Multiple sequence alignment - TraesCS4B01G202900

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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 TraesCS4B01G202900 chr4B 100.000 2548 0 0 1 2548 434195274 434192727 0.000000e+00 4706.0
1 TraesCS4B01G202900 chr4D 89.758 2353 123 43 257 2548 350832448 350830153 0.000000e+00 2902.0
2 TraesCS4B01G202900 chr4D 89.139 267 15 5 3 255 350832754 350832488 1.140000e-83 320.0
3 TraesCS4B01G202900 chr4A 89.241 1450 81 31 258 1682 114141465 114142864 0.000000e+00 1744.0
4 TraesCS4B01G202900 chr4A 82.466 730 55 32 1840 2528 114143021 114143718 2.840000e-159 571.0
5 TraesCS4B01G202900 chr4A 91.860 258 14 3 1 252 114141153 114141409 1.120000e-93 353.0
6 TraesCS4B01G202900 chr4A 85.430 151 10 5 2405 2548 114152602 114152747 2.040000e-31 147.0
7 TraesCS4B01G202900 chr1D 97.727 44 1 0 1432 1475 384147318 384147275 2.720000e-10 76.8
8 TraesCS4B01G202900 chr1D 76.991 113 22 4 1241 1351 384147787 384147677 7.610000e-06 62.1
9 TraesCS4B01G202900 chr1B 97.727 44 1 0 1432 1475 515455137 515455094 2.720000e-10 76.8
10 TraesCS4B01G202900 chr1B 76.991 113 22 4 1241 1351 515455604 515455494 7.610000e-06 62.1
11 TraesCS4B01G202900 chr1B 100.000 30 0 0 900 929 227927792 227927763 3.540000e-04 56.5
12 TraesCS4B01G202900 chr1A 97.727 44 1 0 1432 1475 483928222 483928179 2.720000e-10 76.8


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 TraesCS4B01G202900 chr4B 434192727 434195274 2547 True 4706.000000 4706 100.000000 1 2548 1 chr4B.!!$R1 2547
1 TraesCS4B01G202900 chr4D 350830153 350832754 2601 True 1611.000000 2902 89.448500 3 2548 2 chr4D.!!$R1 2545
2 TraesCS4B01G202900 chr4A 114141153 114143718 2565 False 889.333333 1744 87.855667 1 2528 3 chr4A.!!$F2 2527

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
311 385 0.737367 CGTCACATCGGCATGACACT 60.737 55.0 0.0 0.0 44.54 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1772 1912 0.038159 CACACGGTGGGAGAGAAGAC 60.038 60.0 13.48 0.0 0.0 3.01 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
46 47 2.904178 ATTTTGGGGCCGACGGATCC 62.904 60.000 20.50 17.84 0.00 3.36
90 91 1.682451 GACAGCTACCCCGCCATGTA 61.682 60.000 0.00 0.00 0.00 2.29
132 134 0.854062 CACCACGCAAGCATTTTGTG 59.146 50.000 0.00 0.00 45.62 3.33
196 217 2.237643 TGCAATGCATGTTGTACACCT 58.762 42.857 2.72 0.00 31.71 4.00
228 249 4.415332 CCACCGTACGCTGTCGCT 62.415 66.667 10.49 0.00 39.84 4.93
231 252 2.126618 CCGTACGCTGTCGCTTCA 60.127 61.111 10.49 0.00 39.84 3.02
