Multiple sequence alignment - TraesCS1A01G194000

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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 TraesCS1A01G194000 chr1A 100.000 2409 0 0 1 2409 351344247 351346655 0.000000e+00 4449
1 TraesCS1A01G194000 chr1A 96.667 60 2 0 2108 2167 351346299 351346358 1.520000e-17 100
2 TraesCS1A01G194000 chr1A 96.667 60 2 0 2053 2112 351346354 351346413 1.520000e-17 100
3 TraesCS1A01G194000 chr1B 92.472 1501 67 22 1 1465 378832673 378834163 0.000000e+00 2104
4 TraesCS1A01G194000 chr1B 91.346 624 33 7 1505 2112 378834165 378834783 0.000000e+00 833
5 TraesCS1A01G194000 chr1B 96.678 301 9 1 2108 2407 378834724 378835024 1.290000e-137 499
6 TraesCS1A01G194000 chr1D 90.608 1480 66 24 3 1465 279098265 279099688 0.000000e+00 1895
7 TraesCS1A01G194000 chr1D 93.831 616 24 7 1505 2112 279099690 279100299 0.000000e+00 915
8 TraesCS1A01G194000 chr1D 95.000 300 15 0 2110 2409 279100242 279100541 2.800000e-129 472


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 TraesCS1A01G194000 chr1A 351344247 351346655 2408 False 1549.666667 4449 97.778000 1 2409 3 chr1A.!!$F1 2408
1 TraesCS1A01G194000 chr1B 378832673 378835024 2351 False 1145.333333 2104 93.498667 1 2407 3 chr1B.!!$F1 2406
2 TraesCS1A01G194000 chr1D 279098265 279100541 2276 False 1094.000000 1895 93.146333 3 2409 3 chr1D.!!$F1 2406

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
949 1003 0.540923 CCCAGAGGCCAAGAAGAGAG 59.459 60.0 5.01 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1964 2035 1.570501 AGGGAAAATGATGCTAGCCCA 59.429 47.619 13.29 10.81 36.55 5.36 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
62 66 6.926826 TGGGTCACTTAAATATAGCATGTACG 59.073 38.462 0.00 0.00 0.00 3.67
89 93 8.677300 TGGAAATGATTTAGCAGAATGAACTAC 58.323 33.333 0.00 0.00 39.69 2.73
93 112 6.711277 TGATTTAGCAGAATGAACTACAGGT 58.289 36.000 0.00 0.00 39.69 4.00
94 113 6.595326 TGATTTAGCAGAATGAACTACAGGTG 59.405 38.462 0.00 0.00 39.69 4.00
95 114 5.738619 TTAGCAGAATGAACTACAGGTGA 57.261 39.130 0.00 0.00 39.69 4.02
96 115 4.199432 AGCAGAATGAACTACAGGTGAG 57.801 45.455 0.00 0.00 39.69 3.51
97 116 3.580458 AGCAGAATGAACTACAGGTGAGT 59.420 43.478 0.00 0.00 39.69 3.41
