Multiple sequence alignment - TraesCS2B01G577600

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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 TraesCS2B01G577600 chr2B 100.000 2234 0 0 1 2234 765875478 765873245 0.000000e+00 4126.0
1 TraesCS2B01G577600 chr2B 100.000 38 0 0 345 382 765875020 765874983 1.110000e-08 71.3
2 TraesCS2B01G577600 chr1D 87.659 1021 106 15 1214 2221 146075680 146074667 0.000000e+00 1170.0
3 TraesCS2B01G577600 chr1D 92.807 709 49 2 505 1212 222406618 222407325 0.000000e+00 1026.0
4 TraesCS2B01G577600 chr1D 92.086 278 15 4 60 330 34529990 34529713 3.480000e-103 385.0
5 TraesCS2B01G577600 chr1D 96.491 57 2 0 431 487 34529638 34529582 6.570000e-16 95.3
6 TraesCS2B01G577600 chr7D 87.282 1030 114 14 1213 2234 481036949 481037969 0.000000e+00 1160.0
7 TraesCS2B01G577600 chr7D 86.686 1029 124 12 1212 2234 280960813 280961834 0.000000e+00 1129.0
8 TraesCS2B01G577600 chr7D 93.475 705 45 1 509 1212 166249332 166248628 0.000000e+00 1046.0
9 TraesCS2B01G577600 chr7D 92.713 494 33 3 1216 1707 54622103 54622595 0.000000e+00 710.0
10 TraesCS2B01G577600 chr7D 96.073 331 12 1 1 330 637921994 637921664 2.520000e-149 538.0
11 TraesCS2B01G577600 chr7D 95.770 331 13 1 1 330 637894996 637894666 1.170000e-147 532.0
12 TraesCS2B01G577600 chr7D 93.958 331 19 1 1 330 116833715 116834045 1.190000e-137 499.0
13 TraesCS2B01G577600 chr7D 87.798 336 31 4 1 330 511515271 511514940 3.480000e-103 385.0
14 TraesCS2B01G577600 chr7D 96.552 58 2 0 431 488 116834120 116834177 1.830000e-16 97.1
15 TraesCS2B01G577600 chr7D 95.082 61 3 0 431 491 637894591 637894531 1.830000e-16 97.1
16 TraesCS2B01G577600 chr7D 95.082 61 3 0 431 491 637921589 637921529 1.830000e-16 97.1
17 TraesCS2B01G577600 chr3D 93.470 781 42 3 1 772 485216859 485217639 0.000000e+00 1151.0
18 TraesCS2B01G577600 chr4D 93.680 712 43 2 505 1215 328178585 328177875 0.000000e+00 1064.0
19 TraesCS2B01G577600 chr4D 92.480 492 35 2 1216 1706 453194496 453194986 0.000000e+00 702.0
20 TraesCS2B01G577600 chr4D 89.097 321 30 4 13 330 450127052 450126734 5.780000e-106 394.0
21 TraesCS2B01G577600 chr4D 88.889 315 30 5 14 326 64227128 64227439 1.250000e-102 383.0
22 TraesCS2B01G577600 chr4D 93.750 64 4 0 431 494 450126659 450126596 1.830000e-16 97.1
23 TraesCS2B01G577600 chr4D 96.491 57 2 0 431 487 64227518 64227574 6.570000e-16 95.3
24 TraesCS2B01G577600 chr5D 93.653 709 43 2 505 1212 394096722 394096015 0.000000e+00 1059.0
25 TraesCS2B01G577600 chr5D 93.079 708 47 2 505 1211 538210813 538210107 0.000000e+00 1035.0