244 265 2.998279 GCTTCAAGCGCTGGCCATT 61.998 57.895 12.58 0.00 41.24 3.16
311 385 0.737367 CGTCACATCGGCATGACACT 60.737 55.000 0.00 0.00 44.54 3.55
341 415 1.597578 GCAACAAACCCCGACCGTA 60.598 57.895 0.00 0.00 0.00 4.02
386 460 6.392354 CACACTATTTGCCAGTGATTGAATT 58.608 36.000 9.33 0.00 45.10 2.17
442 524 1.531365 CAGCACAGGGGCCAAGAAA 60.531 57.895 4.39 0.00 0.00 2.52
575 657 3.702048 CGCCCGGACCCTTCTTCA 61.702 66.667 0.73 0.00 0.00 3.02
792 878 3.075005 GCTGAGCCACGTCCCCTA 61.075 66.667 0.00 0.00 0.00 3.53
982 1077 3.387699 AGAGGAAGAGCAAGAGGAATAGC 59.612 47.826 0.00 0.00 0.00 2.97
993 1088 5.687177 GCAAGAGGAATAGCAGGAAGAAGAT 60.687 44.000 0.00 0.00 0.00 2.40
1048 1143 3.502356 TCCTACATCCGCATGGTATGTA 58.498 45.455 0.00 0.00 37.29 2.29
1052 1147 4.521130 ACATCCGCATGGTATGTACTAG 57.479 45.455 0.00 0.00 35.55 2.57
1075 1170 1.133976 CAATCGCCTTCTTCCCATCCT 60.134 52.381 0.00 0.00 0.00 3.24
1076 1171 1.216990 ATCGCCTTCTTCCCATCCTT 58.783 50.000 0.00 0.00 0.00 3.36
1077 1172 0.541863 TCGCCTTCTTCCCATCCTTC 59.458 55.000 0.00 0.00 0.00 3.46
1080 1175 2.807676 GCCTTCTTCCCATCCTTCAAA 58.192 47.619 0.00 0.00 0.00 2.69
1081 1176 2.493675 GCCTTCTTCCCATCCTTCAAAC 59.506 50.000 0.00 0.00 0.00 2.93
1082 1177 3.815757 GCCTTCTTCCCATCCTTCAAACT 60.816 47.826 0.00 0.00 0.00 2.66
1084 1179 4.401925 CTTCTTCCCATCCTTCAAACTGT 58.598 43.478 0.00 0.00 0.00 3.55
1085 1180 5.514834 CCTTCTTCCCATCCTTCAAACTGTA 60.515 44.000 0.00 0.00 0.00 2.74
1092 1187 6.011981 TCCCATCCTTCAAACTGTATACCTTT 60.012 38.462 0.00 0.00 0.00 3.11
1109 1217 3.122297 CCTTTATCTGCTGCTCTCTTCG 58.878 50.000 0.00 0.00 0.00 3.79
1135 1243 4.130719 AGGAGATAGATGATCACCAGCT 57.869 45.455 0.00 0.00 45.28 4.24
1136 1244 5.268131 AGGAGATAGATGATCACCAGCTA 57.732 43.478 0.00 0.00 45.28 3.32
1138 1246 4.142491 GGAGATAGATGATCACCAGCTACG 60.142 50.000 0.00 0.00 45.37 3.51
1139 1247 3.192422 AGATAGATGATCACCAGCTACGC 59.808 47.826 0.00 0.00 45.37 4.42
1140 1248 1.407936 AGATGATCACCAGCTACGCT 58.592 50.000 0.00 0.00 40.20 5.07
1141 1249 1.759445 AGATGATCACCAGCTACGCTT 59.241 47.619 0.00 0.00 40.20 4.68
1142 1250 2.169352 AGATGATCACCAGCTACGCTTT 59.831 45.455 0.00 0.00 40.20 3.51
1143 1251 2.472695 TGATCACCAGCTACGCTTTT 57.527 45.000 0.00 0.00 36.40 2.27
1144 1252 2.346803 TGATCACCAGCTACGCTTTTC 58.653 47.619 0.00 0.00 36.40 2.29
1145 1253 1.324736 GATCACCAGCTACGCTTTTCG 59.675 52.381 0.00 0.00 45.38 3.46
1146 1254 0.315886 TCACCAGCTACGCTTTTCGA 59.684 50.000 0.00 0.00 41.67 3.71