98 117 3.681897 GCAGAATGAACTACAGGTGAGTG 59.318 47.826 0.00 0.00 39.69 3.51
99 118 4.248859 CAGAATGAACTACAGGTGAGTGG 58.751 47.826 0.00 0.00 39.69 4.00
100 119 4.021104 CAGAATGAACTACAGGTGAGTGGA 60.021 45.833 0.00 0.00 39.69 4.02
101 120 4.593206 AGAATGAACTACAGGTGAGTGGAA 59.407 41.667 0.00 0.00 0.00 3.53
102 121 5.249393 AGAATGAACTACAGGTGAGTGGAAT 59.751 40.000 0.00 0.00 0.00 3.01
103 122 4.537135 TGAACTACAGGTGAGTGGAATC 57.463 45.455 0.00 0.00 0.00 2.52
104 123 3.901222 TGAACTACAGGTGAGTGGAATCA 59.099 43.478 0.00 0.00 0.00 2.57
105 124 4.021104 TGAACTACAGGTGAGTGGAATCAG 60.021 45.833 0.00 0.00 0.00 2.90
106 125 3.779444 ACTACAGGTGAGTGGAATCAGA 58.221 45.455 0.00 0.00 0.00 3.27
122 141 3.923273 TCAGATGATAGCCCCTAGGAA 57.077 47.619 11.48 0.00 33.47 3.36
125 144 3.843027 CAGATGATAGCCCCTAGGAACAT 59.157 47.826 11.48 0.00 33.47 2.71
238 257 5.585820 GGTAACCACCTGAAAAGAACAAA 57.414 39.130 0.00 0.00 42.11 2.83
250 269 1.995376 AGAACAAACCAAGCCGGAAT 58.005 45.000 5.05 0.00 38.63 3.01
265 308 4.636206 AGCCGGAATCAAACATAAACTCTC 59.364 41.667 5.05 0.00 0.00 3.20
274 317 5.344933 TCAAACATAAACTCTCGTGATCGTG 59.655 40.000 0.00 0.00 38.33 4.35
299 343 5.171339 ACACACAATCTCAATTCCTAGCT 57.829 39.130 0.00 0.00 0.00 3.32
325 369 7.123547 TGGGAACAATAAACCATAATCAACCTC 59.876 37.037 0.00 0.00 37.44 3.85
332 376 5.880054 AACCATAATCAACCTCAAACTCG 57.120 39.130 0.00 0.00 0.00 4.18
334 378 4.695455 ACCATAATCAACCTCAAACTCGTG 59.305 41.667 0.00 0.00 0.00 4.35
343 387 2.158449 CCTCAAACTCGTGTGCTCATTC 59.842 50.000 0.00 0.00 0.00 2.67
351 395 4.627467 ACTCGTGTGCTCATTCTGTATTTC 59.373 41.667 0.00 0.00 0.00 2.17
353 397 4.994217 TCGTGTGCTCATTCTGTATTTCAA 59.006 37.500 0.00 0.00 0.00 2.69
369 413 7.970384 TGTATTTCAATGAGATTTACGGTGTC 58.030 34.615 0.00 0.00 0.00 3.67
370 414 7.604545 TGTATTTCAATGAGATTTACGGTGTCA 59.395 33.333 0.00 0.00 0.00 3.58
375 419 3.649073 TGAGATTTACGGTGTCACTGTG 58.351 45.455 24.88 0.17 38.36 3.66
449 493 1.170290 TCCAGCTGTTGTCGTCGAGA 61.170 55.000 13.81 0.00 0.00 4.04
467 511 2.635427 GAGAGACCTGACCTCCTTTTGT 59.365 50.000 0.00 0.00 0.00 2.83
768 815 3.345808 CGCCCTTCCGTGTGTGTG 61.346 66.667 0.00 0.00 0.00 3.82
800 847 5.232414 GGTCAGACTCAACAGCGAATTATAC 59.768 44.000 0.00 0.00 0.00 1.47
805 852 3.110358 TCAACAGCGAATTATACGACCG 58.890 45.455 0.00 0.00 0.00 4.79
