Multiple sequence alignment - TraesCS2D01G117600

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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 TraesCS2D01G117600 chr2D 100.000 2234 0 0 1 2234 67192188 67194421 0.000000e+00 4126.0
1 TraesCS2D01G117600 chr2A 93.775 755 34 4 979 1722 67551348 67550596 0.000000e+00 1122.0
2 TraesCS2D01G117600 chr2A 95.660 576 16 3 369 936 67561047 67560473 0.000000e+00 917.0
3 TraesCS2D01G117600 chr2A 95.213 376 15 1 1859 2234 67550354 67549982 1.910000e-165 592.0
4 TraesCS2D01G117600 chr2A 92.412 369 13 5 1 368 67561508 67561154 1.530000e-141 512.0
5 TraesCS2D01G117600 chr2A 82.804 378 59 4 1840 2213 67713187 67712812 1.280000e-87 333.0
6 TraesCS2D01G117600 chr2A 82.540 378 60 4 1840 2213 67978495 67978120 5.950000e-86 327.0
7 TraesCS2D01G117600 chr2A 96.212 132 4 1 1253 1383 52191833 52191702 4.830000e-52 215.0
8 TraesCS2D01G117600 chr2A 95.455 132 5 1 1253 1383 52218276 52218145 2.250000e-50 209.0
9 TraesCS2D01G117600 chr2A 91.589 107 9 0 1714 1820 67550459 67550353 4.970000e-32 148.0
10 TraesCS2D01G117600 chr2B 91.897 506 20 10 1729 2234 104307714 104307230 0.000000e+00 688.0
11 TraesCS2D01G117600 chr2B 96.491 342 10 2 1382 1722 104308239 104307899 4.160000e-157 564.0
12 TraesCS2D01G117600 chr2B 81.955 399 63 5 1840 2234 104578856 104578463 1.650000e-86 329.0
13 TraesCS2D01G117600 chr1A 92.982 399 28 0 979 1377 84015284 84015682 1.150000e-162 582.0
14 TraesCS2D01G117600 chr7A 86.480 392 29 8 991 1382 3623623 3623990 2.070000e-110 409.0
15 TraesCS2D01G117600 chr6B 92.547 161 12 0 979 1139 551910658 551910818 4.800000e-57 231.0
16 TraesCS2D01G117600 chr6B 90.000 150 15 0 830 979 551910407 551910556 6.290000e-46 195.0
17 TraesCS2D01G117600 chr5B 91.608 143 12 0 1101 1243 243346237 243346095 4.870000e-47 198.0
18 TraesCS2D01G117600 chr3D 97.872 47 1 0 1336 1382 602209014 602208968 5.110000e-12 82.4


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 TraesCS2D01G117600 chr2D 67192188 67194421 2233 False 4126.000000 4126 100.000000 1 2234 1 chr2D.!!$F1 2233
1 TraesCS2D01G117600 chr2A 67560473 67561508 1035 True 714.500000 917 94.036000 1 936 2 chr2A.!!$R6 935
2 TraesCS2D01G117600 chr2A 67549982 67551348 1366 True 620.666667 1122 93.525667 979 2234 3 chr2A.!!$R5 1255
3 TraesCS2D01G117600 chr2B 104307230 104308239 1009 True 626.000000 688 94.194000 1382 2234 2 chr2B.!!$R2 852

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
