATCCTTGTTTCATGA 59.316 45.455 0.00 0.00 0.00 3.07
2562 3091 9.994432 TTCATAAAGTTTCTAGTACTAGCGTAC 57.006 33.333 22.87 18.48 45.04 3.67
2563 3092 9.994432 GTTCATAAAGTTTCTAGTACTAGCGTA 57.006 33.333 22.87 9.49 33.32 4.42
2564 3093 7.972832 GGTTCATAAAGTTTCTAGTACTAGCGT 59.027 37.037 22.87 6.80 33.32 5.07
2565 3094 7.972277 TGGTTCATAAAGTTTCTAGTACTAGCG 59.028 37.037 22.87 4.04 33.32 4.26
2566 3095 9.819267 ATGGTTCATAAAGTTTCTAGTACTAGC 57.181 33.333 22.87 10.79 33.32 3.42
2626 3155 3.493699 GCTCCCGTTACATACCAGCAATA 60.494 47.826 0.00 0.00 0.00 1.90
2735 3268 7.703621 TGGAGTCGTAATTTATTTCTAAGTCGG 59.296 37.037 0.00 0.00 0.00 4.79
2785 3318 4.378978 CCGTTCGATTTGTCATGGCTAAAA 60.379 41.667 0.00 0.00 0.00 1.52
2787 3320 2.675844 CCGTTCGATTTGTCATGGCTAA 59.324 45.455 0.00 0.00 0.00 3.09
2788 3321 2.276201 CCGTTCGATTTGTCATGGCTA 58.724 47.619 0.00 0.00 0.00 3.93
2789 3322 1.086696 CCGTTCGATTTGTCATGGCT 58.913 50.000 0.00 0.00 0.00 4.75
2790 3323 0.802494 ACCGTTCGATTTGTCATGGC 59.198 50.000 0.00 0.00 0.00 4.40
2824 3357 6.823689 ACTAAACTTGCCATCTCGATAAACAT 59.176 34.615 0.00 0.00 0.00 2.71
2833 3366 2.819608 TGCCAACTAAACTTGCCATCTC 59.180 45.455 0.00 0.00 0.00 2.75
2834 3367 2.875296 TGCCAACTAAACTTGCCATCT 58.125 42.857 0.00 0.00 0.00 2.90
2845 3379 6.207810 ACGGAATTTTCATACTTGCCAACTAA 59.792 34.615 0.00 0.00 0.00 2.24
2854 3388 6.934645 TGAACTGAGACGGAATTTTCATACTT 59.065 34.615 0.00 0.00 0.00 2.24
2857 3391 7.921786 AATGAACTGAGACGGAATTTTCATA 57.078 32.000 0.00 0.00 32.41 2.15
2868 3402 3.689161 TGGCCATAAAATGAACTGAGACG 59.311 43.478 0.00 0.00 0.00 4.18
2875 3409 7.411804 CGACAATTTTCTGGCCATAAAATGAAC 60.412 37.037 31.28 24.06 35.89 3.18
2884 3418 1.067635 GCACGACAATTTTCTGGCCAT 60.068 47.619 5.51 0.00 0.00 4.40
2891 3425 3.904234 GGTTTACGAGCACGACAATTTTC 59.096 43.478 11.40 0.00 42.66 2.29
2913 3447 0.179129 GCGTGAGGATGCCCAATTTG 60.179 55.000 0.00 0.00 33.88 2.32
2977 3511 8.988934 CGGTAATGCTAAAAATCTGCTATTAGA 58.011 33.333 0.00 0.00 0.00 2.10
2978 3512 8.230486 CCGGTAATGCTAAAAATCTGCTATTAG 58.770 37.037 0.00 0.00 0.00 1.73
2981 3515 6.062095 ACCGGTAATGCTAAAAATCTGCTAT 58.938 36.000 4.49 0.00 0.00 2.97
2983 3517 4.270008 ACCGGTAATGCTAAAAATCTGCT 58.730 39.130 4.49 0.00 0.00 4.24
2984 3518 4.632538 ACCGGTAATGCTAAAAATCTGC 57.367 40.909 4.49 0.00 0.00 4.26
2985 3519 5.105917 ACCAACCGGTAATGCTAAAAATCTG 60.106 40.000 8.00 0.00 46.71 2.90
2987 3521 5.099575 CACCAACCGGTAATGCTAAAAATC 58.900 41.667 8.00 0.00 46.94 2.17