949 1003 0.540923 CCCAGAGGCCAAGAAGAGAG 59.459 60.000 5.01 0.00 0.00 3.20
951 1005 1.566211 CAGAGGCCAAGAAGAGAGGA 58.434 55.000 5.01 0.00 0.00 3.71
1131 1186 1.765314 CGGGAGAAGTGGATCCAGATT 59.235 52.381 16.81 13.46 37.33 2.40
1415 1470 1.428620 GTCGAGGAGTAGCACGGTC 59.571 63.158 0.00 0.00 0.00 4.79
1465 1520 2.749621 GGTCAGGGTGCTTCTTGTTATG 59.250 50.000 0.00 0.00 0.00 1.90
1466 1521 2.162408 GTCAGGGTGCTTCTTGTTATGC 59.838 50.000 0.00 0.00 0.00 3.14
1467 1522 2.040278 TCAGGGTGCTTCTTGTTATGCT 59.960 45.455 0.00 0.00 0.00 3.79
1468 1523 2.421424 CAGGGTGCTTCTTGTTATGCTC 59.579 50.000 0.00 0.00 0.00 4.26
1469 1524 2.040278 AGGGTGCTTCTTGTTATGCTCA 59.960 45.455 0.00 0.00 0.00 4.26
1470 1525 2.421424 GGGTGCTTCTTGTTATGCTCAG 59.579 50.000 0.00 0.00 0.00 3.35
1471 1526 3.338249 GGTGCTTCTTGTTATGCTCAGA 58.662 45.455 0.00 0.00 0.00 3.27
1472 1527 3.753272 GGTGCTTCTTGTTATGCTCAGAA 59.247 43.478 0.00 0.00 0.00 3.02
1473 1528 4.397417 GGTGCTTCTTGTTATGCTCAGAAT 59.603 41.667 0.00 0.00 0.00 2.40
1474 1529 5.448360 GGTGCTTCTTGTTATGCTCAGAATC 60.448 44.000 0.00 0.00 0.00 2.52
1475 1530 5.353678 GTGCTTCTTGTTATGCTCAGAATCT 59.646 40.000 0.00 0.00 0.00 2.40
1476 1531 5.942236 TGCTTCTTGTTATGCTCAGAATCTT 59.058 36.000 0.00 0.00 0.00 2.40
1477 1532 7.065085 GTGCTTCTTGTTATGCTCAGAATCTTA 59.935 37.037 0.00 0.00 0.00 2.10
1478 1533 7.279536 TGCTTCTTGTTATGCTCAGAATCTTAG 59.720 37.037 0.00 0.00 0.00 2.18
1479 1534 7.279758 GCTTCTTGTTATGCTCAGAATCTTAGT 59.720 37.037 0.00 0.00 0.00 2.24
1480 1535 9.160496 CTTCTTGTTATGCTCAGAATCTTAGTT 57.840 33.333 0.00 0.00 0.00 2.24
1489 1544 8.370493 TGCTCAGAATCTTAGTTATTATGCAC 57.630 34.615 0.00 0.00 0.00 4.57
1490 1545 7.986889 TGCTCAGAATCTTAGTTATTATGCACA 59.013 33.333 0.00 0.00 0.00 4.57
1491 1546 8.997323 GCTCAGAATCTTAGTTATTATGCACAT 58.003 33.333 0.00 0.00 0.00 3.21
1503 1558 9.926158 AGTTATTATGCACATGATTTGTTTCAA 57.074 25.926 0.00 0.00 36.00 2.69
1521 1576 0.096976 AAATGTACGCACGATGCAGC 59.903 50.000 9.95 0.00 45.36 5.25
1522 1577 1.705337 AATGTACGCACGATGCAGCC 61.705 55.000 0.00 0.00 45.36 4.85
1526 1581 0.955905 TACGCACGATGCAGCCTATA 59.044 50.000 0.00 0.00 45.36 1.31
1566 1628 9.696917 GATTAATGTTTATCATTCCATTCACCC 57.303 33.333 0.00 0.00 44.50 4.61