962 1078 0.252197 GAGGTTTGGACGGCCATACT 59.748 55.0 27.15 18.28 45.46 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1855 2169 1.067425 TCCTGCAAATGCTGTCATTGC 60.067 47.619 6.97 2.94 41.77 3.56 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
41 42 3.134127 GTGATGCCTTCCCGTGCC 61.134 66.667 0.00 0.00 0.00 5.01
47 48 4.760047 CCTTCCCGTGCCAGGTCG 62.760 72.222 0.00 0.00 0.00 4.79
65 66 4.096003 CCCACTTCCCGTGCCGAT 62.096 66.667 0.00 0.00 42.42 4.18
91 92 1.700186 GGGCTCCCCTTATCCTACAAG 59.300 57.143 0.00 0.00 41.34 3.16
177 178 2.931386 GCGCCTGATGTATCGCAC 59.069 61.111 0.00 0.00 45.99 5.34
180 181 1.217585 CGCCTGATGTATCGCACTGG 61.218 60.000 0.00 0.00 0.00 4.00
181 182 1.502163 GCCTGATGTATCGCACTGGC 61.502 60.000 0.00 0.00 36.72 4.85
182 183 0.882042 CCTGATGTATCGCACTGGCC 60.882 60.000 0.00 0.00 36.38 5.36
183 184 1.217585 CTGATGTATCGCACTGGCCG 61.218 60.000 0.00 0.00 36.38 6.13
184 185 1.227263 GATGTATCGCACTGGCCGT 60.227 57.895 0.00 0.00 36.38 5.68
185 186 0.810031 GATGTATCGCACTGGCCGTT 60.810 55.000 0.00 0.00 36.38 4.44
186 187 0.392461 ATGTATCGCACTGGCCGTTT 60.392 50.000 0.00 0.00 36.38 3.60
187 188 1.295357 TGTATCGCACTGGCCGTTTG 61.295 55.000 0.00 0.00 36.38 2.93
188 189 1.743623 TATCGCACTGGCCGTTTGG 60.744 57.895 0.00 0.00 36.38 3.28
189 190 2.457743 TATCGCACTGGCCGTTTGGT 62.458 55.000 0.00 0.00 37.67 3.67
190 191 2.457743 ATCGCACTGGCCGTTTGGTA 62.458 55.000 0.00 0.00 37.67 3.25
191 192 2.951458 GCACTGGCCGTTTGGTAC 59.049 61.111 0.00 0.00 37.67 3.34
192 193 1.599797 GCACTGGCCGTTTGGTACT 60.600 57.895 0.00 0.00 37.67 2.73
193 194 1.170290 GCACTGGCCGTTTGGTACTT 61.170 55.000 0.00 0.00 37.67 2.24
210 211 2.024414 ACTTGTCAAAGTGGTTCTGGC 58.976 47.619 0.00 0.00 45.12 4.85
221 223 2.751436 TTCTGGCAGCAATCCGGC 60.751 61.111 10.34 0.00 0.00 6.13
241 243 0.877649 CTTCCACTCGATCGCCATGG 60.878 60.000 20.01 20.01 0.00 3.66
247 249 2.356793 CGATCGCCATGGAGCTCC 60.357 66.667 26.78 26.78 0.00 4.70
272 274 4.893608 TCATGGTTCATGAAGACTTTCGA 58.106 39.130 8.80 0.00 46.17 3.71
351 353 1.815003 CTTGTGGCTTGGGACAGAATC 59.185 52.381 0.00 0.00 42.39 2.52
374 482 2.167861 GCCCGATTGAGTCACTCGC 61.168 63.158 23.26 10.19 35.69 5.03
485 593 1.450312 CCGACAGGACATTGGCTCC 60.450 63.158 0.00 0.00 41.02 4.70
525 633 3.077907 CCACGGACCCATCAAGGT 58.922 61.111 0.00 0.00 45.12 3.50
576 684 2.890474 GACATGGCTGGGTACGCG 60.890 66.667 3.53 3.53 0.00 6.01
