Multiple sequence alignment - TraesCS1A01G443800

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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 TraesCS1A01G443800 chr1A 100.000 2885 0 0 1 2885 591958346 591955462 0.000000e+00 5328.0
1 TraesCS1A01G443800 chr1B 90.067 1802 85 43 146 1903 686759400 686757649 0.000000e+00 2250.0
2 TraesCS1A01G443800 chr1B 88.975 907 29 21 2020 2860 686757557 686756656 0.000000e+00 1055.0
3 TraesCS1A01G443800 chr1B 94.000 150 7 2 1 149 686759576 686759428 2.890000e-55 226.0
4 TraesCS1A01G443800 chr1D 89.525 1537 97 27 466 1947 493714409 493712882 0.000000e+00 1888.0
5 TraesCS1A01G443800 chr1D 91.658 911 31 19 2015 2885 493712854 493711949 0.000000e+00 1219.0
6 TraesCS1A01G443800 chr1D 94.558 147 7 1 1 147 493714874 493714729 2.890000e-55 226.0
7 TraesCS1A01G443800 chr1D 88.000 125 7 1 329 453 493714575 493714459 1.080000e-29 141.0
8 TraesCS1A01G443800 chr3B 73.857 547 111 18 145 670 41242774 41242239 3.790000e-44 189.0
9 TraesCS1A01G443800 chr7B 73.540 548 111 19 145 670 740021071 740021606 8.210000e-41 178.0
10 TraesCS1A01G443800 chr7B 90.476 42 4 0 241 282 336832335 336832294 4.020000e-04 56.5
11 TraesCS1A01G443800 chr6A 77.660 188 42 0 142 329 46561836 46562023 6.530000e-22 115.0
12 TraesCS1A01G443800 chr6A 86.207 58 8 0 233 290 137569445 137569388 2.400000e-06 63.9
13 TraesCS1A01G443800 chr6B 76.966 178 37 3 145 320 302158 302333 6.580000e-17 99.0
14 TraesCS1A01G443800 chr6D 97.561 41 1 0 233 273 193790581 193790541 1.430000e-08 71.3
15 TraesCS1A01G443800 chr6D 87.931 58 7 0 233 290 112487657 112487600 5.160000e-08 69.4


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 TraesCS1A01G443800 chr1A 591955462 591958346 2884 True 5328.0 5328 100.00000 1 2885 1 chr1A.!!$R1 2884
1 TraesCS1A01G443800 chr1B 686756656 686759576 2920 True 1177.0 2250 91.01400 1 2860 3 chr1B.!!$R1 2859
2 TraesCS1A01G443800 chr1D 493711949 493714874 2925 True 868.5 1888 90.93525 1 2885 4 chr1D.!!$R1 2884

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
124 126 0.178831 AAGGAGAATGGGGGTCACCT 60.179 55.0 0.0 0.0 37.65 4.00 F
1068 1201 0.109086 CACACGTACTGCTCCTCCTG 60.109 60.0 0.0 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1273 1469 0.039708 GGTGTTGCTTCTGCTTCTGC 60.040 55.0 0.0 0.0 40.48 4.26 R
1978 2219 0.253207 GGGAGGGAGGAAGGAAGGAA 60.253 60.0 0.0 0.0 0.00 3.36 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
32 33 0.543277 GATGAGGTCAGGTGCCATGA 59.457 55.000 0.00 0.00 0.00 3.07