1568 1630 5.913137 TGTTTATCATTCCATTCACCCAC 57.087 39.130 0.00 0.00 0.00 4.61
1598 1660 2.359354 TTTGGGGTCACATCGCCG 60.359 61.111 0.00 0.00 42.29 6.46
1627 1689 0.040204 AGTTGGGAGCTTGGGAATGG 59.960 55.000 0.00 0.00 0.00 3.16
1628 1690 0.251787 GTTGGGAGCTTGGGAATGGT 60.252 55.000 0.00 0.00 0.00 3.55
1636 1698 3.182152 AGCTTGGGAATGGTGTAGTAGT 58.818 45.455 0.00 0.00 0.00 2.73
1637 1699 4.359105 AGCTTGGGAATGGTGTAGTAGTA 58.641 43.478 0.00 0.00 0.00 1.82
1638 1700 4.406003 AGCTTGGGAATGGTGTAGTAGTAG 59.594 45.833 0.00 0.00 0.00 2.57
1798 1868 5.273944 CAAACTGTTCTTTCCAGCTTGTAC 58.726 41.667 0.00 0.00 33.46 2.90
1905 1976 0.967380 CCCTCACTCAAATGCCCACC 60.967 60.000 0.00 0.00 0.00 4.61
1911 1982 2.102925 CACTCAAATGCCCACCAAGTTT 59.897 45.455 0.00 0.00 0.00 2.66
1964 2035 8.287904 TGGGTGAAAAGGAGATATATGGTAAT 57.712 34.615 0.00 0.00 0.00 1.89
1976 2047 6.616959 AGATATATGGTAATGGGCTAGCATCA 59.383 38.462 18.24 14.42 39.88 3.07
1988 2059 4.401925 GGCTAGCATCATTTTCCCTATGT 58.598 43.478 18.24 0.00 0.00 2.29
2019 2090 2.072298 CTGCTAAGACTCACTGTTGCC 58.928 52.381 0.00 0.00 0.00 4.52
2040 2111 4.610945 CCGCTGGCCTATTTCTTATTTTG 58.389 43.478 3.32 0.00 0.00 2.44
2055 2126 7.630242 TCTTATTTTGCCTGAACCTAAGATG 57.370 36.000 0.00 0.00 0.00 2.90
2063 2134 5.183713 TGCCTGAACCTAAGATGTTTGAATG 59.816 40.000 0.00 0.00 0.00 2.67
2066 2137 7.533426 CCTGAACCTAAGATGTTTGAATGAAG 58.467 38.462 0.00 0.00 0.00 3.02
2130 2201 9.334947 AGTGATATTTGAATGAAGGTCTACATG 57.665 33.333 0.00 0.00 0.00 3.21
2131 2202 9.330063 GTGATATTTGAATGAAGGTCTACATGA 57.670 33.333 0.00 0.00 0.00 3.07
2132 2203 9.904198 TGATATTTGAATGAAGGTCTACATGAA 57.096 29.630 0.00 0.00 0.00 2.57
2134 2205 9.911788 ATATTTGAATGAAGGTCTACATGAAGT 57.088 29.630 0.00 0.00 0.00 3.01
2135 2206 7.672983 TTTGAATGAAGGTCTACATGAAGTC 57.327 36.000 0.00 0.00 0.00 3.01
2136 2207 6.358974 TGAATGAAGGTCTACATGAAGTCA 57.641 37.500 0.00 0.00 0.00 3.41
2137 2208 6.768483 TGAATGAAGGTCTACATGAAGTCAA 58.232 36.000 0.00 0.00 0.00 3.18
2138 2209 6.650807 TGAATGAAGGTCTACATGAAGTCAAC 59.349 38.462 0.00 0.00 0.00 3.18
2139 2210 5.808366 TGAAGGTCTACATGAAGTCAACT 57.192 39.130 0.00 0.00 0.00 3.16
2140 2211 6.174720 TGAAGGTCTACATGAAGTCAACTT 57.825 37.500 0.00 0.00 39.23 2.66