1147 1255 1.067142 TCACCAGCTACGCTTTTCGAT 60.067 47.619 0.00 0.00 41.67 3.59
1148 1256 1.324736 CACCAGCTACGCTTTTCGATC 59.675 52.381 0.00 0.00 41.67 3.69
1149 1257 0.572590 CCAGCTACGCTTTTCGATCG 59.427 55.000 9.36 9.36 41.67 3.69
1150 1258 0.572590 CAGCTACGCTTTTCGATCGG 59.427 55.000 16.41 0.00 41.67 4.18
1151 1259 0.527817 AGCTACGCTTTTCGATCGGG 60.528 55.000 16.41 4.73 41.67 5.14
1152 1260 0.804933 GCTACGCTTTTCGATCGGGT 60.805 55.000 16.41 3.90 41.67 5.28
1153 1261 1.197910 CTACGCTTTTCGATCGGGTC 58.802 55.000 16.41 0.00 41.67 4.46
1154 1262 0.527113 TACGCTTTTCGATCGGGTCA 59.473 50.000 16.41 0.00 41.67 4.02
1155 1263 1.012486 ACGCTTTTCGATCGGGTCAC 61.012 55.000 16.41 1.82 41.67 3.67
1156 1264 1.693083 CGCTTTTCGATCGGGTCACC 61.693 60.000 16.41 0.00 41.67 4.02
1157 1265 0.391263 GCTTTTCGATCGGGTCACCT 60.391 55.000 16.41 0.00 33.28 4.00
1158 1266 1.641577 CTTTTCGATCGGGTCACCTC 58.358 55.000 16.41 0.00 33.28 3.85
1159 1267 0.970640 TTTTCGATCGGGTCACCTCA 59.029 50.000 16.41 0.00 33.28 3.86
1160 1268 0.245539 TTTCGATCGGGTCACCTCAC 59.754 55.000 16.41 0.00 33.28 3.51
1161 1269 1.601419 TTCGATCGGGTCACCTCACC 61.601 60.000 16.41 0.00 35.42 4.02
1167 1275 3.637273 GGTCACCTCACCGGGCTT 61.637 66.667 6.32 0.00 36.97 4.35
1186 1294 3.009140 CATGCGCAGGACATCGAC 58.991 61.111 18.87 0.00 0.00 4.20
1196 1304 2.418976 CAGGACATCGACTTCTCACGTA 59.581 50.000 0.00 0.00 0.00 3.57
1229 1337 7.618117 AGAATTGGTTAACTAATTAAGGTGGGG 59.382 37.037 24.61 0.00 37.20 4.96
1377 1488 4.034510 CCGGTCTCAAATCAATTACTGCTC 59.965 45.833 0.00 0.00 0.00 4.26
1446 1557 1.312815 GCTTGCAGTGTGGAAAGAGT 58.687 50.000 0.00 0.00 0.00 3.24
1507 1618 4.630644 AGCAGTTGAGATCAGAAAAGGA 57.369 40.909 0.00 0.00 0.00 3.36
1558 1672 2.012673 CAGCTCCTAATGACCAACAGC 58.987 52.381 0.00 0.00 0.00 4.40
1569 1683 2.177531 CAACAGCAGATGCGTGCC 59.822 61.111 0.00 0.00 45.20 5.01
1682 1801 0.888736 TGTGGTGGTGCATGTACAGC 60.889 55.000 16.11 11.55 38.53 4.40
1683 1802 1.303236 TGGTGGTGCATGTACAGCC 60.303 57.895 16.11 15.77 37.24 4.85
1684 1803 2.398554 GGTGGTGCATGTACAGCCG 61.399 63.158 16.11 0.00 37.24 5.52
1685 1804 1.671054 GTGGTGCATGTACAGCCGT 60.671 57.895 16.11 0.00 37.24 5.68
1686 1805 0.390603 GTGGTGCATGTACAGCCGTA 60.391 55.000 16.11 0.00 37.24 4.02
1687 1806 0.390603 TGGTGCATGTACAGCCGTAC 60.391 55.000 16.11 3.14 46.94 3.67
1698 1817 3.698820 GCCGTACAGGGTCGGGTT 61.699 66.667 5.78 0.00 45.85 4.11
1699 1818 2.263540 CCGTACAGGGTCGGGTTG 59.736 66.667 0.00 0.00 42.61 3.77