81 82 6.709846 GCATTCTTTATCATCTTAGTGAGGCT 59.290 38.462 0.00 0.00 0.00 4.58
89 90 4.837298 TCATCTTAGTGAGGCTATCAGCAT 59.163 41.667 0.00 0.00 44.75 3.79
124 126 0.178831 AAGGAGAATGGGGGTCACCT 60.179 55.000 0.00 0.00 37.65 4.00
125 127 0.722676 AGGAGAATGGGGGTCACCTA 59.277 55.000 0.00 0.00 34.70 3.08
161 194 0.796312 ACTTTGATGCTAACCGTGCG 59.204 50.000 0.00 0.00 0.00 5.34
193 227 1.911357 TCTGCTTGATCCATCCACACT 59.089 47.619 0.00 0.00 0.00 3.55
219 257 5.753921 GGTATCACTAAATCCTCGGAGTTTG 59.246 44.000 3.82 5.13 34.21 2.93
265 303 7.232127 CCCAATTCACCTTATCATATGCTTTCT 59.768 37.037 0.00 0.00 0.00 2.52
279 317 4.853924 TGCTTTCTCAAAGTCCAATTCC 57.146 40.909 0.00 0.00 40.64 3.01
320 359 8.328758 TCTTTTCTTCACATGGGTATAGTTCAT 58.671 33.333 0.00 0.00 0.00 2.57
420 477 5.191426 ACTTAGCTACCTGACGATCTAACA 58.809 41.667 0.00 0.00 0.00 2.41
446 503 7.390718 ACCTTAGTTAACAGCTTATTTGGACAG 59.609 37.037 8.61 0.00 0.00 3.51
447 504 7.390718 CCTTAGTTAACAGCTTATTTGGACAGT 59.609 37.037 8.61 0.00 0.00 3.55
455 512 3.612479 GCTTATTTGGACAGTGCAACAGG 60.612 47.826 7.05 0.56 41.43 4.00
473 567 1.111277 GGCAAATAGGCCGGAATTGT 58.889 50.000 5.05 0.00 45.40 2.71
482 576 1.134946 GGCCGGAATTGTTGAATCCTG 59.865 52.381 5.05 0.00 0.00 3.86
483 577 1.469767 GCCGGAATTGTTGAATCCTGC 60.470 52.381 5.05 0.00 0.00 4.85
557 657 3.582998 ACATCCAGTGTCCCATTATGG 57.417 47.619 3.85 3.85 35.77 2.74
617 723 2.621998 CTCCCAGCATGCCTGATAAAAG 59.378 50.000 15.66 0.00 44.64 2.27
620 726 2.032550 CCAGCATGCCTGATAAAAGTCG 59.967 50.000 15.66 0.00 44.64 4.18
681 787 3.883830 TTGCAAACAAAGCTTCCTTCA 57.116 38.095 0.00 0.00 31.21 3.02
686 793 4.677779 GCAAACAAAGCTTCCTTCACTTGA 60.678 41.667 0.00 0.00 0.00 3.02
687 794 5.594926 CAAACAAAGCTTCCTTCACTTGAT 58.405 37.500 0.00 0.00 0.00 2.57
736 843 7.036829 TCGATATTGTCATCTTCGTTTAACCA 58.963 34.615 0.00 0.00 0.00 3.67
738 845 7.010183 CGATATTGTCATCTTCGTTTAACCACT 59.990 37.037 0.00 0.00 0.00 4.00
739 846 5.917541 TTGTCATCTTCGTTTAACCACTC 57.082 39.130 0.00 0.00 0.00 3.51
740 847 3.985279 TGTCATCTTCGTTTAACCACTCG 59.015 43.478 0.00 0.00 0.00 4.18
741 848 4.232221 GTCATCTTCGTTTAACCACTCGA 58.768 43.478 0.00 0.00 0.00 4.04
761 868 6.368791 ACTCGATCGTTTCAAGATGAAAATGA 59.631 34.615 15.94 8.70 46.53 2.57
896 1021 2.039418 GCCAACCAAACTCCTTTCCTT 58.961 47.619 0.00 0.00 0.00 3.36
918 1043 0.251634 CTCTCCACTCCTCCTTTGGC 59.748 60.000 0.00 0.00 0.00 4.52
927 1052 1.843851 TCCTCCTTTGGCGGTGATATT 59.156 47.619 0.00 0.00 0.00 1.28