2141 2212 6.591935 TGAAGGTCTACATGAAGTCAACTTT 58.408 36.000 0.00 0.00 36.11 2.66
2142 2213 7.732025 TGAAGGTCTACATGAAGTCAACTTTA 58.268 34.615 0.00 0.00 36.11 1.85
2143 2214 8.375506 TGAAGGTCTACATGAAGTCAACTTTAT 58.624 33.333 0.00 0.00 36.11 1.40
2144 2215 9.871238 GAAGGTCTACATGAAGTCAACTTTATA 57.129 33.333 0.00 0.00 36.11 0.98
2152 2223 9.944376 ACATGAAGTCAACTTTATATAGTGTGT 57.056 29.630 0.00 0.00 36.11 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.942342 TGCAGCTGCTCACAACTTGTG 61.942 52.381 36.61 14.79 43.39 3.33
17 18 0.954449 AGTGTGATGCAGCTGCTCAC 60.954 55.000 37.41 37.41 43.20 3.51
26 27 0.473755 AGTGACCCAAGTGTGATGCA 59.526 50.000 0.00 0.00 0.00 3.96
62 66 7.542025 AGTTCATTCTGCTAAATCATTTCCAC 58.458 34.615 0.00 0.00 0.00 4.02
89 93 3.900966 TCATCTGATTCCACTCACCTG 57.099 47.619 0.00 0.00 0.00 4.00
93 112 3.326006 GGGCTATCATCTGATTCCACTCA 59.674 47.826 0.00 0.00 36.05 3.41
94 113 3.307339 GGGGCTATCATCTGATTCCACTC 60.307 52.174 0.00 0.00 36.05 3.51
95 114 2.641815 GGGGCTATCATCTGATTCCACT 59.358 50.000 0.00 0.00 36.05 4.00
96 115 2.641815 AGGGGCTATCATCTGATTCCAC 59.358 50.000 0.00 2.25 36.05 4.02
97 116 2.995746 AGGGGCTATCATCTGATTCCA 58.004 47.619 0.00 0.00 36.05 3.53
98 117 3.454082 CCTAGGGGCTATCATCTGATTCC 59.546 52.174 0.00 1.10 36.05 3.01
99 118 4.357325 TCCTAGGGGCTATCATCTGATTC 58.643 47.826 9.46 0.00 36.05 2.52
100 119 4.426357 TCCTAGGGGCTATCATCTGATT 57.574 45.455 9.46 0.00 36.05 2.57
101 120 4.100373 GTTCCTAGGGGCTATCATCTGAT 58.900 47.826 9.46 0.00 38.51 2.90
102 121 3.116746 TGTTCCTAGGGGCTATCATCTGA 60.117 47.826 9.46 0.00 0.00 3.27
103 122 3.242867 TGTTCCTAGGGGCTATCATCTG 58.757 50.000 9.46 0.00 0.00 2.90
104 123 3.637821 TGTTCCTAGGGGCTATCATCT 57.362 47.619 9.46 0.00 0.00 2.90
105 124 4.141824 GCTATGTTCCTAGGGGCTATCATC 60.142 50.000 9.46 0.00 0.00 2.92
106 125 3.777522 GCTATGTTCCTAGGGGCTATCAT 59.222 47.826 9.46 3.19 0.00 2.45
122 141 1.133668 GGCTTTCCATCCAGGCTATGT 60.134 52.381 0.00 0.00 37.29 2.29
125 144 2.190398 TAGGCTTTCCATCCAGGCTA 57.810 50.000 0.00 0.00 43.80 3.93
229 248 1.770294 TCCGGCTTGGTTTGTTCTTT 58.230 45.000 0.00 0.00 39.52 2.52
237 256 1.698506 TGTTTGATTCCGGCTTGGTT 58.301 45.000 0.00 0.00 39.52 3.67
238 257 1.923356 ATGTTTGATTCCGGCTTGGT 58.077 45.000 0.00 0.00 39.52 3.67