1700 1819 2.263540 CGTACAGGGTCGGGTTGG 59.736 66.667 0.00 0.00 0.00 3.77
1701 1820 2.046604 GTACAGGGTCGGGTTGGC 60.047 66.667 0.00 0.00 0.00 4.52
1702 1821 2.527123 TACAGGGTCGGGTTGGCA 60.527 61.111 0.00 0.00 0.00 4.92
1703 1822 2.589157 TACAGGGTCGGGTTGGCAG 61.589 63.158 0.00 0.00 0.00 4.85
1772 1912 0.524414 TGTACTCGTCATGTGTCCCG 59.476 55.000 0.00 0.00 0.00 5.14
1786 1972 1.305046 TCCCGTCTTCTCTCCCACC 60.305 63.158 0.00 0.00 0.00 4.61
1810 1996 1.165270 GCTAATGGTCCAAGCAACGT 58.835 50.000 10.22 0.00 36.26 3.99
1812 1998 2.745281 GCTAATGGTCCAAGCAACGTAA 59.255 45.455 10.22 0.00 36.26 3.18
1817 2003 3.275143 TGGTCCAAGCAACGTAATATGG 58.725 45.455 0.00 0.00 0.00 2.74
1856 2042 2.208431 CTCCTGCAATCGGATTCTCAC 58.792 52.381 0.00 0.00 0.00 3.51
1887 2073 9.716507 TTTCTTCTCATAACGAACAAAAAGAAG 57.283 29.630 0.00 0.00 39.71 2.85
1970 2158 2.194201 TCACGGGAAAATGGAGGAAC 57.806 50.000 0.00 0.00 0.00 3.62
1982 2178 1.611977 TGGAGGAACCATATACGCTCG 59.388 52.381 0.00 0.00 44.64 5.03
2145 2344 1.026718 GGGATTCTGCACGGGACAAG 61.027 60.000 0.00 0.00 0.00 3.16
2146 2345 1.026718 GGATTCTGCACGGGACAAGG 61.027 60.000 0.00 0.00 0.00 3.61
2147 2346 0.036388 GATTCTGCACGGGACAAGGA 60.036 55.000 0.00 0.00 0.00 3.36
2148 2347 0.321653 ATTCTGCACGGGACAAGGAC 60.322 55.000 0.00 0.00 0.00 3.85
2149 2348 2.358737 CTGCACGGGACAAGGACC 60.359 66.667 0.00 0.00 0.00 4.46
2282 2492 4.464069 TTTTCACCAGTTGACCCTTTTG 57.536 40.909 0.00 0.00 32.26 2.44
2290 2500 1.265905 GTTGACCCTTTTGTGTAGCGG 59.734 52.381 0.00 0.00 0.00 5.52
2291 2501 0.759959 TGACCCTTTTGTGTAGCGGA 59.240 50.000 0.00 0.00 0.00 5.54
2293 2503 0.250597 ACCCTTTTGTGTAGCGGACC 60.251 55.000 0.00 0.00 0.00 4.46
2302 2523 1.755179 TGTAGCGGACCCTACACTAC 58.245 55.000 15.12 7.27 41.89 2.73
2330 2551 0.512952 GCGGCTGATTAATAGGTGCG 59.487 55.000 0.00 0.00 0.00 5.34
2336 2557 3.444916 CTGATTAATAGGTGCGACACGT 58.555 45.455 9.46 9.46 34.83 4.49
2339 2560 2.554806 TAATAGGTGCGACACGTCTG 57.445 50.000 8.13 0.00 34.83 3.51
2416 2664 3.242673 CGCTACACTACCTAGACGAAAGG 60.243 52.174 0.00 0.00 40.20 3.11
2442 2690 2.089936 CGCGCACTTACTAACCGCA 61.090 57.895 8.75 0.00 44.36 5.69
2443 2691 1.418755 GCGCACTTACTAACCGCAC 59.581 57.895 0.30 0.00 43.67 5.34
2444 2692 1.012486 GCGCACTTACTAACCGCACT 61.012 55.000 0.30 0.00 43.67 4.40
2445 2693 0.713883 CGCACTTACTAACCGCACTG 59.286 55.000 0.00 0.00 0.00 3.66
2446 2694 0.442699 GCACTTACTAACCGCACTGC 59.557 55.000 0.00 0.00 0.00 4.40
2489 2737 2.438795 CCCCGACACAAACCCCAT 59.561 61.111 0.00 0.00 0.00 4.00