26 TraesCS2B01G577600 chr5D 93.306 493 31 2 1216 1706 322675449 322675941 0.000000e+00 726.0
27 TraesCS2B01G577600 chr5D 92.292 493 36 2 1216 1706 115336830 115337322 0.000000e+00 699.0
28 TraesCS2B01G577600 chr2D 92.797 708 51 0 505 1212 155168544 155169251 0.000000e+00 1026.0
29 TraesCS2B01G577600 chr2D 92.807 709 49 2 505 1212 170409858 170410565 0.000000e+00 1026.0
30 TraesCS2B01G577600 chr2D 92.797 708 51 0 505 1212 187061810 187062517 0.000000e+00 1026.0
31 TraesCS2B01G577600 chr2D 92.807 709 49 2 505 1212 324340894 324341601 0.000000e+00 1026.0
32 TraesCS2B01G577600 chr2D 94.769 325 16 1 7 330 18336352 18336028 2.560000e-139 505.0
33 TraesCS2B01G577600 chr2D 93.750 64 4 0 431 494 18335953 18335890 1.830000e-16 97.1
34 TraesCS2B01G577600 chr6A 83.559 1034 138 27 1212 2234 108842529 108841517 0.000000e+00 939.0
35 TraesCS2B01G577600 chr6A 90.120 334 25 5 3 330 463582816 463583147 5.700000e-116 427.0
36 TraesCS2B01G577600 chr3A 83.560 1028 135 26 1216 2234 451442421 451443423 0.000000e+00 931.0
37 TraesCS2B01G577600 chr3A 92.188 64 5 0 431 494 403507495 403507432 8.500000e-15 91.6
38 TraesCS2B01G577600 chr2A 83.431 1026 141 24 1216 2234 127407183 127408186 0.000000e+00 926.0
39 TraesCS2B01G577600 chr2A 83.268 1028 143 19 1214 2234 730467836 730466831 0.000000e+00 918.0
40 TraesCS2B01G577600 chr2A 82.735 1031 143 28 1216 2234 538142134 538143141 0.000000e+00 885.0
41 TraesCS2B01G577600 chr1B 83.236 1032 132 29 1216 2234 493302887 493303890 0.000000e+00 909.0
42 TraesCS2B01G577600 chr7A 83.037 1014 144 22 1216 2221 91433031 91432038 0.000000e+00 894.0
43 TraesCS2B01G577600 chr7A 92.713 494 33 3 1216 1708 227097909 227097418 0.000000e+00 710.0
44 TraesCS2B01G577600 chr4A 82.668 1027 147 25 1216 2234 155291944 155292947 0.000000e+00 881.0
45 TraesCS2B01G577600 chr6D 93.131 495 31 3 1216 1708 15428460 15427967 0.000000e+00 723.0
46 TraesCS2B01G577600 chr5B 94.864 331 16 1 1 330 474268851 474268521 1.180000e-142 516.0
47 TraesCS2B01G577600 chr5B 95.378 238 10 1 93 330 111896303 111896067 5.820000e-101 377.0
48 TraesCS2B01G577600 chr5B 86.875 320 38 4 13 330 234152297 234151980 2.730000e-94 355.0
49 TraesCS2B01G577600 chr5B 96.552 58 2 0 431 488 234151905 234151848 1.830000e-16 97.1
50 TraesCS2B01G577600 chr5A 84.736 511 50 14 3 512 307611602 307611119 9.270000e-134 486.0
51 TraesCS2B01G577600 chr3B 92.285 337 19 4 1 330 384884911 384884575 2.600000e-129 472.0
52 TraesCS2B01G577600 chr3B 92.683 82 5 1 431 512 384884500 384884420 1.400000e-22 117.0