799 915 1.675310 CCGGCCAAGTGCAAGATGA 60.675 57.895 2.24 0.00 43.89 2.92
884 1000 2.025418 CGAACGGTACCTGCGCTTT 61.025 57.895 9.73 0.00 0.00 3.51
920 1036 2.796245 GAAACGGCGGACCACATTGC 62.796 60.000 13.24 0.00 34.57 3.56
921 1037 4.634703 ACGGCGGACCACATTGCA 62.635 61.111 13.24 0.00 34.57 4.08
932 1048 0.454600 CACATTGCAGTGGGATGCTC 59.545 55.000 14.25 0.00 46.63 4.26
933 1049 1.028330 ACATTGCAGTGGGATGCTCG 61.028 55.000 14.25 0.00 46.63 5.03
935 1051 0.322816 ATTGCAGTGGGATGCTCGTT 60.323 50.000 0.00 0.00 46.63 3.85
936 1052 0.955428 TTGCAGTGGGATGCTCGTTC 60.955 55.000 0.00 0.00 46.63 3.95
937 1053 1.078848 GCAGTGGGATGCTCGTTCT 60.079 57.895 0.00 0.00 43.07 3.01
938 1054 1.086634 GCAGTGGGATGCTCGTTCTC 61.087 60.000 0.00 0.00 43.07 2.87
939 1055 0.803768 CAGTGGGATGCTCGTTCTCG 60.804 60.000 0.00 0.00 38.55 4.04
940 1056 2.167861 GTGGGATGCTCGTTCTCGC 61.168 63.158 0.00 0.00 36.96 5.03
941 1057 2.956964 GGGATGCTCGTTCTCGCG 60.957 66.667 0.00 0.00 36.96 5.87
942 1058 3.621394 GGATGCTCGTTCTCGCGC 61.621 66.667 0.00 0.00 46.13 6.86
953 1069 3.479269 CTCGCGCGAGGTTTGGAC 61.479 66.667 43.86 0.00 38.51 4.02
959 1075 2.046314 CGAGGTTTGGACGGCCAT 60.046 61.111 13.08 0.00 45.46 4.40
960 1076 1.219664 CGAGGTTTGGACGGCCATA 59.780 57.895 13.08 2.15 45.46 2.74
961 1077 1.087771 CGAGGTTTGGACGGCCATAC 61.088 60.000 21.55 21.55 45.46 2.39
962 1078 0.252197 GAGGTTTGGACGGCCATACT 59.748 55.000 27.15 18.28 45.46 2.12
963 1079 0.696501 AGGTTTGGACGGCCATACTT 59.303 50.000 27.15 19.33 45.46 2.24
964 1080 1.092348 GGTTTGGACGGCCATACTTC 58.908 55.000 27.15 10.66 45.46 3.01
965 1081 1.092348 GTTTGGACGGCCATACTTCC 58.908 55.000 22.27 0.31 45.46 3.46
970 1086 4.891727 CGGCCATACTTCCGCGCT 62.892 66.667 5.56 0.00 39.14 5.92
971 1087 3.272334 GGCCATACTTCCGCGCTG 61.272 66.667 5.56 0.00 0.00 5.18
972 1088 3.941836 GCCATACTTCCGCGCTGC 61.942 66.667 5.56 0.00 0.00 5.25
973 1089 2.511373 CCATACTTCCGCGCTGCA 60.511 61.111 5.56 0.00 0.00 4.41
974 1090 2.106074 CCATACTTCCGCGCTGCAA 61.106 57.895 5.56 0.00 0.00 4.08
975 1091 1.060937 CATACTTCCGCGCTGCAAC 59.939 57.895 5.56 0.00 0.00 4.17
976 1092 2.106683 ATACTTCCGCGCTGCAACC 61.107 57.895 5.56 0.00 0.00 3.77
977 1093 2.521958 ATACTTCCGCGCTGCAACCT 62.522 55.000 5.56 0.00 0.00 3.50
996 1112 0.806868 TAGTAGTTCACAGGACGCCG 59.193 55.000 0.00 0.00 0.00 6.46
1034 1150 3.958147 AATGGTGGCCTGACGCTCG 62.958 63.158 3.32 0.00 37.74 5.03
1052 1168 0.663568 CGTCGCCGACTCTCAAAACT 60.664 55.000 16.07 0.00 35.63 2.66