928 1053 3.042682 TCCTCCTTTGGCGGTGATATTA 58.957 45.455 0.00 0.00 0.00 0.98
932 1057 5.160607 TCCTTTGGCGGTGATATTATAGG 57.839 43.478 0.00 0.00 0.00 2.57
933 1058 4.841813 TCCTTTGGCGGTGATATTATAGGA 59.158 41.667 0.00 0.00 0.00 2.94
934 1059 5.046591 TCCTTTGGCGGTGATATTATAGGAG 60.047 44.000 0.00 0.00 0.00 3.69
935 1060 4.819105 TTGGCGGTGATATTATAGGAGG 57.181 45.455 0.00 0.00 0.00 4.30
936 1061 3.104512 TGGCGGTGATATTATAGGAGGG 58.895 50.000 0.00 0.00 0.00 4.30
1068 1201 0.109086 CACACGTACTGCTCCTCCTG 60.109 60.000 0.00 0.00 0.00 3.86
1082 1215 3.095163 CCTGCTCCTCCTGGGCAT 61.095 66.667 0.00 0.00 38.31 4.40
1185 1351 1.726865 CGACCAACAACAGCAGCAA 59.273 52.632 0.00 0.00 0.00 3.91
1210 1376 2.039804 CGTCGTCATCATCATCGTCTG 58.960 52.381 0.00 0.00 0.00 3.51
1230 1405 1.268386 GCAGCAACACCATCATCATCG 60.268 52.381 0.00 0.00 0.00 3.84
1257 1453 1.012086 CAGGAGCAACACCATCATCG 58.988 55.000 0.00 0.00 0.00 3.84
1258 1454 0.745845 AGGAGCAACACCATCATCGC 60.746 55.000 0.00 0.00 0.00 4.58
1479 1687 2.046314 AAGGTGCGCGCCAAGTAT 60.046 55.556 39.02 17.90 0.00 2.12
1516 1724 4.021925 GGGACAAGACGCTGGCCT 62.022 66.667 3.32 0.00 44.85 5.19
1990 2231 9.875725 ATTATATATTACCCTTCCTTCCTTCCT 57.124 33.333 0.00 0.00 0.00 3.36
1991 2232 7.816300 ATATATTACCCTTCCTTCCTTCCTC 57.184 40.000 0.00 0.00 0.00 3.71
1992 2233 2.265526 TACCCTTCCTTCCTTCCTCC 57.734 55.000 0.00 0.00 0.00 4.30
1993 2234 0.550393 ACCCTTCCTTCCTTCCTCCC 60.550 60.000 0.00 0.00 0.00 4.30
1994 2235 0.253394 CCCTTCCTTCCTTCCTCCCT 60.253 60.000 0.00 0.00 0.00 4.20
1995 2236 1.208706 CCTTCCTTCCTTCCTCCCTC 58.791 60.000 0.00 0.00 0.00 4.30
1996 2237 1.208706 CTTCCTTCCTTCCTCCCTCC 58.791 60.000 0.00 0.00 0.00 4.30
1997 2238 0.253207 TTCCTTCCTTCCTCCCTCCC 60.253 60.000 0.00 0.00 0.00 4.30
1998 2239 1.162951 TCCTTCCTTCCTCCCTCCCT 61.163 60.000 0.00 0.00 0.00 4.20
1999 2240 0.692756 CCTTCCTTCCTCCCTCCCTC 60.693 65.000 0.00 0.00 0.00 4.30
2000 2241 0.692756 CTTCCTTCCTCCCTCCCTCC 60.693 65.000 0.00 0.00 0.00 4.30
2001 2242 2.040359 CCTTCCTCCCTCCCTCCC 60.040 72.222 0.00 0.00 0.00 4.30
2002 2243 2.652113 CCTTCCTCCCTCCCTCCCT 61.652 68.421 0.00 0.00 0.00 4.20
2003 2244 1.074850 CTTCCTCCCTCCCTCCCTC 60.075 68.421 0.00 0.00 0.00 4.30
2004 2245 2.613576 CTTCCTCCCTCCCTCCCTCC 62.614 70.000 0.00 0.00 0.00 4.30
2005 2246 4.179599 CCTCCCTCCCTCCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
2006 2247 3.039526 CTCCCTCCCTCCCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
2007 2248 3.036959 TCCCTCCCTCCCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