2988 3522 4.767928 TCACCAACCGGTAATGCTAAAAAT 59.232 37.500 8.00 0.00 46.94 1.82
2989 3523 4.142790 TCACCAACCGGTAATGCTAAAAA 58.857 39.130 8.00 0.00 46.94 1.94
2990 3524 3.752665 TCACCAACCGGTAATGCTAAAA 58.247 40.909 8.00 0.00 46.94 1.52
2991 3525 3.420300 TCACCAACCGGTAATGCTAAA 57.580 42.857 8.00 0.00 46.94 1.85
2992 3526 3.637911 ATCACCAACCGGTAATGCTAA 57.362 42.857 8.00 0.00 46.94 3.09
2993 3527 3.637911 AATCACCAACCGGTAATGCTA 57.362 42.857 8.00 0.00 46.94 3.49
2994 3528 2.507407 AATCACCAACCGGTAATGCT 57.493 45.000 8.00 0.00 46.94 3.79
2995 3529 3.942748 TCTAAATCACCAACCGGTAATGC 59.057 43.478 8.00 0.00 46.94 3.56
2996 3530 6.503589 TTTCTAAATCACCAACCGGTAATG 57.496 37.500 8.00 6.95 46.94 1.90
3001 3535 7.201670 GGTTACTATTTCTAAATCACCAACCGG 60.202 40.741 0.00 0.00 38.77 5.28
3003 3537 7.832685 AGGGTTACTATTTCTAAATCACCAACC 59.167 37.037 0.00 0.00 31.84 3.77
3004 3538 8.674607 CAGGGTTACTATTTCTAAATCACCAAC 58.325 37.037 0.00 0.00 0.00 3.77
3027 3562 9.801873 ACGGAATTTTAACATTTGAATATCAGG 57.198 29.630 0.00 0.00 0.00 3.86
3062 3605 7.222611 GGAGCACGTATTAATTCTTACCGTAAA 59.777 37.037 0.00 0.00 0.00 2.01
3084 3627 5.107298 GCAGATCAAACTAATCATACGGAGC 60.107 44.000 0.00 0.00 0.00 4.70
3087 3630 4.452455 GGGCAGATCAAACTAATCATACGG 59.548 45.833 0.00 0.00 0.00 4.02
3088 3631 4.150627 CGGGCAGATCAAACTAATCATACG 59.849 45.833 0.00 0.00 0.00 3.06
3089 3632 5.297547 TCGGGCAGATCAAACTAATCATAC 58.702 41.667 0.00 0.00 0.00 2.39
3098 3641 3.206150 ACATGTATCGGGCAGATCAAAC 58.794 45.455 2.64 0.00 40.66 2.93
3108 3651 2.022764 TGTGCTGAACATGTATCGGG 57.977 50.000 0.00 0.00 32.36 5.14
3124 3680 4.572909 TCATGAGAAGAGACCAACATGTG 58.427 43.478 0.00 0.00 37.15 3.21
3151 3709 8.810990 TTTGGAAGTCCTCTTTTAAACTTGTA 57.189 30.769 0.00 0.00 36.82 2.41
3247 3806 9.533831 AAGGTTCCATTTAGTTCAAAGTGATAT 57.466 29.630 0.00 0.00 0.00 1.63
3248 3807 8.934023 AAGGTTCCATTTAGTTCAAAGTGATA 57.066 30.769 0.00 0.00 0.00 2.15
3249 3808 7.839680 AAGGTTCCATTTAGTTCAAAGTGAT 57.160 32.000 0.00 0.00 0.00 3.06
3257 3816 7.201884 GGGGCTATTAAAGGTTCCATTTAGTTC 60.202 40.741 0.00 0.00 0.00 3.01
3261 3820 5.894964 GTGGGGCTATTAAAGGTTCCATTTA 59.105 40.000 0.00 0.00 0.00 1.40
3269 3828 3.688414 GCATGAGTGGGGCTATTAAAGGT 60.688 47.826 0.00 0.00 0.00 3.50
3279 3838 2.355010 AAGATAAGCATGAGTGGGGC 57.645 50.000 0.00 0.00 0.00 5.80
3365 3926 1.907807 GCCAGGCCACCACAAATCA 60.908 57.895 5.01 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.