2530 2784 1.468506 GCGATTCCCTCTCTCTCCCC 61.469 65.000 0.00 0.00 0.00 4.81
2531 2785 0.187361 CGATTCCCTCTCTCTCCCCT 59.813 60.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.930251 TTCAAATCAATTGGCCCCGA 58.070 45.000 5.42 0.00 39.62 5.14
7 8 8.917655 CCAAAATTTTCATTCAAATCAATTGGC 58.082 29.630 5.42 0.00 39.62 4.52
133 135 4.430765 CCCAGGACGAACCGGACG 62.431 72.222 9.46 16.45 44.74 4.79
196 217 4.770362 TGGATCCCGCCGTCTCCA 62.770 66.667 9.90 0.00 35.46 3.86
228 249 0.607762 TGTAATGGCCAGCGCTTGAA 60.608 50.000 13.05 0.00 34.44 2.69
231 252 2.409870 GCTGTAATGGCCAGCGCTT 61.410 57.895 13.05 2.46 45.10 4.68
238 259 2.544486 GCATTAGCTTGCTGTAATGGCC 60.544 50.000 15.58 0.00 39.57 5.36
302 376 1.466360 GCGGTCAATTCAGTGTCATGC 60.466 52.381 0.00 0.00 0.00 4.06
311 385 0.382158 TTTGTTGCGCGGTCAATTCA 59.618 45.000 8.83 0.00 0.00 2.57
341 415 1.537202 GTGTTGTAGTAGACGTCCCGT 59.463 52.381 13.01 0.00 45.10 5.28
442 524 1.264288 CACGCCGCTCTTTTTCTTTCT 59.736 47.619 0.00 0.00 0.00 2.52
575 657 2.124570 GTCGTCCATGCCATGCCT 60.125 61.111 0.00 0.00 0.00 4.75
982 1077 5.474876 GGGCCATATTGTAATCTTCTTCCTG 59.525 44.000 4.39 0.00 0.00 3.86
993 1088 2.441750 GTCTCCCAGGGCCATATTGTAA 59.558 50.000 6.18 0.00 0.00 2.41
1026 1121 2.906389 ACATACCATGCGGATGTAGGAT 59.094 45.455 16.17 0.48 33.75 3.24
1048 1143 3.132467 GGGAAGAAGGCGATTGTACTAGT 59.868 47.826 0.00 0.00 0.00 2.57
1052 1147 2.396590 TGGGAAGAAGGCGATTGTAC 57.603 50.000 0.00 0.00 0.00 2.90
1061 1156 3.760684 CAGTTTGAAGGATGGGAAGAAGG 59.239 47.826 0.00 0.00 0.00 3.46
1063 1158 4.453480 ACAGTTTGAAGGATGGGAAGAA 57.547 40.909 0.00 0.00 0.00 2.52
1075 1170 7.065803 GCAGCAGATAAAGGTATACAGTTTGAA 59.934 37.037 5.01 0.00 0.00 2.69
1076 1171 6.538742 GCAGCAGATAAAGGTATACAGTTTGA 59.461 38.462 5.01 0.00 0.00 2.69
1077 1172 6.540189 AGCAGCAGATAAAGGTATACAGTTTG 59.460 38.462 5.01 0.00 0.00 2.93
1080 1175 5.600484 AGAGCAGCAGATAAAGGTATACAGT 59.400 40.000 5.01 0.00 0.00 3.55
1081 1176 6.015519 AGAGAGCAGCAGATAAAGGTATACAG 60.016 42.308 5.01 0.00 0.00 2.74
1082 1177 5.835819 AGAGAGCAGCAGATAAAGGTATACA 59.164 40.000 5.01 0.00 0.00 2.29
1084 1179 6.294231 CGAAGAGAGCAGCAGATAAAGGTATA 60.294 42.308 0.00 0.00 0.00 1.47
1085 1180 5.508825 CGAAGAGAGCAGCAGATAAAGGTAT 60.509 44.000 0.00 0.00 0.00 2.73
1109 1217 5.260424 TGGTGATCATCTATCTCCTAGCTC 58.740 45.833 7.64 0.00 45.03 4.09
1116 1224 4.980590 CGTAGCTGGTGATCATCTATCTC 58.019 47.826 7.64 0.00 35.45 2.75