2008 2249 4.179599 CCCTCCCTCCCTCCCTCC 62.180 77.778 0.00 0.00 0.00 4.30
2009 2250 4.179599 CCTCCCTCCCTCCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
2010 2251 3.039526 CTCCCTCCCTCCCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
2011 2252 3.036959 TCCCTCCCTCCCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
2012 2253 3.368501 CCCTCCCTCCCTCCCTCA 61.369 72.222 0.00 0.00 0.00 3.86
2013 2254 2.041405 CCTCCCTCCCTCCCTCAC 60.041 72.222 0.00 0.00 0.00 3.51
2135 2385 1.327156 GCGATTTCTCTTCTCTGCTGC 59.673 52.381 0.00 0.00 0.00 5.25
2370 2635 4.158025 AACCTACGGTACAGATTGACTGAG 59.842 45.833 0.00 0.00 41.37 3.35
2544 2809 2.825086 ACGCAGTCAACAAACAACTC 57.175 45.000 0.00 0.00 29.74 3.01
2620 2905 0.538516 AAAGGGGCACGCACATGTTA 60.539 50.000 0.00 0.00 46.88 2.41
2623 2908 1.029408 GGGGCACGCACATGTTATCA 61.029 55.000 0.00 0.00 42.57 2.15
2641 2926 3.114643 TCACCCCTGATGATGTACAGA 57.885 47.619 0.33 0.00 36.38 3.41
2644 2929 2.118679 CCCCTGATGATGTACAGACCA 58.881 52.381 0.33 0.00 36.38 4.02
2682 2967 1.648720 CCTCCTGCAACACAACACG 59.351 57.895 0.00 0.00 0.00 4.49
2684 2969 2.026014 CCTGCAACACAACACGGC 59.974 61.111 0.00 0.00 0.00 5.68
2715 3000 0.621862 GGGAGATTGACAGGGAGGGT 60.622 60.000 0.00 0.00 0.00 4.34
2847 3170 7.833285 TTACAAAAAGGAGCCTAACAGAAAT 57.167 32.000 0.00 0.00 0.00 2.17
2865 3188 5.009210 CAGAAATACCGAAACTGGAAAACCA 59.991 40.000 0.00 0.00 0.00 3.67
2872 3195 3.638484 GAAACTGGAAAACCAATCACCG 58.362 45.455 0.00 0.00 0.00 4.94
2876 3199 1.271934 TGGAAAACCAATCACCGCATG 59.728 47.619 0.00 0.00 0.00 4.06
2881 3204 2.777972 CCAATCACCGCATGGGCAG 61.778 63.158 3.80 0.00 41.24 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 6.299141 TCACTAAGATGATAAAGAATGCCCC 58.701 40.000 0.00 0.00 0.00 5.80
124 126 0.320421 GTGCCAAAGGAGTGCGTCTA 60.320 55.000 0.00 0.00 0.00 2.59
125 127 1.598130 GTGCCAAAGGAGTGCGTCT 60.598 57.895 0.00 0.00 0.00 4.18
161 194 6.236409 TGGATCAAGCAGATTCTCCATAATC 58.764 40.000 0.00 0.00 37.00 1.75
193 227 5.950023 ACTCCGAGGATTTAGTGATACCTA 58.050 41.667 0.00 0.00 0.00 3.08
219 257 3.623510 GGGATTTTCTCCTCGAATGTCAC 59.376 47.826 0.00 0.00 44.28 3.67
265 303 3.383185 GTGGTGTTGGAATTGGACTTTGA 59.617 43.478 0.00 0.00 0.00 2.69
279 317 3.387699 AGAAAAGAATTGGGGTGGTGTTG 59.612 43.478 0.00 0.00 0.00 3.33
320 359 7.809238 AGGAAGAAATATCATGGATGAACTCA 58.191 34.615 0.00 0.00 40.69 3.41
364 421 5.941788 AGTTAATTAGCCCTACCCAGAATG 58.058 41.667 0.00 0.00 0.00 2.67
