Multiple sequence alignment - TraesCS3B01G220300

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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 TraesCS3B01G220300 chr3B 100.000 2295 0 0 1 2295 269152094 269149800 0 4239
1 TraesCS3B01G220300 chr3B 92.512 641 48 0 6 646 269216905 269216265 0 918
2 TraesCS3B01G220300 chr3B 91.331 646 52 3 1 646 624456456 624457097 0 880
3 TraesCS3B01G220300 chr3B 91.077 650 51 5 1 646 565382980 565383626 0 872
4 TraesCS3B01G220300 chr3D 89.489 1370 134 7 925 2289 474125048 474126412 0 1724
5 TraesCS3B01G220300 chr7D 85.115 1646 239 6 648 2289 477854072 477852429 0 1677
6 TraesCS3B01G220300 chr7D 83.524 1657 253 19 648 2289 80966244 80964593 0 1530
7 TraesCS3B01G220300 chr5D 84.667 1650 240 13 648 2289 350217709 350216065 0 1633
8 TraesCS3B01G220300 chr7A 84.274 1647 245 9 648 2289 724235310 724233673 0 1594
9 TraesCS3B01G220300 chr1D 84.121 1650 250 11 648 2289 316209525 316211170 0 1585
10 TraesCS3B01G220300 chr4D 83.990 1649 253 11 648 2289 64337702 64336058 0 1572
11 TraesCS3B01G220300 chr4D 83.818 1650 254 13 648 2289 455709474 455711118 0 1555
12 TraesCS3B01G220300 chr1A 83.728 1647 260 8 648 2289 558730351 558728708 0 1550
13 TraesCS3B01G220300 chr5B 91.950 646 47 3 1 646 412467577 412468217 0 900
14 TraesCS3B01G220300 chr6B 91.525 649 50 3 1 649 278410243 278409600 0 889
15 TraesCS3B01G220300 chr6B 91.231 650 51 2 1 649 541599691 541599047 0 880
16 TraesCS3B01G220300 chr2B 91.641 646 48 4 1 646 433458766 433458127 0 889
17 TraesCS3B01G220300 chr2B 91.077 650 53 3 1 646 395188653 395189301 0 874
18 TraesCS3B01G220300 chr4B 91.460 644 49 4 1 643 324684971 324684333 0 880


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 TraesCS3B01G220300 chr3B 269149800 269152094 2294 True 4239 4239 100.000 1 2295 1 chr3B.!!$R1 2294
1 TraesCS3B01G220300 chr3B 269216265 269216905 640 True 918 918 92.512 6 646 1 chr3B.!!$R2 640
2 TraesCS3B01G220300 chr3B 624456456 624457097 641 False 880 880 91.331 1 646 1 chr3B.!!$F2 645
3 TraesCS3B01G220300 chr3B 565382980 565383626 646 False 872 872 91.077 1 646 1 chr3B.!!$F1 645
4 TraesCS3B01G220300 chr3D 474125048 474126412 1364 False 1724 1724 89.489 925 2289 1 chr3D.!!$F1 1364
5 TraesCS3B01G220300 chr7D 477852429 477854072 1643 True 1677 1677 85.115 648 2289 1 chr7D.!!$R2 1641