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 TraesCS2B01G577600 chr2B 765873245 765875478 2233 True 2098.65 4126 100.000 1 2234 2 chr2B.!!$R1 2233
1 TraesCS2B01G577600 chr1D 146074667 146075680 1013 True 1170.00 1170 87.659 1214 2221 1 chr1D.!!$R1 1007
2 TraesCS2B01G577600 chr1D 222406618 222407325 707 False 1026.00 1026 92.807 505 1212 1 chr1D.!!$F1 707
3 TraesCS2B01G577600 chr7D 481036949 481037969 1020 False 1160.00 1160 87.282 1213 2234 1 chr7D.!!$F3 1021
4 TraesCS2B01G577600 chr7D 280960813 280961834 1021 False 1129.00 1129 86.686 1212 2234 1 chr7D.!!$F2 1022
5 TraesCS2B01G577600 chr7D 166248628 166249332 704 True 1046.00 1046 93.475 509 1212 1 chr7D.!!$R1 703
6 TraesCS2B01G577600 chr3D 485216859 485217639 780 False 1151.00 1151 93.470 1 772 1 chr3D.!!$F1 771
7 TraesCS2B01G577600 chr4D 328177875 328178585 710 True 1064.00 1064 93.680 505 1215 1 chr4D.!!$R1 710
8 TraesCS2B01G577600 chr5D 394096015 394096722 707 True 1059.00 1059 93.653 505 1212 1 chr5D.!!$R1 707
9 TraesCS2B01G577600 chr5D 538210107 538210813 706 True 1035.00 1035 93.079 505 1211 1 chr5D.!!$R2 706
10 TraesCS2B01G577600 chr2D 155168544 155169251 707 False 1026.00 1026 92.797 505 1212 1 chr2D.!!$F1 707
11 TraesCS2B01G577600 chr2D 170409858 170410565 707 False 1026.00 1026 92.807 505 1212 1 chr2D.!!$F2 707
12 TraesCS2B01G577600 chr2D 187061810 187062517 707 False 1026.00 1026 92.797 505 1212 1 chr2D.!!$F3 707
13 TraesCS2B01G577600 chr2D 324340894 324341601 707 False 1026.00 1026 92.807 505 1212 1 chr2D.!!$F4 707
14 TraesCS2B01G577600 chr6A 108841517 108842529 1012 True 939.00 939 83.559 1212 2234 1 chr6A.!!$R1 1022
15 TraesCS2B01G577600 chr3A 451442421 451443423 1002 False 931.00 931 83.560 1216 2234 1 chr3A.!!$F1 1018
16 TraesCS2B01G577600 chr2A 127407183 127408186 1003 False 926.00 926 83.431 1216 2234 1 chr2A.!!$F1 1018
17 TraesCS2B01G577600 chr2A 730466831 730467836 1005 True 918.00 918 83.268 1214 2234 1 chr2A.!!$R1 1020
18 TraesCS2B01G577600 chr2A 538142134 538143141 1007 False 885.00 885 82.735 1216 2234 1 chr2A.!!$F2 1018
19 TraesCS2B01G577600 chr1B 493302887 493303890 1003 False 909.00 909 83.236 1216 2234 1 chr1B.!!$F1 1018
20 TraesCS2B01G577600 chr7A 91432038 91433031 993 True 894.00 894 83.037 1216 2221 1 chr7A.!!$R1 1005
21 TraesCS2B01G577600 chr4A 155291944 155292947 1003 False 881.00 881 82.668 1216 2234 1 chr4A.!!$F1 1018

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