365 422 6.069029 ACAAGTTAATTAGCCCTACCCAGAAT 60.069 38.462 0.00 0.00 0.00 2.40
420 477 7.228590 TGTCCAAATAAGCTGTTAACTAAGGT 58.771 34.615 7.22 0.00 0.00 3.50
439 496 3.840437 GCCTGTTGCACTGTCCAA 58.160 55.556 0.00 0.00 40.77 3.53
455 512 2.165437 TCAACAATTCCGGCCTATTTGC 59.835 45.455 0.00 0.00 0.00 3.68
473 567 2.360191 GGGGCTGGCAGGATTCAA 59.640 61.111 17.64 0.00 0.00 2.69
482 576 1.302832 CAAGATATCCGGGGCTGGC 60.303 63.158 0.00 0.00 0.00 4.85
483 577 1.376466 CCAAGATATCCGGGGCTGG 59.624 63.158 0.00 0.00 0.00 4.85
557 657 5.689383 TTATGTCCTTGTTCAAGCACTTC 57.311 39.130 7.90 0.00 0.00 3.01
583 689 1.680249 GCTGGGAGATTGTCAAGGACC 60.680 57.143 0.00 0.00 0.00 4.46
617 723 2.567615 ACCAGATAATATCCCTGCCGAC 59.432 50.000 0.00 0.00 0.00 4.79
620 726 2.912956 TGGACCAGATAATATCCCTGCC 59.087 50.000 0.00 0.00 0.00 4.85
686 793 8.588290 ATCTGTGTAGAGAGTTTAGTGAGAAT 57.412 34.615 0.00 0.00 36.14 2.40
687 794 7.148390 CGATCTGTGTAGAGAGTTTAGTGAGAA 60.148 40.741 0.00 0.00 36.14 2.87
736 843 6.368791 TCATTTTCATCTTGAAACGATCGAGT 59.631 34.615 24.34 8.71 45.03 4.18
738 845 6.720012 TCATTTTCATCTTGAAACGATCGA 57.280 33.333 24.34 0.00 45.03 3.59
739 846 7.959718 AATCATTTTCATCTTGAAACGATCG 57.040 32.000 14.88 14.88 45.03 3.69
740 847 9.226345 GGTAATCATTTTCATCTTGAAACGATC 57.774 33.333 2.31 0.00 45.03 3.69
741 848 8.739039 TGGTAATCATTTTCATCTTGAAACGAT 58.261 29.630 2.31 5.53 45.03 3.73
761 868 3.971971 ACTAATAACCGGCTCCTGGTAAT 59.028 43.478 0.00 0.00 39.29 1.89
885 1010 2.640332 GTGGAGAGGAAAGGAAAGGAGT 59.360 50.000 0.00 0.00 0.00 3.85
896 1021 2.260822 CAAAGGAGGAGTGGAGAGGAA 58.739 52.381 0.00 0.00 0.00 3.36
918 1043 7.655521 TTGATACCCTCCTATAATATCACCG 57.344 40.000 0.00 0.00 33.19 4.94
927 1052 5.427157 TGCAACTGTTTGATACCCTCCTATA 59.573 40.000 0.00 0.00 34.24 1.31
928 1053 4.227300 TGCAACTGTTTGATACCCTCCTAT 59.773 41.667 0.00 0.00 34.24 2.57
932 1057 3.378427 GGATGCAACTGTTTGATACCCTC 59.622 47.826 0.00 0.00 34.24 4.30
933 1058 3.245229 TGGATGCAACTGTTTGATACCCT 60.245 43.478 0.00 0.00 34.24 4.34
934 1059 3.088532 TGGATGCAACTGTTTGATACCC 58.911 45.455 0.00 0.00 34.24 3.69
935 1060 3.426159 CGTGGATGCAACTGTTTGATACC 60.426 47.826 0.00 0.00 34.24 2.73
936 1061 3.188460 ACGTGGATGCAACTGTTTGATAC 59.812 43.478 0.00 0.00 34.24 2.24
1068 1201 4.891037 GCCATGCCCAGGAGGAGC 62.891 72.222 0.00 0.00 38.24 4.70
1132 1265 0.396435 CTGCTGGTGGTGGTGTAGAA 59.604 55.000 0.00 0.00 0.00 2.10
1185 1351 0.382158 ATGATGATGACGACGACGCT 59.618 50.000 7.30 0.00 43.96 5.07
1195 1361 1.137479 TGCTGCAGACGATGATGATGA 59.863 47.619 20.43 0.00 0.00 2.92