6 TraesCS3B01G220300 chr7D 80964593 80966244 1651 True 1530 1530 83.524 648 2289 1 chr7D.!!$R1 1641
7 TraesCS3B01G220300 chr5D 350216065 350217709 1644 True 1633 1633 84.667 648 2289 1 chr5D.!!$R1 1641
8 TraesCS3B01G220300 chr7A 724233673 724235310 1637 True 1594 1594 84.274 648 2289 1 chr7A.!!$R1 1641
9 TraesCS3B01G220300 chr1D 316209525 316211170 1645 False 1585 1585 84.121 648 2289 1 chr1D.!!$F1 1641
10 TraesCS3B01G220300 chr4D 64336058 64337702 1644 True 1572 1572 83.990 648 2289 1 chr4D.!!$R1 1641
11 TraesCS3B01G220300 chr4D 455709474 455711118 1644 False 1555 1555 83.818 648 2289 1 chr4D.!!$F1 1641
12 TraesCS3B01G220300 chr1A 558728708 558730351 1643 True 1550 1550 83.728 648 2289 1 chr1A.!!$R1 1641
13 TraesCS3B01G220300 chr5B 412467577 412468217 640 False 900 900 91.950 1 646 1 chr5B.!!$F1 645
14 TraesCS3B01G220300 chr6B 278409600 278410243 643 True 889 889 91.525 1 649 1 chr6B.!!$R1 648
15 TraesCS3B01G220300 chr6B 541599047 541599691 644 True 880 880 91.231 1 649 1 chr6B.!!$R2 648
16 TraesCS3B01G220300 chr2B 433458127 433458766 639 True 889 889 91.641 1 646 1 chr2B.!!$R1 645
17 TraesCS3B01G220300 chr2B 395188653 395189301 648 False 874 874 91.077 1 646 1 chr2B.!!$F1 645
18 TraesCS3B01G220300 chr4B 324684333 324684971 638 True 880 880 91.460 1 643 1 chr4B.!!$R1 642

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
801 813 0.106519 CCTCCCCATTGGTTGCTAGG 60.107 60.0 1.2 0.0 34.77 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 1922 0.666577 GTCCGGTCAAGAAGGTGTCG 60.667 60.0 0.0 0.0 0.0 4.35 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
101 102 4.591321 TGAGGCAAAGGTTTCCATATCT 57.409 40.909 0.00 0.00 0.00 1.98
114 115 1.854743 CCATATCTGTGCAACGAGACG 59.145 52.381 0.00 0.00 42.39 4.18
261 262 0.111253 CTGTTGTTGGCTCCCTTCCT 59.889 55.000 0.00 0.00 0.00 3.36
284 285 4.228210 TGCTCAATATTTGGGAAGAGGACT 59.772 41.667 0.00 0.00 30.85 3.85
350 361 2.287547 CGTCTCATCTAGAGCCAAGAGC 60.288 54.545 0.00 0.00 44.35 4.09
379 390 2.135933 GACTCCTCTTCAAACACACCG 58.864 52.381 0.00 0.00 0.00 4.94
405 416 1.074084 AGAACACCTCTCCTCACGAGA 59.926 52.381 0.00 0.00 45.75 4.04
467 478 1.077787 CCACCACACCACACACTGT 60.078 57.895 0.00 0.00 0.00 3.55
473 484 3.389983 ACCACACCACACACTGTATTAGT 59.610 43.478 0.00 0.00 41.36 2.24
501 512 1.603455 CACAATGGTGGCCCGAACT 60.603 57.895 0.00 0.00 41.45 3.01