859 869 0.229753 CACCGCGCTTATTGATCGTC 59.77 55.0 5.56 0.0 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1739 1783 0.101219 GCCATTGATCCTTTGCCGAC 59.899 55.0 0.0 0.0 0.0 4.79 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
37 38 0.633835 TCCCCCTCTACATCCCCTCT 60.634 60.000 0.00 0.00 0.00 3.69
50 51 1.208052 TCCCCTCTCAAGAATGAAGCG 59.792 52.381 0.00 0.00 34.49 4.68
68 69 1.729149 GCGGATCTGAAGTTTTTGGCG 60.729 52.381 5.48 0.00 0.00 5.69
86 87 3.454371 GCGTTGAGCTCTTCCCTAATA 57.546 47.619 16.19 0.00 44.04 0.98
128 129 3.942115 CTCCGATCCCTTTCTTTTTCTCC 59.058 47.826 0.00 0.00 0.00 3.71
149 150 5.681880 TCCGTAAATTCGTTCACATTTGTC 58.318 37.500 0.00 0.00 0.00 3.18
158 159 7.490962 TTCGTTCACATTTGTCTCATTTAGT 57.509 32.000 0.00 0.00 0.00 2.24
195 196 3.903090 ACCCTTGATTTGCTTGGATTTGA 59.097 39.130 0.00 0.00 0.00 2.69
196 197 4.347583 ACCCTTGATTTGCTTGGATTTGAA 59.652 37.500 0.00 0.00 0.00 2.69
198 199 5.941647 CCCTTGATTTGCTTGGATTTGAATT 59.058 36.000 0.00 0.00 0.00 2.17
235 238 8.862325 ATTGAAATAGTGTGGTGTGATTTAGA 57.138 30.769 0.00 0.00 0.00 2.10
265 268 5.880901 AGTCATTGTGGAACCTAGATTGTT 58.119 37.500 0.00 0.00 34.36 2.83
270 273 5.304686 TGTGGAACCTAGATTGTTCAAGT 57.695 39.130 11.08 0.00 43.05 3.16
347 355 7.654287 AGGATTATGATTTGTAAGGGATCCT 57.346 36.000 12.58 0.00 36.83 3.24
360 368 9.816787 TTGTAAGGGATCCTTTTATTGTTTACT 57.183 29.630 15.13 0.00 41.69 2.24
408 416 3.875134 CCGATTGTAGATTTGTGGTACCC 59.125 47.826 10.07 1.05 0.00 3.69
416 424 4.648651 AGATTTGTGGTACCCTTGTGTAC 58.351 43.478 10.07 0.00 40.29 2.90
567 577 4.044946 TGATCATTGGGACCATCAACAA 57.955 40.909 0.00 0.00 0.00 2.83
595 605 1.517832 GCTATGTCGGTGGAGCAGT 59.482 57.895 0.00 0.00 34.96 4.40
634 644 4.271533 TGGTCGGTATTATGAATTTCGTGC 59.728 41.667 1.25 0.00 0.00 5.34
780 790 1.687123 CCGTATGTAAGGGAGACAGGG 59.313 57.143 0.00 0.00 34.90 4.45
798 808 2.744352 GGCTCCTCCCTTTCATTCAT 57.256 50.000 0.00 0.00 0.00 2.57
809 819 3.258872 CCTTTCATTCATTTGGTCAGCCA 59.741 43.478 0.00 0.00 44.38 4.75
859 869 0.229753 CACCGCGCTTATTGATCGTC 59.770 55.000 5.56 0.00 0.00 4.20
862 872 1.853319 GCGCTTATTGATCGTCGGG 59.147 57.895 0.00 0.00 0.00 5.14
865 875 0.391597 GCTTATTGATCGTCGGGGGA 59.608 55.000 0.00 0.00 0.00 4.81
867 877 1.411246 CTTATTGATCGTCGGGGGACA 59.589 52.381 0.00 0.00 0.00 4.02
876 886 1.078528 TCGGGGGACAGAGACACAT 59.921 57.895 0.00 0.00 0.00 3.21
880 890 1.482593 GGGGGACAGAGACACATAGTG 59.517 57.143 0.00 0.00 39.75 2.74
912 922 2.348104 CGGGGAGATGACCGTGACA 61.348 63.158 0.00 0.00 44.85 3.58
913 923 1.676678 CGGGGAGATGACCGTGACAT 61.677 60.000 0.00 0.00 44.85 3.06