1117 1233 1.278172 CCTATGGATCGAGCGCAACG 61.278 60.000 11.47 15.64 0.00 4.10
1141 1267 1.197721 GGACATTTGACAACTCGCTGG 59.802 52.381 0.00 0.00 0.00 4.85
1204 1330 2.866762 GACTTATGGAGTAAAGCTGGCG 59.133 50.000 0.00 0.00 39.19 5.69
1239 1365 8.529424 TGCAATCCTTCTTGAGATAAATGATT 57.471 30.769 0.00 0.00 0.00 2.57
1260 1386 2.868964 AGTGGGATAGAAGGCACCTA 57.131 50.000 0.00 0.00 0.00 3.08
1279 1405 4.243270 CCTAGTTGTTACCACTAGTGCAC 58.757 47.826 17.86 9.40 33.51 4.57
1284 1410 0.037697 TTACCACTAGTGCACTGCCG 60.038 55.000 29.57 18.52 0.00 5.69
1297 1423 3.920093 CTGCCGTTCTCCCAACCCC 62.920 68.421 0.00 0.00 0.00 4.95
1334 1460 3.335579 ACACCTTGTAAATCCTTCTCGC 58.664 45.455 0.00 0.00 0.00 5.03
1350 1476 6.092396 TCCTTCTCGCTCTAATATATCGACAC 59.908 42.308 0.00 0.00 0.00 3.67
1666 1793 1.202952 TGTTTCGGGGGTAAGCAATGT 60.203 47.619 0.00 0.00 0.00 2.71
1668 1795 0.693622 TTCGGGGGTAAGCAATGTGA 59.306 50.000 0.00 0.00 0.00 3.58
1703 1831 0.608640 ACGGCTCGTTTTCCAGAGAT 59.391 50.000 0.00 0.00 36.35 2.75
1729 2002 7.062322 TGGTCATAACAAAGGCATATCAAGAT 58.938 34.615 0.00 0.00 0.00 2.40
1771 2085 6.500684 TTTATCAAAGTGATCAAGCAGGTC 57.499 37.500 0.00 0.00 38.26 3.85
1856 2170 8.763049 AAAAATTCTTACCTTAGAGCATTTGC 57.237 30.769 0.00 0.00 42.49 3.68
1857 2171 7.466746 AAATTCTTACCTTAGAGCATTTGCA 57.533 32.000 5.20 0.00 45.16 4.08
1858 2172 7.466746 AATTCTTACCTTAGAGCATTTGCAA 57.533 32.000 5.20 0.00 45.16 4.08
1899 2213 0.388520 GTTCCAAGCCATCCGCAAAC 60.389 55.000 0.00 0.00 41.38 2.93
2048 2362 2.298610 GATAGTAACCTTTGGGCCAGC 58.701 52.381 6.23 0.00 35.63 4.85
2210 2524 7.414222 AGACCAATCACATGCAGATTTTATT 57.586 32.000 10.37 0.00 33.64 1.40
2211 2525 8.523915 AGACCAATCACATGCAGATTTTATTA 57.476 30.769 10.37 0.00 33.64 0.98
2212 2526 8.408601 AGACCAATCACATGCAGATTTTATTAC 58.591 33.333 10.37 2.49 33.64 1.89
2225 2539 9.609346 GCAGATTTTATTACTACAAGGGAGTTA 57.391 33.333 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
177 178 0.872388 GACAAGTACCAAACGGCCAG 59.128 55.000 2.24 0.00 0.00 4.85
180 181 2.356695 ACTTTGACAAGTACCAAACGGC 59.643 45.455 0.00 0.00 41.81 5.68
181 182 3.242936 CCACTTTGACAAGTACCAAACGG 60.243 47.826 0.00 0.00 41.69 4.44
182 183 3.375922 ACCACTTTGACAAGTACCAAACG 59.624 43.478 0.00 0.00 41.69 3.60
183 184 4.976224 ACCACTTTGACAAGTACCAAAC 57.024 40.909 0.00 0.00 41.69 2.93
184 185 5.124776 CAGAACCACTTTGACAAGTACCAAA 59.875 40.000 0.00 0.00 41.69 3.28