1135 1243 0.527113 TGACCCGATCGAAAAGCGTA 59.473 50.000 18.66 0.00 41.80 4.42
1136 1244 1.012486 GTGACCCGATCGAAAAGCGT 61.012 55.000 18.66 2.19 41.80 5.07
1138 1246 0.391263 AGGTGACCCGATCGAAAAGC 60.391 55.000 18.66 8.76 35.12 3.51
1139 1247 1.067142 TGAGGTGACCCGATCGAAAAG 60.067 52.381 18.66 4.76 35.12 2.27
1140 1248 0.970640 TGAGGTGACCCGATCGAAAA 59.029 50.000 18.66 0.00 35.12 2.29
1141 1249 0.245539 GTGAGGTGACCCGATCGAAA 59.754 55.000 18.66 0.00 35.12 3.46
1142 1250 1.601419 GGTGAGGTGACCCGATCGAA 61.601 60.000 18.66 0.00 35.12 3.71
1143 1251 2.050350 GGTGAGGTGACCCGATCGA 61.050 63.158 18.66 0.00 35.12 3.59
1144 1252 2.494918 GGTGAGGTGACCCGATCG 59.505 66.667 8.51 8.51 35.12 3.69
1145 1253 2.494918 CGGTGAGGTGACCCGATC 59.505 66.667 0.00 0.00 44.41 3.69
1146 1254 3.075005 CCGGTGAGGTGACCCGAT 61.075 66.667 0.00 0.00 44.41 4.18
1150 1258 3.637273 AAGCCCGGTGAGGTGACC 61.637 66.667 0.00 0.00 38.74 4.02
1151 1259 2.358737 CAAGCCCGGTGAGGTGAC 60.359 66.667 0.00 0.00 38.74 3.67
1152 1260 4.329545 GCAAGCCCGGTGAGGTGA 62.330 66.667 0.00 0.00 38.74 4.02
1153 1261 3.925630 ATGCAAGCCCGGTGAGGTG 62.926 63.158 0.00 0.00 38.74 4.00
1154 1262 3.650950 ATGCAAGCCCGGTGAGGT 61.651 61.111 0.00 0.00 38.74 3.85
1155 1263 3.136123 CATGCAAGCCCGGTGAGG 61.136 66.667 0.00 0.00 40.63 3.86
1156 1264 3.818787 GCATGCAAGCCCGGTGAG 61.819 66.667 14.21 0.00 0.00 3.51
1174 1282 1.634702 GTGAGAAGTCGATGTCCTGC 58.365 55.000 0.00 0.00 0.00 4.85
1183 1291 3.371285 TCTGATGTCTACGTGAGAAGTCG 59.629 47.826 0.00 0.00 35.37 4.18
1186 1294 5.518128 CCAATTCTGATGTCTACGTGAGAAG 59.482 44.000 9.54 0.00 38.23 2.85
1377 1488 5.954153 ATATATTCCTGCTGATCAGAGGG 57.046 43.478 27.04 23.59 45.72 4.30
1446 1557 3.318313 ACTCCTTGTTCTCCTTCTCCAA 58.682 45.455 0.00 0.00 0.00 3.53
1507 1618 4.648626 TGCTGCTGCTTCGGCCTT 62.649 61.111 17.00 0.00 40.91 4.35
1569 1683 0.654683 GCCAACATCTAGAGCAAGCG 59.345 55.000 0.00 0.00 0.00 4.68
1573 1687 2.507058 AGAATGGCCAACATCTAGAGCA 59.493 45.455 10.96 0.00 39.40 4.26
1574 1688 2.877168 CAGAATGGCCAACATCTAGAGC 59.123 50.000 10.96 0.00 39.40 4.09
1575 1689 2.877168 GCAGAATGGCCAACATCTAGAG 59.123 50.000 10.96 3.92 39.40 2.43
1576 1690 2.239402 TGCAGAATGGCCAACATCTAGA 59.761 45.455 10.96 0.00 39.40 2.43
1577 1691 2.357009 GTGCAGAATGGCCAACATCTAG 59.643 50.000 10.96 9.95 39.40 2.43
1683 1802 2.263540 CCAACCCGACCCTGTACG 59.736 66.667 0.00 0.00 0.00 3.67
1684 1803 2.046604 GCCAACCCGACCCTGTAC 60.047 66.667 0.00 0.00 0.00 2.90
1685 1804 2.527123 TGCCAACCCGACCCTGTA 60.527 61.111 0.00 0.00 0.00 2.74