938 948 4.081476 CCAGGATATTGCTATGATCACCGA 60.081 45.833 0.00 0.00 0.00 4.69
989 999 1.412710 GAGCACCGATTCTGATGGGTA 59.587 52.381 0.00 0.00 41.83 3.69
1057 1067 1.814793 GGAACCAGAAGCAGAAGACC 58.185 55.000 0.00 0.00 0.00 3.85
1074 1084 4.615588 AGACCAGAAGAAGGAAAGAGTG 57.384 45.455 0.00 0.00 0.00 3.51
1126 1137 2.160205 GGAACTTTGGTACTTGCCCTC 58.840 52.381 0.00 0.00 0.00 4.30
1127 1138 1.804748 GAACTTTGGTACTTGCCCTCG 59.195 52.381 0.00 0.00 0.00 4.63
1149 1160 4.232091 GGGAAGGTAATGAGGATGAGGTA 58.768 47.826 0.00 0.00 0.00 3.08
1361 1376 6.064060 AGATTCACAAGACTTGGTGATCAAA 58.936 36.000 19.16 6.33 43.01 2.69
1366 1381 6.096705 TCACAAGACTTGGTGATCAAAACAAT 59.903 34.615 19.16 0.00 39.00 2.71
1371 1386 6.998074 AGACTTGGTGATCAAAACAATGACTA 59.002 34.615 0.00 0.00 34.56 2.59
1380 1397 6.174720 TCAAAACAATGACTACTCTCCACT 57.825 37.500 0.00 0.00 0.00 4.00
1458 1475 2.045280 CTGGGCTAGTCGATGGAGG 58.955 63.158 0.00 0.00 0.00 4.30
1460 1477 0.468214 TGGGCTAGTCGATGGAGGAG 60.468 60.000 0.00 0.00 0.00 3.69
1464 1485 1.698506 CTAGTCGATGGAGGAGGCTT 58.301 55.000 0.00 0.00 0.00 4.35
1578 1619 5.877012 TCAAGATCAATCAAGCAGGAAGTAC 59.123 40.000 0.00 0.00 0.00 2.73
1579 1620 5.426689 AGATCAATCAAGCAGGAAGTACA 57.573 39.130 0.00 0.00 0.00 2.90
1612 1653 1.613630 GAGAGGGCCTGAACCTGGA 60.614 63.158 12.95 0.00 38.79 3.86
1620 1663 3.117663 GGGCCTGAACCTGGATAAACATA 60.118 47.826 0.84 0.00 0.00 2.29
1630 1673 4.905456 CCTGGATAAACATAGTGTCCCCTA 59.095 45.833 0.00 0.00 0.00 3.53
1708 1752 2.702847 GGTTTTGACACCGACAGCT 58.297 52.632 0.00 0.00 0.00 4.24
1712 1756 0.817634 TTTGACACCGACAGCTTGGG 60.818 55.000 1.78 0.00 0.00 4.12
1719 1763 2.936032 GACAGCTTGGGACCCCCT 60.936 66.667 8.45 0.00 45.70 4.79
1720 1764 1.615424 GACAGCTTGGGACCCCCTA 60.615 63.158 8.45 0.00 45.70 3.53
1721 1765 1.151677 ACAGCTTGGGACCCCCTAA 60.152 57.895 8.45 0.00 45.70 2.69
1722 1766 0.552615 ACAGCTTGGGACCCCCTAAT 60.553 55.000 8.45 0.00 45.70 1.73
1723 1767 0.183731 CAGCTTGGGACCCCCTAATC 59.816 60.000 8.45 0.00 45.70 1.75
1739 1783 0.670546 AATCGAGTTCCGCTGTGTGG 60.671 55.000 0.00 0.00 38.37 4.17
1763 1808 2.288666 GCAAAGGATCAATGGCTCGTA 58.711 47.619 0.00 0.00 0.00 3.43
1818 1863 1.078848 GCTCGGCTGGTCATCTTGT 60.079 57.895 0.00 0.00 0.00 3.16
1955 2006 1.070786 ACGTCAACATTGCCCTCGT 59.929 52.632 0.00 0.00 0.00 4.18
1957 2008 1.227999 CGTCAACATTGCCCTCGTGT 61.228 55.000 0.00 0.00 0.00 4.49
1961 2012 2.151202 CAACATTGCCCTCGTGTAACT 58.849 47.619 0.00 0.00 31.75 2.24