185 186 4.638421 CAGAACCACTTTGACAAGTACCAA 59.362 41.667 0.00 0.00 41.69 3.67
186 187 4.196193 CAGAACCACTTTGACAAGTACCA 58.804 43.478 0.00 0.00 41.69 3.25
187 188 3.564225 CCAGAACCACTTTGACAAGTACC 59.436 47.826 0.00 0.00 41.69 3.34
188 189 3.003378 GCCAGAACCACTTTGACAAGTAC 59.997 47.826 0.00 0.00 41.69 2.73
189 190 3.211045 GCCAGAACCACTTTGACAAGTA 58.789 45.455 0.00 0.00 41.69 2.24
190 191 2.024414 GCCAGAACCACTTTGACAAGT 58.976 47.619 0.00 0.00 44.72 3.16
191 192 2.023673 TGCCAGAACCACTTTGACAAG 58.976 47.619 0.00 0.00 35.92 3.16
192 193 2.023673 CTGCCAGAACCACTTTGACAA 58.976 47.619 0.00 0.00 0.00 3.18
193 194 1.679139 CTGCCAGAACCACTTTGACA 58.321 50.000 0.00 0.00 0.00 3.58
210 211 2.045045 TGGAAGGCCGGATTGCTG 60.045 61.111 5.05 0.00 36.79 4.41
221 223 0.877649 CATGGCGATCGAGTGGAAGG 60.878 60.000 21.57 0.00 0.00 3.46
241 243 2.158711 TCATGAACCATGATGGGAGCTC 60.159 50.000 17.04 4.71 44.60 4.09
270 272 0.804989 AAGCCCGAATCTTTTGCTCG 59.195 50.000 0.00 0.00 0.00 5.03
272 274 1.546029 GGAAAGCCCGAATCTTTTGCT 59.454 47.619 0.00 0.00 34.24 3.91
330 332 0.178992 TTCTGTCCCAAGCCACAAGG 60.179 55.000 0.00 0.00 38.23 3.61
351 353 1.078759 GTGACTCAATCGGGCGACAG 61.079 60.000 0.00 0.00 0.00 3.51
360 362 2.181205 CTCTTCGCGAGTGACTCAATC 58.819 52.381 13.67 0.00 34.95 2.67
374 482 1.009449 GGACTCGATCGGCTCTTCG 60.009 63.158 16.41 0.00 36.72 3.79
468 576 0.036010 AAGGAGCCAATGTCCTGTCG 60.036 55.000 0.00 0.00 44.17 4.35
525 633 1.577922 GCACCGTAGTCGTGTCTCA 59.422 57.895 0.00 0.00 35.01 3.27
551 659 0.754217 CCCAGCCATGTCCAATGAGG 60.754 60.000 0.00 0.00 39.47 3.86
576 684 3.764049 GAGCACGCCAACGACGTC 61.764 66.667 5.18 5.18 42.96 4.34
799 915 2.268298 CTGTATCGTTAGCCAAGCGTT 58.732 47.619 0.00 0.00 0.00 4.84
852 968 0.939577 CGTTCGCGGATAGTCCATGG 60.940 60.000 4.97 4.97 35.91 3.66
876 992 0.839477 CGTTTGAACACAAAGCGCAG 59.161 50.000 11.47 0.64 34.77 5.18
879 995 1.206115 GGGCGTTTGAACACAAAGCG 61.206 55.000 0.00 0.00 34.77 4.68
884 1000 0.394488 TTCCTGGGCGTTTGAACACA 60.394 50.000 0.00 0.00 0.00 3.72
920 1036 0.803768 CGAGAACGAGCATCCCACTG 60.804 60.000 0.00 0.00 42.66 3.66
921 1037 1.513158 CGAGAACGAGCATCCCACT 59.487 57.895 0.00 0.00 42.66 4.00
936 1052 3.479269 GTCCAAACCTCGCGCGAG 61.479 66.667 44.25 44.25 41.63 5.03
954 1070 3.272334 CAGCGCGGAAGTATGGCC 61.272 66.667 8.83 0.00 0.00 5.36
955 1071 3.941836 GCAGCGCGGAAGTATGGC 61.942 66.667 13.03 0.00 0.00 4.40
956 1072 2.106074 TTGCAGCGCGGAAGTATGG 61.106 57.895 13.03 0.00 0.00 2.74
