Multiple sequence alignment - TraesCS4A01G063000

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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 TraesCS4A01G063000 chr4A 100.000 3075 0 0 1 3075 59669551 59672625 0.000000e+00 5679
1 TraesCS4A01G063000 chr4D 92.579 2210 93 32 471 2640 402232297 402234475 0.000000e+00 3107
2 TraesCS4A01G063000 chr4D 88.186 474 15 8 2 461 402231810 402232256 7.550000e-146 527
3 TraesCS4A01G063000 chr4D 92.437 357 10 6 2736 3075 402234508 402234864 7.660000e-136 494
4 TraesCS4A01G063000 chr4B 92.964 1734 92 10 473 2176 497860195 497861928 0.000000e+00 2499
5 TraesCS4A01G063000 chr4B 93.638 896 24 14 2183 3075 497861897 497862762 0.000000e+00 1308
6 TraesCS4A01G063000 chr4B 83.298 473 45 23 1 461 497859702 497860152 3.690000e-109 405
7 TraesCS4A01G063000 chr5B 81.145 297 46 6 506 799 350368217 350368506 2.380000e-56 230
8 TraesCS4A01G063000 chr5B 78.544 261 50 3 523 780 350485445 350485702 1.900000e-37 167
9 TraesCS4A01G063000 chr5A 82.625 259 43 2 523 780 392000545 392000288 8.580000e-56 228
10 TraesCS4A01G063000 chr5A 76.336 262 50 5 523 780 391990141 391989888 2.490000e-26 130
11 TraesCS4A01G063000 chr5D 80.656 305 48 7 499 799 305709753 305710050 3.090000e-55 226
12 TraesCS4A01G063000 chr5D 78.927 261 49 3 523 780 305763102 305763359 4.080000e-39 172
13 TraesCS4A01G063000 chr1A 81.224 245 39 6 1672 1911 550111016 550111258 1.130000e-44 191
14 TraesCS4A01G063000 chr1B 80.816 245 36 9 1674 1911 627098788 627099028 6.770000e-42 182
15 TraesCS4A01G063000 chr1D 80.408 245 37 9 1674 1911 457530372 457530132 3.150000e-40 176


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 TraesCS4A01G063000 chr4A 59669551 59672625 3074 False 5679 5679 100.000000 1 3075 1 chr4A.!!$F1 3074
1 TraesCS4A01G063000 chr4D 402231810 402234864 3054 False 1376 3107 91.067333 2 3075 3 chr4D.!!$F1 3073
2 TraesCS4A01G063000 chr4B 497859702 497862762 3060 False 1404 2499 89.966667 1 3075 3 chr4B.!!$F1 3074

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
112 119 0.035725 TTCTGAGGGATGCTGTGCAG 60.036 55.0 0.00 0.00 43.65 4.41 F
134 141 0.110486 TGTTTTGAGGTGCCTCTCCC 59.890 55.0 17.96 5.59 43.12 4.30 F
433 470 0.250989 TACGGGGCTTTTCTTGTGGG 60.251 55.0 0.00 0.00 0.00 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1681 1785 0.726452 GCACGATCTCCGCGAGTATC 60.726 60.0 8.23 6.06 43.32 2.24 R
2059 2163 0.742635 GCTGCTAGTCACTTCTGGCC 60.743 60.0 0.00 0.00 40.40 5.36 R
2291 2464 0.674534 GCCGTCTCCGATACTGGAAT 59.325 55.0 0.00 0.00 37.64 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
44 45 0.176680 ACGAGGCTGCTTGTAGATGG 59.823 55.000 0.00 0.00 0.00 3.51