596 608 3.025262 GGTAGGGAGAAGATCTTCGTGT 58.975 50.000 25.88 12.01 43.97 4.49
610 622 1.525995 CGTGTGCACCCCAGAGTTT 60.526 57.895 15.69 0.00 0.00 2.66
656 668 3.119137 CCCGATATCCGATAGACAATGCA 60.119 47.826 0.00 0.00 41.76 3.96
699 711 2.552155 GGTTGCACACAAGGAGATGGTA 60.552 50.000 0.00 0.00 36.16 3.25
703 715 1.278985 CACACAAGGAGATGGTAGCCA 59.721 52.381 0.00 0.00 38.19 4.75
708 720 3.525199 ACAAGGAGATGGTAGCCAAATCT 59.475 43.478 0.00 0.00 36.95 2.40
718 730 5.023452 TGGTAGCCAAATCTCTAGACAAGA 58.977 41.667 0.00 0.00 0.00 3.02
738 750 6.651225 ACAAGACTCTTGAGTTATTTGCTACC 59.349 38.462 23.08 0.00 0.00 3.18
762 774 1.897560 AGGTTGAGGCTAGTTTGCAC 58.102 50.000 0.00 0.00 34.04 4.57
778 790 1.949257 CACTTGGACTTGAACCGGC 59.051 57.895 0.00 0.00 0.00 6.13
780 792 0.110486 ACTTGGACTTGAACCGGCAT 59.890 50.000 0.00 0.00 0.00 4.40
781 793 0.523072 CTTGGACTTGAACCGGCATG 59.477 55.000 0.00 0.00 0.00 4.06
801 813 0.106519 CCTCCCCATTGGTTGCTAGG 60.107 60.000 1.20 0.00 34.77 3.02
807 819 1.561542 CCATTGGTTGCTAGGAGTCCT 59.438 52.381 17.78 17.78 37.71 3.85
828 840 1.019673 CGCCCATGAACCAAGATGAG 58.980 55.000 0.00 0.00 0.00 2.90
887 899 5.733620 ACATTGAGCCTGATTTCAAACAT 57.266 34.783 0.00 0.00 36.93 2.71
936 948 7.842982 AGAATGATGAGTATGAGGATGATGAG 58.157 38.462 0.00 0.00 0.00 2.90
1023 1035 4.731313 GGACCCTTCCATTCCATATTCT 57.269 45.455 0.00 0.00 42.30 2.40
1027 1039 5.842339 ACCCTTCCATTCCATATTCTTGTT 58.158 37.500 0.00 0.00 0.00 2.83
1048 1060 0.668535 CTATGCATCGGAGTCGGACA 59.331 55.000 0.19 0.00 36.95 4.02
1090 1108 0.252057 TGATGAGGAGGGGTTCACGA 60.252 55.000 0.00 0.00 0.00 4.35
1102 1120 2.939261 TTCACGACGAAGGAGGCCC 61.939 63.158 0.00 0.00 0.00 5.80
1123 1141 5.501156 CCCAAGCTTTCAAGAAGGTACTAT 58.499 41.667 0.00 0.00 38.49 2.12
1127 1145 4.019321 AGCTTTCAAGAAGGTACTATGGCA 60.019 41.667 0.00 0.00 38.49 4.92
1156 1174 4.703897 TCGGATACCATTGTTCAAGGATC 58.296 43.478 0.00 0.00 0.00 3.36
1208 1226 4.532834 GGTGGCAAGGGTATATTTCTTGA 58.467 43.478 13.36 0.00 39.97 3.02
1250 1268 2.084546 GGATTTGGAACACGGGAAGAG 58.915 52.381 0.00 0.00 39.29 2.85
1267 1285 1.382146 AGCGGTATTTCTCCCGGGA 60.382 57.895 25.06 25.06 44.36 5.14
1268 1286 0.979187 AGCGGTATTTCTCCCGGGAA 60.979 55.000 26.68 10.83 44.36 3.97
1273 1291 2.562635 GTATTTCTCCCGGGAAGAAGC 58.437 52.381 26.68 17.40 0.00 3.86