2041 2092 2.472695 TGACGATTCCTTTGGTGGAG 57.527 50.000 0.00 0.00 37.43 3.86
2046 2097 3.071892 ACGATTCCTTTGGTGGAGTTGTA 59.928 43.478 0.00 0.00 38.28 2.41
2122 2173 7.563188 AGGAATCTCTGGCAATCTACGATATAT 59.437 37.037 0.00 0.00 0.00 0.86
2152 2203 2.289565 GTCAAATCTGGACGGGAATCC 58.710 52.381 0.00 0.00 39.45 3.01
2153 2204 1.912731 TCAAATCTGGACGGGAATCCA 59.087 47.619 0.09 0.00 46.92 3.41
2221 2272 3.198872 GGAAGATCCAACCGTTCATCTC 58.801 50.000 3.63 0.02 36.28 2.75
2223 2274 2.187958 AGATCCAACCGTTCATCTCCA 58.812 47.619 0.00 0.00 0.00 3.86
2226 2277 0.321564 CCAACCGTTCATCTCCAGCA 60.322 55.000 0.00 0.00 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.095400 GGGGAGAGGAGAGGGCCA 62.095 72.222 6.18 0.00 0.00 5.36
6 7 4.890306 GGGGGAGAGGAGAGGGCC 62.890 77.778 0.00 0.00 0.00 5.80
37 38 3.893326 TCAGATCCGCTTCATTCTTGA 57.107 42.857 0.00 0.00 0.00 3.02
50 51 3.004315 TCAACGCCAAAAACTTCAGATCC 59.996 43.478 0.00 0.00 0.00 3.36
68 69 4.500035 CGAGGTATTAGGGAAGAGCTCAAC 60.500 50.000 17.77 9.03 46.83 3.18
74 75 5.009811 CCTTGTACGAGGTATTAGGGAAGAG 59.990 48.000 19.87 0.00 31.89 2.85
128 129 6.359545 TGAGACAAATGTGAACGAATTTACG 58.640 36.000 0.00 0.00 39.31 3.18
149 150 6.633500 TCCACCAAAACTTGACTAAATGAG 57.367 37.500 0.00 0.00 0.00 2.90
158 159 2.763448 CAAGGGTTCCACCAAAACTTGA 59.237 45.455 0.00 0.00 41.02 3.02
175 176 7.443259 AAATTCAAATCCAAGCAAATCAAGG 57.557 32.000 0.00 0.00 0.00 3.61
221 224 8.094798 TGACTACAAATTCTAAATCACACCAC 57.905 34.615 0.00 0.00 0.00 4.16
235 238 7.458397 TCTAGGTTCCACAATGACTACAAATT 58.542 34.615 0.00 0.00 0.00 1.82
567 577 1.349627 CGACATAGCGTACGACCGT 59.650 57.895 21.65 9.62 0.00 4.83
595 605 4.019141 ACCGACCACTTTCATTATTACCCA 60.019 41.667 0.00 0.00 0.00 4.51
634 644 5.303971 TGGGGCATTTGTGTTTGAAATAAG 58.696 37.500 0.00 0.00 0.00 1.73
710 720 1.417890 CAAGGTTGACCCTGTGAGACT 59.582 52.381 0.00 0.00 45.47 3.24
780 790 3.131755 CCAAATGAATGAAAGGGAGGAGC 59.868 47.826 0.00 0.00 0.00 4.70
809 819 1.251527 ATTGAGAGGTGGCGTCGACT 61.252 55.000 14.70 0.00 0.00 4.18
859 869 0.747255 CTATGTGTCTCTGTCCCCCG 59.253 60.000 0.00 0.00 0.00 5.73
912 922 6.421485 GGTGATCATAGCAATATCCTGGAAT 58.579 40.000 0.00 0.00 0.00 3.01
913 923 5.569428 CGGTGATCATAGCAATATCCTGGAA 60.569 44.000 0.00 0.00 0.00 3.53
989 999 3.270092 CATGCATCTGCTCGCGCT 61.270 61.111 5.56 0.00 42.66 5.92
1057 1067 3.072944 CTGCCACTCTTTCCTTCTTCTG 58.927 50.000 0.00 0.00 0.00 3.02
1126 1137 2.037772 CCTCATCCTCATTACCTTCCCG 59.962 54.545 0.00 0.00 0.00 5.14
1127 1138 3.049344 ACCTCATCCTCATTACCTTCCC 58.951 50.000 0.00 0.00 0.00 3.97