1210 1376 1.268386 CGATGATGATGGTGTTGCTGC 60.268 52.381 0.00 0.00 0.00 5.25
1273 1469 0.039708 GGTGTTGCTTCTGCTTCTGC 60.040 55.000 0.00 0.00 40.48 4.26
1274 1470 1.311859 TGGTGTTGCTTCTGCTTCTG 58.688 50.000 0.00 0.00 40.48 3.02
1275 1471 2.157738 GATGGTGTTGCTTCTGCTTCT 58.842 47.619 0.00 0.00 40.48 2.85
1276 1472 1.881973 TGATGGTGTTGCTTCTGCTTC 59.118 47.619 0.00 0.00 40.48 3.86
1277 1473 1.985473 TGATGGTGTTGCTTCTGCTT 58.015 45.000 0.00 0.00 40.48 3.91
1278 1474 2.089980 GATGATGGTGTTGCTTCTGCT 58.910 47.619 0.00 0.00 40.48 4.24
1414 1622 1.921869 ATGCCCTTGTAGAACCCCGG 61.922 60.000 0.00 0.00 0.00 5.73
1965 2206 9.335211 GAGGAAGGAAGGAAGGGTAATATATAA 57.665 37.037 0.00 0.00 0.00 0.98
1967 2208 6.736179 GGAGGAAGGAAGGAAGGGTAATATAT 59.264 42.308 0.00 0.00 0.00 0.86
1968 2209 6.089502 GGAGGAAGGAAGGAAGGGTAATATA 58.910 44.000 0.00 0.00 0.00 0.86
1970 2211 4.304659 GGAGGAAGGAAGGAAGGGTAATA 58.695 47.826 0.00 0.00 0.00 0.98
1971 2212 3.124066 GGAGGAAGGAAGGAAGGGTAAT 58.876 50.000 0.00 0.00 0.00 1.89
1972 2213 2.558974 GGAGGAAGGAAGGAAGGGTAA 58.441 52.381 0.00 0.00 0.00 2.85
1973 2214 1.274242 GGGAGGAAGGAAGGAAGGGTA 60.274 57.143 0.00 0.00 0.00 3.69
1974 2215 0.550393 GGGAGGAAGGAAGGAAGGGT 60.550 60.000 0.00 0.00 0.00 4.34
1975 2216 0.253394 AGGGAGGAAGGAAGGAAGGG 60.253 60.000 0.00 0.00 0.00 3.95
1976 2217 1.208706 GAGGGAGGAAGGAAGGAAGG 58.791 60.000 0.00 0.00 0.00 3.46
1977 2218 1.208706 GGAGGGAGGAAGGAAGGAAG 58.791 60.000 0.00 0.00 0.00 3.46
1978 2219 0.253207 GGGAGGGAGGAAGGAAGGAA 60.253 60.000 0.00 0.00 0.00 3.36
1979 2220 1.162951 AGGGAGGGAGGAAGGAAGGA 61.163 60.000 0.00 0.00 0.00 3.36
1980 2221 0.692756 GAGGGAGGGAGGAAGGAAGG 60.693 65.000 0.00 0.00 0.00 3.46
1981 2222 0.692756 GGAGGGAGGGAGGAAGGAAG 60.693 65.000 0.00 0.00 0.00 3.46
1982 2223 1.396594 GGAGGGAGGGAGGAAGGAA 59.603 63.158 0.00 0.00 0.00 3.36
1983 2224 2.647949 GGGAGGGAGGGAGGAAGGA 61.648 68.421 0.00 0.00 0.00 3.36
1984 2225 2.040359 GGGAGGGAGGGAGGAAGG 60.040 72.222 0.00 0.00 0.00 3.46
1985 2226 1.074850 GAGGGAGGGAGGGAGGAAG 60.075 68.421 0.00 0.00 0.00 3.46
1986 2227 2.647949 GGAGGGAGGGAGGGAGGAA 61.648 68.421 0.00 0.00 0.00 3.36
1987 2228 3.036959 GGAGGGAGGGAGGGAGGA 61.037 72.222 0.00 0.00 0.00 3.71
1988 2229 4.179599 GGGAGGGAGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
1989 2230 3.039526 AGGGAGGGAGGGAGGGAG 61.040 72.222 0.00 0.00 0.00 4.30
1990 2231 3.036959 GAGGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