1686 1805 3.953775 CTGCCAACCCGACCCTGT 61.954 66.667 0.00 0.00 0.00 4.00
1687 1806 4.722700 CCTGCCAACCCGACCCTG 62.723 72.222 0.00 0.00 0.00 4.45
1688 1807 4.974438 TCCTGCCAACCCGACCCT 62.974 66.667 0.00 0.00 0.00 4.34
1689 1808 3.282374 ATTCCTGCCAACCCGACCC 62.282 63.158 0.00 0.00 0.00 4.46
1690 1809 1.749258 GATTCCTGCCAACCCGACC 60.749 63.158 0.00 0.00 0.00 4.79
1691 1810 0.608035 TTGATTCCTGCCAACCCGAC 60.608 55.000 0.00 0.00 0.00 4.79
1692 1811 0.111446 TTTGATTCCTGCCAACCCGA 59.889 50.000 0.00 0.00 0.00 5.14
1693 1812 0.965439 TTTTGATTCCTGCCAACCCG 59.035 50.000 0.00 0.00 0.00 5.28
1694 1813 1.338105 GCTTTTGATTCCTGCCAACCC 60.338 52.381 0.00 0.00 0.00 4.11
1695 1814 1.338105 GGCTTTTGATTCCTGCCAACC 60.338 52.381 0.00 0.00 42.79 3.77
1696 1815 2.084610 GGCTTTTGATTCCTGCCAAC 57.915 50.000 0.00 0.00 42.79 3.77
1699 1818 0.108472 GCTGGCTTTTGATTCCTGCC 60.108 55.000 0.00 0.00 43.49 4.85
1700 1819 0.893447 AGCTGGCTTTTGATTCCTGC 59.107 50.000 0.00 0.00 42.74 4.85
1701 1820 1.131883 CGAGCTGGCTTTTGATTCCTG 59.868 52.381 0.00 0.00 0.00 3.86
1702 1821 1.271597 ACGAGCTGGCTTTTGATTCCT 60.272 47.619 0.00 0.00 0.00 3.36
1703 1822 1.168714 ACGAGCTGGCTTTTGATTCC 58.831 50.000 0.00 0.00 0.00 3.01
1760 1900 1.546476 AGAGAAGACGGGACACATGAC 59.454 52.381 0.00 0.00 0.00 3.06
1772 1912 0.038159 CACACGGTGGGAGAGAAGAC 60.038 60.000 13.48 0.00 0.00 3.01
1786 1972 0.447801 GCTTGGACCATTAGCACACG 59.552 55.000 12.47 0.00 35.05 4.49
1866 2052 7.342194 CGTTCTTCTTTTTGTTCGTTATGAGA 58.658 34.615 0.00 0.00 0.00 3.27
1887 2073 2.092882 GTGCAGGACTACCGCGTTC 61.093 63.158 4.92 0.00 41.83 3.95
1982 2178 1.467035 CGTGTACACCTACTTCTCGCC 60.467 57.143 20.11 0.00 0.00 5.54
2148 2347 4.416601 AAGAGGGGAGGGGTCCGG 62.417 72.222 0.00 0.00 0.00 5.14
2149 2348 2.764547 GAAGAGGGGAGGGGTCCG 60.765 72.222 0.00 0.00 0.00 4.79
2271 2481 1.141254 TCCGCTACACAAAAGGGTCAA 59.859 47.619 0.00 0.00 0.00 3.18
2302 2523 2.871182 TAATCAGCCGCTACTCAGTG 57.129 50.000 0.00 0.00 0.00 3.66
2330 2551 3.036084 CACACCGCCAGACGTGTC 61.036 66.667 0.00 0.00 41.42 3.67
2421 2669 1.418755 GGTTAGTAAGTGCGCGTGC 59.581 57.895 15.48 15.48 43.20 5.34
2426 2674 0.713883 CAGTGCGGTTAGTAAGTGCG 59.286 55.000 2.78 0.00 0.00 5.34
2469 2717 2.983592 GGGTTTGTGTCGGGGCTG 60.984 66.667 0.00 0.00 0.00 4.85
2476 2724 1.549203 ATGCTCATGGGGTTTGTGTC 58.451 50.000 0.00 0.00 0.00 3.67
2489 2737 3.668447 GACTCCTCTGTTCAAATGCTCA 58.332 45.455 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.