1307 1325 1.672881 GGAATTGAAGATGTGGCTCGG 59.327 52.381 0.00 0.00 0.00 4.63
1322 1340 0.304098 CTCGGCGACTACTCGGTTAG 59.696 60.000 4.99 0.00 40.53 2.34
1327 1345 2.286891 GGCGACTACTCGGTTAGACATC 60.287 54.545 0.00 0.00 40.53 3.06
1356 1374 2.091885 ACACAAGGTGGTTCACTTGGAT 60.092 45.455 8.97 0.00 37.94 3.41
1439 1463 0.926293 CCATGGAAAGGAGGGCCTAA 59.074 55.000 5.73 0.00 46.28 2.69
1497 1521 2.361104 GGCAAGCGGGTTGATGGA 60.361 61.111 22.92 0.00 38.60 3.41
1522 1546 6.305272 AGATTGTGTCATAAGACCACAGAT 57.695 37.500 0.00 0.00 44.33 2.90
1531 1555 3.983044 AAGACCACAGATAACTCACCC 57.017 47.619 0.00 0.00 0.00 4.61
1532 1556 1.825474 AGACCACAGATAACTCACCCG 59.175 52.381 0.00 0.00 0.00 5.28
1567 1591 2.519013 ACAAGCTTTCCAACTCCATCC 58.481 47.619 0.00 0.00 0.00 3.51
1574 1598 0.178876 TCCAACTCCATCCCCTCACA 60.179 55.000 0.00 0.00 0.00 3.58
1576 1600 1.285962 CCAACTCCATCCCCTCACAAT 59.714 52.381 0.00 0.00 0.00 2.71
1577 1601 2.372264 CAACTCCATCCCCTCACAATG 58.628 52.381 0.00 0.00 0.00 2.82
1591 1615 5.125900 CCCTCACAATGAACAATGAGCATTA 59.874 40.000 5.39 0.00 37.78 1.90
1592 1616 6.263344 CCTCACAATGAACAATGAGCATTAG 58.737 40.000 5.39 3.21 37.78 1.73
1609 1634 3.334583 TTAGAGTGTCATGGACCTTGC 57.665 47.619 2.42 0.00 0.00 4.01
1615 1640 1.202758 TGTCATGGACCTTGCGAAAGT 60.203 47.619 1.61 0.00 0.00 2.66
1652 1677 3.205056 AGGTCAAATATGGGAAGGCATGA 59.795 43.478 0.00 0.00 0.00 3.07
1676 1701 1.067199 CGAAGCAAGCCGCATTCAAC 61.067 55.000 0.00 0.00 46.13 3.18
1738 1764 1.372501 AGGTTGTTGGGAGCTATGGT 58.627 50.000 0.00 0.00 0.00 3.55
1748 1774 1.138266 GGAGCTATGGTCGCCACTAAA 59.862 52.381 0.50 0.00 35.80 1.85
1751 1777 1.406341 GCTATGGTCGCCACTAAACCA 60.406 52.381 0.50 0.00 46.51 3.67
1890 1919 1.821061 ATCGGCCGGTCATCTCCATC 61.821 60.000 27.83 0.00 0.00 3.51
1893 1922 1.300233 GCCGGTCATCTCCATCGAC 60.300 63.158 1.90 0.00 0.00 4.20
1895 1924 1.444917 CCGGTCATCTCCATCGACGA 61.445 60.000 0.00 0.00 0.00 4.20
1923 1952 1.646912 TGACCGGACAATACAAGGGA 58.353 50.000 9.46 0.00 0.00 4.20
1927 1957 2.027469 ACCGGACAATACAAGGGAACTC 60.027 50.000 9.46 0.00 42.68 3.01
1929 1959 3.522553 CGGACAATACAAGGGAACTCTC 58.477 50.000 0.00 0.00 42.68 3.20
1932 1962 5.105473 CGGACAATACAAGGGAACTCTCTTA 60.105 44.000 0.00 0.00 42.68 2.10
1960 1990 5.945784 GCAATAGGGAGTGATGCCAATAATA 59.054 40.000 0.00 0.00 0.00 0.98
1976 2006 5.301805 CCAATAATAGGTTGGTGCCTTTAGG 59.698 44.000 0.00 0.00 40.94 2.69