250 269 5.344933 CACGATCACGAGAGTTTATGTTTGA 59.655 40.000 0.00 0.00 46.40 2.69
274 317 6.595716 AGCTAGGAATTGAGATTGTGTGTAAC 59.404 38.462 0.00 0.00 37.35 2.50
299 343 6.957020 AGGTTGATTATGGTTTATTGTTCCCA 59.043 34.615 0.00 0.00 0.00 4.37
325 369 2.545526 ACAGAATGAGCACACGAGTTTG 59.454 45.455 0.00 0.00 39.69 2.93
332 376 6.845302 TCATTGAAATACAGAATGAGCACAC 58.155 36.000 0.00 0.00 39.69 3.82
334 378 7.312657 TCTCATTGAAATACAGAATGAGCAC 57.687 36.000 13.66 0.00 40.67 4.40
343 387 7.974675 ACACCGTAAATCTCATTGAAATACAG 58.025 34.615 0.00 0.00 0.00 2.74
351 395 4.690748 ACAGTGACACCGTAAATCTCATTG 59.309 41.667 0.84 0.00 0.00 2.82
353 397 4.245660 CACAGTGACACCGTAAATCTCAT 58.754 43.478 0.84 0.00 0.00 2.90
363 407 1.083489 AACAACACACAGTGACACCG 58.917 50.000 7.81 0.00 36.96 4.94
369 413 1.333619 GCCAGGTAACAACACACAGTG 59.666 52.381 0.00 0.00 38.34 3.66
370 414 1.675552 GCCAGGTAACAACACACAGT 58.324 50.000 0.00 0.00 41.41 3.55
375 419 0.109723 TCCAGGCCAGGTAACAACAC 59.890 55.000 14.79 0.00 41.41 3.32
449 493 2.303311 GCTACAAAAGGAGGTCAGGTCT 59.697 50.000 0.00 0.00 0.00 3.85
467 511 2.134287 GGAGGTCATGGAGGCGCTA 61.134 63.158 7.64 0.00 0.00 4.26
765 812 0.398522 AGTCTGACCAGTGACCCACA 60.399 55.000 3.76 0.00 36.74 4.17
767 814 0.105709 TGAGTCTGACCAGTGACCCA 60.106 55.000 3.76 0.00 34.02 4.51
768 815 1.048601 TTGAGTCTGACCAGTGACCC 58.951 55.000 3.76 0.00 34.02 4.46
858 905 0.324943 TGGCTTCCCACTTACAGAGC 59.675 55.000 0.00 0.00 35.79 4.09
949 1003 0.535102 CGGCCTCTCTCTCTCTCTCC 60.535 65.000 0.00 0.00 0.00 3.71
951 1005 1.531748 CCGGCCTCTCTCTCTCTCT 59.468 63.158 0.00 0.00 0.00 3.10
1131 1186 0.465705 GGATGATCTTGGCGGTCTCA 59.534 55.000 0.00 0.00 0.00 3.27
1298 1353 4.227864 CCTGAAGGCAGAGTTAGGATTT 57.772 45.455 0.00 0.00 45.17 2.17
1321 1376 4.216257 CCAGTGAAACAAACCTAGACCATG 59.784 45.833 0.00 0.00 41.43 3.66
1329 1384 2.435372 TCAGCCAGTGAAACAAACCT 57.565 45.000 0.00 0.00 41.43 3.50
1423 1478 2.238847 CTCCATTCCAGGAACGGCGA 62.239 60.000 16.62 0.00 37.20 5.54
1465 1520 8.370493 TGTGCATAATAACTAAGATTCTGAGC 57.630 34.615 0.00 0.00 0.00 4.26
1477 1532 9.926158 TTGAAACAAATCATGTGCATAATAACT 57.074 25.926 0.00 0.00 42.99 2.24
1481 1536 9.221933 ACATTTGAAACAAATCATGTGCATAAT 57.778 25.926 6.73 0.00 42.99 1.28