957 1073 1.060937 GTTGCAGCGCGGAAGTATG 59.939 57.895 13.03 0.00 0.00 2.39
958 1074 2.106683 GGTTGCAGCGCGGAAGTAT 61.107 57.895 13.03 0.00 0.00 2.12
959 1075 1.879737 TAGGTTGCAGCGCGGAAGTA 61.880 55.000 13.03 2.06 0.00 2.24
960 1076 3.234630 TAGGTTGCAGCGCGGAAGT 62.235 57.895 13.03 2.99 0.00 3.01
961 1077 2.434185 TAGGTTGCAGCGCGGAAG 60.434 61.111 13.03 0.00 0.00 3.46
962 1078 1.879737 TACTAGGTTGCAGCGCGGAA 61.880 55.000 13.03 6.92 0.00 4.30
963 1079 2.279502 CTACTAGGTTGCAGCGCGGA 62.280 60.000 13.03 0.00 0.00 5.54
964 1080 1.878522 CTACTAGGTTGCAGCGCGG 60.879 63.158 8.83 2.11 0.00 6.46
965 1081 0.736325 AACTACTAGGTTGCAGCGCG 60.736 55.000 0.00 0.00 0.00 6.86
966 1082 1.000145 GAACTACTAGGTTGCAGCGC 59.000 55.000 0.00 0.00 0.00 5.92
967 1083 1.993370 GTGAACTACTAGGTTGCAGCG 59.007 52.381 0.00 0.00 0.00 5.18
968 1084 2.996621 CTGTGAACTACTAGGTTGCAGC 59.003 50.000 0.00 0.00 0.00 5.25
969 1085 3.258372 TCCTGTGAACTACTAGGTTGCAG 59.742 47.826 0.00 1.35 32.63 4.41
970 1086 3.006537 GTCCTGTGAACTACTAGGTTGCA 59.993 47.826 0.00 0.00 32.63 4.08
971 1087 3.586892 GTCCTGTGAACTACTAGGTTGC 58.413 50.000 0.00 0.00 32.63 4.17
972 1088 3.834610 CGTCCTGTGAACTACTAGGTTG 58.165 50.000 0.00 0.00 32.63 3.77
973 1089 2.230750 GCGTCCTGTGAACTACTAGGTT 59.769 50.000 0.00 0.00 32.63 3.50
974 1090 1.817447 GCGTCCTGTGAACTACTAGGT 59.183 52.381 0.00 0.00 32.63 3.08
975 1091 1.134560 GGCGTCCTGTGAACTACTAGG 59.865 57.143 0.00 0.00 0.00 3.02
976 1092 1.202154 CGGCGTCCTGTGAACTACTAG 60.202 57.143 0.00 0.00 0.00 2.57
977 1093 0.806868 CGGCGTCCTGTGAACTACTA 59.193 55.000 0.00 0.00 0.00 1.82
996 1112 3.346631 CTGCAGGGCGTCCATTTGC 62.347 63.158 9.71 10.81 34.83 3.68
1034 1150 0.784778 CAGTTTTGAGAGTCGGCGAC 59.215 55.000 31.33 31.33 0.00 5.19
1035 1151 0.319555 CCAGTTTTGAGAGTCGGCGA 60.320 55.000 4.99 4.99 0.00 5.54
1039 1155 0.508641 CGTGCCAGTTTTGAGAGTCG 59.491 55.000 0.00 0.00 0.00 4.18
1044 1160 1.480205 CTTTGCGTGCCAGTTTTGAG 58.520 50.000 0.00 0.00 0.00 3.02
1052 1168 1.820056 TCGAAACCTTTGCGTGCCA 60.820 52.632 0.00 0.00 0.00 4.92
1117 1233 0.521735 GAGTTGTCAAATGTCCGGGC 59.478 55.000 0.00 0.00 0.00 6.13
1121 1237 1.197721 CCAGCGAGTTGTCAAATGTCC 59.802 52.381 0.00 0.00 0.00 4.02
1164 1290 2.180017 GCTTCAGCCACAATGCCG 59.820 61.111 0.00 0.00 34.31 5.69
1204 1330 1.187567 AAGGATTGCAACCCCACAGC 61.188 55.000 6.10 0.00 0.00 4.40
1208 1334 1.146774 TCAAGAAGGATTGCAACCCCA 59.853 47.619 6.10 0.00 0.00 4.96