1998 2028 2.151502 TTGCTTTGGTTGAGGTGGAA 57.848 45.000 0.00 0.00 0.00 3.53
2001 2031 3.037549 TGCTTTGGTTGAGGTGGAAAAT 58.962 40.909 0.00 0.00 0.00 1.82
2016 2046 8.852671 AGGTGGAAAATAATGATAATTGGGAA 57.147 30.769 0.00 0.00 0.00 3.97
2056 2086 0.544697 AACCAGGGTATTACCGGCTG 59.455 55.000 0.00 8.98 39.83 4.85
2103 2133 6.129179 GGATCACCATCCTGGAATTCTTAAA 58.871 40.000 0.00 0.00 45.06 1.52
2105 2135 6.139679 TCACCATCCTGGAATTCTTAAAGT 57.860 37.500 0.00 0.00 40.96 2.66
2124 2154 2.376518 AGTGGTGGACATTGACATTCCT 59.623 45.455 0.00 0.00 0.00 3.36
2196 2226 1.352083 TCTATAGGGCATGTGGGCTC 58.648 55.000 0.00 0.00 42.84 4.70
2202 2232 1.304381 GGCATGTGGGCTCAAGGAA 60.304 57.895 0.00 0.00 39.42 3.36
2207 2237 1.352622 TGTGGGCTCAAGGAACTGGT 61.353 55.000 0.00 0.00 40.86 4.00
2239 2270 4.816385 TCAAGATTGTTGTCTCGCTTTCTT 59.184 37.500 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 0.968405 GAAACCTTTGCCTCATGCCA 59.032 50.000 0.00 0.00 40.16 4.92
81 82 4.096984 CACAGATATGGAAACCTTTGCCTC 59.903 45.833 0.00 0.00 0.00 4.70
101 102 0.596600 GGTCTTCGTCTCGTTGCACA 60.597 55.000 0.00 0.00 0.00 4.57
114 115 2.435059 GCCGTCCTGCTGGTCTTC 60.435 66.667 9.73 0.00 34.23 2.87
261 262 4.228210 AGTCCTCTTCCCAAATATTGAGCA 59.772 41.667 0.00 0.00 0.00 4.26
284 285 4.711976 AGCCCTATTTATAGAGGCCCTA 57.288 45.455 18.00 0.41 42.61 3.53
379 390 0.398318 AGGAGAGGTGTTCTTGTGGC 59.602 55.000 0.00 0.00 35.87 5.01
405 416 5.741011 TGAACAGTACAAAGGAAGAACAGT 58.259 37.500 0.00 0.00 0.00 3.55
501 512 6.432162 ACACAAGAGACACGAGGTTTATACTA 59.568 38.462 0.00 0.00 0.00 1.82
596 608 0.467290 GGTTCAAACTCTGGGGTGCA 60.467 55.000 0.00 0.00 0.00 4.57
656 668 2.479566 ATGTTGCTCGGAGTTCACAT 57.520 45.000 6.90 9.41 0.00 3.21
685 697 2.787473 TTGGCTACCATCTCCTTGTG 57.213 50.000 0.00 0.00 31.53 3.33
699 711 5.022787 AGAGTCTTGTCTAGAGATTTGGCT 58.977 41.667 0.00 0.00 32.23 4.75
703 715 7.775053 ACTCAAGAGTCTTGTCTAGAGATTT 57.225 36.000 27.83 4.11 36.92 2.17
708 720 7.815068 GCAAATAACTCAAGAGTCTTGTCTAGA 59.185 37.037 27.83 13.92 41.58 2.43
718 730 6.769512 TCTTGGTAGCAAATAACTCAAGAGT 58.230 36.000 8.94 0.00 44.94 3.24
738 750 3.057946 GCAAACTAGCCTCAACCTTCTTG 60.058 47.826 0.00 0.00 0.00 3.02
750 762 1.897560 AGTCCAAGTGCAAACTAGCC 58.102 50.000 0.00 0.00 0.00 3.93
751 763 2.878406 TCAAGTCCAAGTGCAAACTAGC 59.122 45.455 0.00 0.00 0.00 3.42