1482 1537 8.604640 ACATTTGAAACAAATCATGTGCATAA 57.395 26.923 6.73 0.00 42.99 1.90
1483 1538 9.138062 GTACATTTGAAACAAATCATGTGCATA 57.862 29.630 6.73 0.00 42.99 3.14
1484 1539 7.148771 CGTACATTTGAAACAAATCATGTGCAT 60.149 33.333 6.73 0.00 42.99 3.96
1485 1540 6.143598 CGTACATTTGAAACAAATCATGTGCA 59.856 34.615 6.73 0.00 42.99 4.57
1486 1541 6.515882 CGTACATTTGAAACAAATCATGTGC 58.484 36.000 6.73 6.97 42.99 4.57
1487 1542 6.143598 TGCGTACATTTGAAACAAATCATGTG 59.856 34.615 6.73 1.28 42.99 3.21
1488 1543 6.143758 GTGCGTACATTTGAAACAAATCATGT 59.856 34.615 0.00 6.88 46.82 3.21
1489 1544 6.515882 GTGCGTACATTTGAAACAAATCATG 58.484 36.000 0.00 0.00 0.00 3.07
1490 1545 5.341993 CGTGCGTACATTTGAAACAAATCAT 59.658 36.000 4.09 2.47 0.00 2.45
1491 1546 4.672862 CGTGCGTACATTTGAAACAAATCA 59.327 37.500 4.09 0.64 0.00 2.57
1492 1547 4.907010 TCGTGCGTACATTTGAAACAAATC 59.093 37.500 4.09 0.00 0.00 2.17
1493 1548 4.849883 TCGTGCGTACATTTGAAACAAAT 58.150 34.783 4.09 4.22 0.00 2.32
1494 1549 4.274421 TCGTGCGTACATTTGAAACAAA 57.726 36.364 4.09 0.00 0.00 2.83
1495 1550 3.946308 TCGTGCGTACATTTGAAACAA 57.054 38.095 4.09 0.00 0.00 2.83
1496 1551 3.804688 CATCGTGCGTACATTTGAAACA 58.195 40.909 4.09 0.00 0.00 2.83
1497 1552 2.588106 GCATCGTGCGTACATTTGAAAC 59.412 45.455 4.09 0.00 31.71 2.78
1498 1553 2.845486 GCATCGTGCGTACATTTGAAA 58.155 42.857 4.09 0.00 31.71 2.69
1499 1554 2.519002 GCATCGTGCGTACATTTGAA 57.481 45.000 4.09 0.00 31.71 2.69
1521 1576 9.836076 CATTAATCATGTGCATTTCACTATAGG 57.164 33.333 4.43 0.00 45.81 2.57
1562 1624 4.261741 CCAAACAGAAATCTGAAGTGGGTG 60.262 45.833 16.93 4.31 46.59 4.61
1566 1628 3.891366 ACCCCAAACAGAAATCTGAAGTG 59.109 43.478 16.93 10.49 46.59 3.16
1568 1630 4.022849 GTGACCCCAAACAGAAATCTGAAG 60.023 45.833 16.93 6.10 46.59 3.02
1598 1660 3.828875 AGCTCCCAACTATCTAAGCAC 57.171 47.619 0.00 0.00 32.25 4.40
1627 1689 7.958053 AATGTTTGGTGTTCTACTACTACAC 57.042 36.000 0.00 0.00 41.01 2.90
1628 1690 7.816031 GCTAATGTTTGGTGTTCTACTACTACA 59.184 37.037 0.00 0.00 0.00 2.74
1636 1698 4.759693 CCAGTGCTAATGTTTGGTGTTCTA 59.240 41.667 0.00 0.00 0.00 2.10
1637 1699 3.569701 CCAGTGCTAATGTTTGGTGTTCT 59.430 43.478 0.00 0.00 0.00 3.01
1638 1700 3.317993 ACCAGTGCTAATGTTTGGTGTTC 59.682 43.478 0.00 0.00 40.47 3.18