112 119 0.035725 TTCTGAGGGATGCTGTGCAG 60.036 55.000 0.00 0.00 43.65 4.41
121 128 2.606308 GGATGCTGTGCAGTCTGTTTTG 60.606 50.000 0.93 0.00 43.65 2.44
122 129 1.748950 TGCTGTGCAGTCTGTTTTGA 58.251 45.000 0.93 0.00 33.32 2.69
123 130 1.672363 TGCTGTGCAGTCTGTTTTGAG 59.328 47.619 0.93 0.00 33.32 3.02
124 131 1.002033 GCTGTGCAGTCTGTTTTGAGG 60.002 52.381 0.93 0.00 0.00 3.86
125 132 2.292267 CTGTGCAGTCTGTTTTGAGGT 58.708 47.619 0.93 0.00 0.00 3.85
126 133 2.016318 TGTGCAGTCTGTTTTGAGGTG 58.984 47.619 0.93 0.00 0.00 4.00
127 134 1.024271 TGCAGTCTGTTTTGAGGTGC 58.976 50.000 0.93 0.00 0.00 5.01
128 135 0.312102 GCAGTCTGTTTTGAGGTGCC 59.688 55.000 0.93 0.00 0.00 5.01
129 136 1.972872 CAGTCTGTTTTGAGGTGCCT 58.027 50.000 0.00 0.00 0.00 4.75
130 137 1.876156 CAGTCTGTTTTGAGGTGCCTC 59.124 52.381 11.13 11.13 43.01 4.70
131 138 1.771255 AGTCTGTTTTGAGGTGCCTCT 59.229 47.619 17.96 0.00 43.12 3.69
132 139 2.147150 GTCTGTTTTGAGGTGCCTCTC 58.853 52.381 17.96 7.71 43.12 3.20
133 140 1.072331 TCTGTTTTGAGGTGCCTCTCC 59.928 52.381 17.96 5.29 43.12 3.71
134 141 0.110486 TGTTTTGAGGTGCCTCTCCC 59.890 55.000 17.96 5.59 43.12 4.30
135 142 0.955919 GTTTTGAGGTGCCTCTCCCG 60.956 60.000 17.96 0.00 43.12 5.14
136 143 2.124507 TTTTGAGGTGCCTCTCCCGG 62.125 60.000 17.96 0.00 43.12 5.73
137 144 3.846405 TTGAGGTGCCTCTCCCGGT 62.846 63.158 17.96 0.00 43.12 5.28
138 145 3.775654 GAGGTGCCTCTCCCGGTG 61.776 72.222 10.80 0.00 39.80 4.94
139 146 4.640690 AGGTGCCTCTCCCGGTGT 62.641 66.667 0.00 0.00 0.00 4.16
140 147 4.083862 GGTGCCTCTCCCGGTGTC 62.084 72.222 0.00 0.00 0.00 3.67
141 148 4.083862 GTGCCTCTCCCGGTGTCC 62.084 72.222 0.00 0.00 0.00 4.02
142 149 4.631740 TGCCTCTCCCGGTGTCCA 62.632 66.667 0.00 0.00 0.00 4.02
143 150 3.775654 GCCTCTCCCGGTGTCCAG 61.776 72.222 0.00 0.00 0.00 3.86
144 151 2.283966 CCTCTCCCGGTGTCCAGT 60.284 66.667 0.00 0.00 0.00 4.00
145 152 2.650116 CCTCTCCCGGTGTCCAGTG 61.650 68.421 0.00 0.00 0.00 3.66
146 153 1.606601 CTCTCCCGGTGTCCAGTGA 60.607 63.158 0.00 0.00 0.00 3.41
179 186 2.324330 TTGCTGTCGAACATGCCCG 61.324 57.895 0.00 0.00 0.00 6.13
248 259 6.089016 GCGTTCGTAGCTATAATAATTCAGCA 59.911 38.462 0.00 0.00 36.47 4.41
269 284 0.436531 CAGAAGAAGAGAACGTGCGC 59.563 55.000 0.00 0.00 0.00 6.09
275 290 1.630244 AAGAGAACGTGCGCTGATGC 61.630 55.000 9.73 0.00 0.00 3.91
297 312 0.611200 ATTGTGTGCAATGCCATGCT 59.389 45.000 1.53 0.00 46.54 3.79
301 316 1.034356 TGTGCAATGCCATGCTATCC 58.966 50.000 1.53 0.00 46.54 2.59
387 418 2.690497 TCTGTTGATCTCATCTCCGTCC 59.310 50.000 0.00 0.00 0.00 4.79
429 466 4.703093 TCCTTATTTACGGGGCTTTTCTTG 59.297 41.667 0.00 0.00 0.00 3.02
433 470 0.250989 TACGGGGCTTTTCTTGTGGG 60.251 55.000 0.00 0.00 0.00 4.61