762 774 0.523072 CATGCCGGTTCAAGTCCAAG 59.477 55.000 1.90 0.00 0.00 3.61
778 790 1.963464 GCAACCAATGGGGAGGCATG 61.963 60.000 3.55 0.00 41.15 4.06
780 792 1.505151 TAGCAACCAATGGGGAGGCA 61.505 55.000 3.55 0.00 40.24 4.75
781 793 0.753111 CTAGCAACCAATGGGGAGGC 60.753 60.000 3.55 1.25 41.15 4.70
789 801 1.840635 GGAGGACTCCTAGCAACCAAT 59.159 52.381 11.09 0.00 46.16 3.16
801 813 1.153349 GTTCATGGGCGGAGGACTC 60.153 63.158 0.00 0.00 0.00 3.36
807 819 0.394216 CATCTTGGTTCATGGGCGGA 60.394 55.000 0.00 0.00 0.00 5.54
810 822 2.425143 TCTCATCTTGGTTCATGGGC 57.575 50.000 0.00 0.00 0.00 5.36
887 899 4.501915 CCTCTTGCAAAGCTTCATTTTGGA 60.502 41.667 0.00 0.00 45.70 3.53
936 948 6.183360 TGTTGCCATGGATATCAACTTCATTC 60.183 38.462 24.46 6.15 39.44 2.67
1014 1026 5.179929 CGATGCATAGCAACAAGAATATGGA 59.820 40.000 0.00 0.00 43.62 3.41
1023 1035 2.279741 GACTCCGATGCATAGCAACAA 58.720 47.619 0.00 0.00 43.62 2.83
1027 1039 1.106944 TCCGACTCCGATGCATAGCA 61.107 55.000 0.00 0.00 44.86 3.49
1048 1060 1.191535 TCTTCATCGGGACCATCGTT 58.808 50.000 0.00 0.00 0.00 3.85
1090 1108 2.069165 AAAGCTTGGGCCTCCTTCGT 62.069 55.000 4.53 0.00 39.73 3.85
1102 1120 5.163713 GCCATAGTACCTTCTTGAAAGCTTG 60.164 44.000 0.00 0.00 0.00 4.01
1123 1141 1.977129 TGGTATCCGATGATCATGCCA 59.023 47.619 14.30 5.92 32.18 4.92
1127 1145 5.868454 TGAACAATGGTATCCGATGATCAT 58.132 37.500 8.25 8.25 32.18 2.45
1156 1174 1.482278 GCTTCATCCGCGAGACTAAG 58.518 55.000 8.23 11.24 0.00 2.18
1273 1291 3.674997 TCAATTCCAAGAAGGTTCCGAG 58.325 45.455 0.00 0.00 39.02 4.63
1307 1325 2.353889 TGATGTCTAACCGAGTAGTCGC 59.646 50.000 14.65 0.44 45.41 5.19
1322 1340 2.002586 CCTTGTGTGGACGATGATGTC 58.997 52.381 0.00 0.00 38.17 3.06
1375 1393 0.107508 CCGTCCTCCTCACATGCAAT 60.108 55.000 0.00 0.00 0.00 3.56
1437 1461 5.878332 CACAACTCACTATGTGCCAATTA 57.122 39.130 0.00 0.00 40.32 1.40
1486 1510 2.819608 ACACAATCTTTCCATCAACCCG 59.180 45.455 0.00 0.00 0.00 5.28
1497 1521 6.533730 TCTGTGGTCTTATGACACAATCTTT 58.466 36.000 10.60 0.00 44.61 2.52
1567 1591 2.821378 TGCTCATTGTTCATTGTGAGGG 59.179 45.455 0.00 0.00 38.74 4.30
1574 1598 6.656270 TGACACTCTAATGCTCATTGTTCATT 59.344 34.615 5.43 9.68 35.02 2.57
1576 1600 5.550290 TGACACTCTAATGCTCATTGTTCA 58.450 37.500 5.43 1.13 32.50 3.18
1577 1601 6.457934 CCATGACACTCTAATGCTCATTGTTC 60.458 42.308 5.43 0.00 32.50 3.18