1905 1976 5.523916 CGGGGATAAGTCATGAGTAAACTTG 59.476 44.000 2.79 0.00 35.08 3.16
1911 1982 3.228453 GTCCGGGGATAAGTCATGAGTA 58.772 50.000 2.79 0.00 0.00 2.59
1964 2035 1.570501 AGGGAAAATGATGCTAGCCCA 59.429 47.619 13.29 10.81 36.55 5.36
1976 2047 4.638865 GCGAGGTAACAACATAGGGAAAAT 59.361 41.667 0.00 0.00 41.41 1.82
1988 2059 2.561419 AGTCTTAGCAGCGAGGTAACAA 59.439 45.455 0.00 0.00 35.40 2.83
2019 2090 4.044426 GCAAAATAAGAAATAGGCCAGCG 58.956 43.478 5.01 0.00 0.00 5.18
2040 2111 5.415701 TCATTCAAACATCTTAGGTTCAGGC 59.584 40.000 0.00 0.00 0.00 4.85
2055 2126 8.939929 TGACTTCATGTAGATCTTCATTCAAAC 58.060 33.333 11.78 5.67 0.00 2.93
2110 2181 7.884877 TGACTTCATGTAGACCTTCATTCAAAT 59.115 33.333 6.32 0.00 0.00 2.32
2111 2182 7.223584 TGACTTCATGTAGACCTTCATTCAAA 58.776 34.615 6.32 0.00 0.00 2.69
2112 2183 6.768483 TGACTTCATGTAGACCTTCATTCAA 58.232 36.000 6.32 0.00 0.00 2.69
2113 2184 6.358974 TGACTTCATGTAGACCTTCATTCA 57.641 37.500 6.32 0.00 0.00 2.57
2114 2185 6.876257 AGTTGACTTCATGTAGACCTTCATTC 59.124 38.462 6.32 0.00 0.00 2.67
2115 2186 6.773638 AGTTGACTTCATGTAGACCTTCATT 58.226 36.000 6.32 0.00 0.00 2.57
2116 2187 6.365970 AGTTGACTTCATGTAGACCTTCAT 57.634 37.500 6.32 0.00 0.00 2.57
2117 2188 5.808366 AGTTGACTTCATGTAGACCTTCA 57.192 39.130 6.32 0.00 0.00 3.02
2118 2189 8.779354 ATAAAGTTGACTTCATGTAGACCTTC 57.221 34.615 6.32 0.00 34.61 3.46
2126 2197 9.944376 ACACACTATATAAAGTTGACTTCATGT 57.056 29.630 0.00 0.00 34.61 3.21
2145 2216 9.416284 TCTGGATATCACTAAATGTACACACTA 57.584 33.333 4.83 0.00 0.00 2.74
2146 2217 8.198109 GTCTGGATATCACTAAATGTACACACT 58.802 37.037 4.83 0.00 0.00 3.55
2147 2218 7.979537 TGTCTGGATATCACTAAATGTACACAC 59.020 37.037 4.83 0.00 0.00 3.82
2148 2219 8.073467 TGTCTGGATATCACTAAATGTACACA 57.927 34.615 4.83 0.00 0.00 3.72
2149 2220 8.818057 GTTGTCTGGATATCACTAAATGTACAC 58.182 37.037 4.83 0.00 0.00 2.90
2150 2221 8.758829 AGTTGTCTGGATATCACTAAATGTACA 58.241 33.333 4.83 0.00 0.00 2.90
2234 2305 9.500785 TGATGATGGCTAATAAATTACGAATCA 57.499 29.630 0.00 0.00 0.00 2.57
2247 2318 7.555554 GCCAGATAAAGTATGATGATGGCTAAT 59.444 37.037 5.17 0.00 45.60 1.73
2264 2336 3.620427 TTCAGCGTTAGGCCAGATAAA 57.380 42.857 5.01 0.00 45.17 1.40


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

AutoCloner maintained by Alex Coulton.