1209 1335 1.821136 CTCAAGAAGGATTGCAACCCC 59.179 52.381 6.10 8.98 0.00 4.95
1239 1365 3.130734 AGGTGCCTTCTATCCCACTTA 57.869 47.619 0.00 0.00 0.00 2.24
1244 1370 2.772515 ACAACTAGGTGCCTTCTATCCC 59.227 50.000 7.97 0.00 0.00 3.85
1279 1405 2.359975 GGGTTGGGAGAACGGCAG 60.360 66.667 0.00 0.00 0.00 4.85
1284 1410 1.149854 ACAACGGGGTTGGGAGAAC 59.850 57.895 12.56 0.00 46.50 3.01
1297 1423 1.223187 GTGTTACAGACCCCACAACG 58.777 55.000 0.00 0.00 0.00 4.10
1334 1460 6.604012 AGACTTGCGTGTCGATATATTAGAG 58.396 40.000 0.00 0.00 41.47 2.43
1380 1507 6.990939 TGCACTCGATCTGTAGTACTAGTATT 59.009 38.462 5.75 4.37 0.00 1.89
1666 1793 3.487372 CCGTATAGATGTCTCACCCTCA 58.513 50.000 0.00 0.00 0.00 3.86
1668 1795 2.158445 AGCCGTATAGATGTCTCACCCT 60.158 50.000 0.00 0.00 0.00 4.34
1703 1831 6.889177 TCTTGATATGCCTTTGTTATGACCAA 59.111 34.615 0.00 0.00 0.00 3.67
1717 1990 7.559590 AACTGTTTCTGTATCTTGATATGCC 57.440 36.000 0.00 0.00 0.00 4.40
1754 2068 1.611673 CCCGACCTGCTTGATCACTTT 60.612 52.381 0.00 0.00 0.00 2.66
1755 2069 0.036010 CCCGACCTGCTTGATCACTT 60.036 55.000 0.00 0.00 0.00 3.16
1771 2085 2.825836 GGAATCCTGTGCAGCCCG 60.826 66.667 0.00 0.00 0.00 6.13
1836 2150 6.658816 TCATTGCAAATGCTCTAAGGTAAGAA 59.341 34.615 1.71 0.00 42.66 2.52
1837 2151 6.094048 GTCATTGCAAATGCTCTAAGGTAAGA 59.906 38.462 1.71 0.00 42.66 2.10
1838 2152 6.127925 TGTCATTGCAAATGCTCTAAGGTAAG 60.128 38.462 1.71 0.00 42.66 2.34
1848 2162 3.328382 AATGCTGTCATTGCAAATGCT 57.672 38.095 1.71 0.00 44.01 3.79
1849 2163 3.742786 CAAATGCTGTCATTGCAAATGC 58.257 40.909 1.71 4.45 41.77 3.56
1850 2164 3.187432 TGCAAATGCTGTCATTGCAAATG 59.813 39.130 1.71 2.77 41.77 2.32
1851 2165 3.403968 TGCAAATGCTGTCATTGCAAAT 58.596 36.364 1.71 0.00 41.77 2.32
1852 2166 2.803386 CTGCAAATGCTGTCATTGCAAA 59.197 40.909 1.71 0.00 41.77 3.68
1853 2167 2.409012 CTGCAAATGCTGTCATTGCAA 58.591 42.857 12.71 0.00 41.77 4.08
1854 2168 1.337354 CCTGCAAATGCTGTCATTGCA 60.337 47.619 11.38 11.38 41.77 4.08
1855 2169 1.067425 TCCTGCAAATGCTGTCATTGC 60.067 47.619 6.97 2.94 41.77 3.56
1856 2170 3.444916 GATCCTGCAAATGCTGTCATTG 58.555 45.455 6.97 0.00 41.77 2.82
1857 2171 2.429610 GGATCCTGCAAATGCTGTCATT 59.570 45.455 3.84 0.00 44.32 2.57
1858 2172 2.029623 GGATCCTGCAAATGCTGTCAT 58.970 47.619 3.84 0.99 42.66 3.06
2048 2362 1.154413 GCACAATGTTGCGACCTCG 60.154 57.895 0.45 0.00 43.27 4.63


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

AutoCloner maintained by Alex Coulton.