1133 1144 9.429359 CATATGTCTTTACCTCATCCTCATTAC 57.571 37.037 0.00 0.00 0.00 1.89
1361 1376 3.307059 GCCAGTGGAGAGTAGTCATTGTT 60.307 47.826 15.20 0.00 0.00 2.83
1366 1381 0.251209 ACGCCAGTGGAGAGTAGTCA 60.251 55.000 20.81 0.00 0.00 3.41
1371 1386 1.899814 TCAAATACGCCAGTGGAGAGT 59.100 47.619 20.81 14.39 0.00 3.24
1380 1397 3.362706 AGAGTCCTAGTCAAATACGCCA 58.637 45.455 0.00 0.00 0.00 5.69
1441 1458 0.468214 CTCCTCCATCGACTAGCCCA 60.468 60.000 0.00 0.00 0.00 5.36
1458 1475 7.658982 TGAGTAATGTCATAATGATCAAGCCTC 59.341 37.037 0.00 0.00 0.00 4.70
1460 1477 7.734924 TGAGTAATGTCATAATGATCAAGCC 57.265 36.000 0.00 0.00 0.00 4.35
1552 1591 5.950549 ACTTCCTGCTTGATTGATCTTGATT 59.049 36.000 0.00 0.00 0.00 2.57
1612 1653 6.498651 CAGGAGATAGGGGACACTATGTTTAT 59.501 42.308 0.00 0.00 33.95 1.40
1620 1663 2.950990 AACAGGAGATAGGGGACACT 57.049 50.000 0.00 0.00 0.00 3.55
1630 1673 2.900546 GGATCGATGGGTAACAGGAGAT 59.099 50.000 0.54 0.00 39.74 2.75
1682 1726 0.958822 GGTGTCAAAACCGGCAGATT 59.041 50.000 0.00 0.00 0.00 2.40
1712 1756 0.388294 CGGAACTCGATTAGGGGGTC 59.612 60.000 0.00 0.00 42.43 4.46
1719 1763 1.403647 CCACACAGCGGAACTCGATTA 60.404 52.381 0.00 0.00 42.43 1.75
1720 1764 0.670546 CCACACAGCGGAACTCGATT 60.671 55.000 0.00 0.00 42.43 3.34
1721 1765 1.079819 CCACACAGCGGAACTCGAT 60.080 57.895 0.00 0.00 42.43 3.59
1722 1766 2.338620 CCACACAGCGGAACTCGA 59.661 61.111 0.00 0.00 42.43 4.04
1723 1767 2.022129 GACCACACAGCGGAACTCG 61.022 63.158 0.00 0.00 42.76 4.18
1739 1783 0.101219 GCCATTGATCCTTTGCCGAC 59.899 55.000 0.00 0.00 0.00 4.79
1805 1850 2.882742 GTCGAAACAAGATGACCAGC 57.117 50.000 0.00 0.00 0.00 4.85
1818 1863 0.468226 AGTGCAGTCCTTGGTCGAAA 59.532 50.000 0.00 0.00 0.00 3.46
1904 1955 2.813354 GCTCCATGGATGATTCCTCCAC 60.813 54.545 16.63 0.00 45.27 4.02
1936 1987 1.227999 ACGAGGGCAATGTTGACGTG 61.228 55.000 0.00 0.00 36.95 4.49
1955 2006 6.110033 TGTCTAGAAAAACAGCACAGTTACA 58.890 36.000 0.00 0.00 0.00 2.41
1957 2008 6.844696 CTGTCTAGAAAAACAGCACAGTTA 57.155 37.500 0.00 0.00 36.76 2.24
1986 2037 1.815421 GTGGTGGCAGCGGATACAG 60.815 63.158 12.58 0.00 0.00 2.74
2041 2092 7.642071 TGTTGTAGACTTAATTCCGTACAAC 57.358 36.000 20.05 20.05 45.35 3.32
2046 2097 5.613329 TGGTTGTTGTAGACTTAATTCCGT 58.387 37.500 0.00 0.00 0.00 4.69
2122 2173 0.250234 CAGATTTGACAGGGCTCCGA 59.750 55.000 0.00 0.00 0.00 4.55
2152 2203 1.066143 ACCACGCCCTAAACTCATCTG 60.066 52.381 0.00 0.00 0.00 2.90
2153 2204 1.207329 GACCACGCCCTAAACTCATCT 59.793 52.381 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.