1591 1615 0.036952 CGCAAGGTCCATGACACTCT 60.037 55.000 0.00 0.00 33.68 3.24
1592 1616 0.037326 TCGCAAGGTCCATGACACTC 60.037 55.000 0.00 0.00 33.68 3.51
1615 1640 4.659111 TTGACCTTGTAGTGAAAGACGA 57.341 40.909 0.00 0.00 0.00 4.20
1652 1677 4.043200 GCGGCTTGCTTCGCCTTT 62.043 61.111 9.25 0.00 45.37 3.11
1676 1701 3.633525 CCTCCCAATCACCATACAACATG 59.366 47.826 0.00 0.00 0.00 3.21
1748 1774 0.677731 CCACATGAACGATGCCTGGT 60.678 55.000 0.00 0.00 35.15 4.00
1751 1777 0.740868 CGACCACATGAACGATGCCT 60.741 55.000 0.00 0.00 35.15 4.75
1757 1783 2.444624 CGGCTCGACCACATGAACG 61.445 63.158 0.00 0.00 39.03 3.95
1781 1807 4.689812 TCCATTGCGAATCATTGTTTTTGG 59.310 37.500 0.00 0.00 0.00 3.28
1890 1919 1.002250 CGGTCAAGAAGGTGTCGTCG 61.002 60.000 0.00 0.00 0.00 5.12
1893 1922 0.666577 GTCCGGTCAAGAAGGTGTCG 60.667 60.000 0.00 0.00 0.00 4.35
1895 1924 0.834612 TTGTCCGGTCAAGAAGGTGT 59.165 50.000 10.21 0.00 0.00 4.16
1926 1956 5.023452 TCACTCCCTATTGCAACTAAGAGA 58.977 41.667 19.55 7.17 0.00 3.10
1927 1957 5.344743 TCACTCCCTATTGCAACTAAGAG 57.655 43.478 0.00 8.98 0.00 2.85
1929 1959 4.274459 GCATCACTCCCTATTGCAACTAAG 59.726 45.833 0.00 0.00 33.58 2.18
1932 1962 2.648059 GCATCACTCCCTATTGCAACT 58.352 47.619 0.00 0.00 33.58 3.16
1943 1973 4.520492 CCAACCTATTATTGGCATCACTCC 59.480 45.833 0.00 0.00 40.25 3.85
1960 1990 2.698274 CAAAACCTAAAGGCACCAACCT 59.302 45.455 0.00 0.00 43.91 3.50
1976 2006 2.167487 TCCACCTCAACCAAAGCAAAAC 59.833 45.455 0.00 0.00 0.00 2.43
2001 2031 7.344093 TGCAAGAACCATTCCCAATTATCATTA 59.656 33.333 0.00 0.00 0.00 1.90
2016 2046 5.776744 GTTCTCAAAAGATGCAAGAACCAT 58.223 37.500 12.23 0.00 37.11 3.55
2056 2086 6.094881 TCCGATATGACACAAATTTCCCTTTC 59.905 38.462 0.00 0.00 0.00 2.62
2103 2133 2.376518 AGGAATGTCAATGTCCACCACT 59.623 45.455 4.03 0.00 33.57 4.00
2105 2135 2.555006 CCAGGAATGTCAATGTCCACCA 60.555 50.000 4.03 0.00 33.57 4.17
2124 2154 2.115695 TGCAACAGAGCATGCCCA 59.884 55.556 15.66 0.00 41.87 5.36
2196 2226 4.645535 TGAAGATCTCAACCAGTTCCTTG 58.354 43.478 0.00 0.00 0.00 3.61
2202 2232 5.874093 ACAATCTTGAAGATCTCAACCAGT 58.126 37.500 8.32 0.00 39.20 4.00
2207 2237 6.367149 CGAGACAACAATCTTGAAGATCTCAA 59.633 38.462 16.79 1.65 41.93 3.02
2239 2270 2.165167 AGTAGGTGAACCGTTGATCGA 58.835 47.619 0.00 0.00 42.86 3.59


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

AutoCloner maintained by Alex Coulton.