1991 2232 4.179599 GGAGGGAGGGAGGGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
1992 2233 4.179599 GGGAGGGAGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
1993 2234 3.039526 AGGGAGGGAGGGAGGGAG 61.040 72.222 0.00 0.00 0.00 4.30
1994 2235 3.036959 GAGGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
1995 2236 3.368501 TGAGGGAGGGAGGGAGGG 61.369 72.222 0.00 0.00 0.00 4.30
1996 2237 2.041405 GTGAGGGAGGGAGGGAGG 60.041 72.222 0.00 0.00 0.00 4.30
1997 2238 1.053264 CATGTGAGGGAGGGAGGGAG 61.053 65.000 0.00 0.00 0.00 4.30
1998 2239 1.003442 CATGTGAGGGAGGGAGGGA 59.997 63.158 0.00 0.00 0.00 4.20
1999 2240 2.750657 GCATGTGAGGGAGGGAGGG 61.751 68.421 0.00 0.00 0.00 4.30
2000 2241 1.565390 TTGCATGTGAGGGAGGGAGG 61.565 60.000 0.00 0.00 0.00 4.30
2001 2242 0.549950 ATTGCATGTGAGGGAGGGAG 59.450 55.000 0.00 0.00 0.00 4.30
2002 2243 0.256752 CATTGCATGTGAGGGAGGGA 59.743 55.000 0.00 0.00 0.00 4.20
2003 2244 1.389609 GCATTGCATGTGAGGGAGGG 61.390 60.000 3.15 0.00 0.00 4.30
2004 2245 0.681887 TGCATTGCATGTGAGGGAGG 60.682 55.000 7.38 0.00 31.71 4.30
2005 2246 2.876581 TGCATTGCATGTGAGGGAG 58.123 52.632 7.38 0.00 31.71 4.30
2025 2266 5.585820 AGATGATACACATTTGCATTGCA 57.414 34.783 7.38 7.38 39.56 4.08
2026 2267 6.415867 GTGTAGATGATACACATTTGCATTGC 59.584 38.462 12.12 0.46 45.13 3.56
2027 2268 7.903452 GTGTAGATGATACACATTTGCATTG 57.097 36.000 12.12 0.00 45.13 2.82
2234 2497 5.393569 CGGTCATGTTCTTGTATGAGAGAGT 60.394 44.000 0.00 0.00 34.25 3.24
2529 2794 7.607250 TGTAAAAATGGAGTTGTTTGTTGACT 58.393 30.769 0.00 0.00 0.00 3.41
2587 2865 2.749621 GCCCCTTTCACTTCTGTACATG 59.250 50.000 0.00 0.00 0.00 3.21
2588 2866 2.375174 TGCCCCTTTCACTTCTGTACAT 59.625 45.455 0.00 0.00 0.00 2.29
2589 2867 1.771854 TGCCCCTTTCACTTCTGTACA 59.228 47.619 0.00 0.00 0.00 2.90
2590 2868 2.152016 GTGCCCCTTTCACTTCTGTAC 58.848 52.381 0.00 0.00 0.00 2.90
2591 2869 1.270625 CGTGCCCCTTTCACTTCTGTA 60.271 52.381 0.00 0.00 32.54 2.74
2620 2905 3.389329 GTCTGTACATCATCAGGGGTGAT 59.611 47.826 0.00 0.00 36.79 3.06
2623 2908 2.119495 GGTCTGTACATCATCAGGGGT 58.881 52.381 0.00 0.00 33.13 4.95
2641 2926 0.764890 TACAGCAGCTTGTCCTTGGT 59.235 50.000 0.00 0.00 32.56 3.67
2644 2929 1.002544 GGAGTACAGCAGCTTGTCCTT 59.997 52.381 0.00 0.00 32.56 3.36
2715 3000 9.261180 CACTGACTCTTCTTGTTGAGTTTTATA 57.739 33.333 0.00 0.00 42.79 0.98
2865 3188 1.750399 GTCTGCCCATGCGGTGATT 60.750 57.895 2.68 0.00 44.62 2.57


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

AutoCloner maintained by Alex Coulton.