439 476 1.866853 GCTTTTCTTGTGGGCTCCCG 61.867 60.000 0.00 0.00 39.42 5.14
461 498 2.592308 GGCCAAGGCGAAGAGGAT 59.408 61.111 4.80 0.00 43.06 3.24
462 499 1.524849 GGCCAAGGCGAAGAGGATC 60.525 63.158 4.80 0.00 43.06 3.36
463 500 1.524849 GCCAAGGCGAAGAGGATCC 60.525 63.158 2.48 2.48 33.66 3.36
464 501 1.907739 CCAAGGCGAAGAGGATCCA 59.092 57.895 15.82 0.00 33.66 3.41
467 504 1.065854 CAAGGCGAAGAGGATCCAAGT 60.066 52.381 15.82 0.00 33.66 3.16
469 506 0.537188 GGCGAAGAGGATCCAAGTGA 59.463 55.000 15.82 0.00 33.66 3.41
498 566 2.587753 CACGAGCACCCACACGTT 60.588 61.111 0.00 0.00 36.86 3.99
845 920 3.430895 ACTTGAATAGTTGTAACGGTGCG 59.569 43.478 0.00 0.00 31.29 5.34
856 931 0.944311 AACGGTGCGAACTACAGCTG 60.944 55.000 13.48 13.48 33.41 4.24
866 946 3.555956 CGAACTACAGCTGAAAACACACT 59.444 43.478 23.35 0.00 0.00 3.55
876 956 4.500477 GCTGAAAACACACTGCTACTTTTG 59.500 41.667 0.00 0.00 0.00 2.44
1110 1191 0.855349 CATTCCACATACTCGCGCTC 59.145 55.000 5.56 0.00 0.00 5.03
1192 1273 2.048222 CCGAGAAGAGCACGGCAA 60.048 61.111 0.00 0.00 43.56 4.52
1210 1291 4.504916 CGGTGGCCAGAGAGCTCG 62.505 72.222 5.11 0.00 34.09 5.03
1211 1292 4.828925 GGTGGCCAGAGAGCTCGC 62.829 72.222 5.11 9.76 34.09 5.03
1214 1295 3.859414 GGCCAGAGAGCTCGCCAT 61.859 66.667 21.35 0.00 36.51 4.40
1361 1442 4.504132 GGAGACCAGCGTCATCAC 57.496 61.111 0.00 0.00 41.87 3.06
1613 1694 2.908073 CGGCCACCAACAAGTGAGC 61.908 63.158 2.24 0.00 40.34 4.26
1946 2050 0.460311 GCTCTACTGCACGTACCCAT 59.540 55.000 0.00 0.00 0.00 4.00
1981 2085 2.125350 CAGAAGGCGGCTCTGGTC 60.125 66.667 22.23 13.55 37.29 4.02
1994 2098 4.069232 TGGTCGCGCCAGAGGAAG 62.069 66.667 16.62 0.00 43.61 3.46
2006 2110 2.028567 CCAGAGGAAGAGGACTGTGAAC 60.029 54.545 0.00 0.00 30.23 3.18
2012 2116 2.469274 AGAGGACTGTGAACATGCTG 57.531 50.000 0.00 0.00 0.00 4.41
2024 2128 4.564769 GTGAACATGCTGCTTCTAGTACTC 59.435 45.833 0.00 0.00 0.00 2.59
2059 2163 1.404583 GGCTTAAACCAGGCATTGCTG 60.405 52.381 8.82 5.00 39.20 4.41
2077 2181 0.610174 TGGCCAGAAGTGACTAGCAG 59.390 55.000 0.00 0.00 0.00 4.24
2112 2244 2.497273 GGCTTGGCTACATGGACAAAAT 59.503 45.455 0.00 0.00 33.44 1.82
2149 2281 2.854253 TCCACTCAGGAAGGCAACT 58.146 52.632 0.00 0.00 45.65 3.16
2163 2295 3.831715 GGCAACTTACAGGCTTTACAG 57.168 47.619 0.00 0.00 0.00 2.74
2164 2296 2.095212 GGCAACTTACAGGCTTTACAGC 60.095 50.000 0.00 0.00 46.52 4.40
2180 2312 8.833231 GCTTTACAGCCATATATTCAACTAGA 57.167 34.615 0.00 0.00 40.61 2.43
2181 2313 9.442047 GCTTTACAGCCATATATTCAACTAGAT 57.558 33.333 0.00 0.00 40.61 1.98
2183 2315 8.777865 TTACAGCCATATATTCAACTAGATGC 57.222 34.615 0.00 0.00 0.00 3.91
2184 2316 6.772605 ACAGCCATATATTCAACTAGATGCA 58.227 36.000 0.00 0.00 0.00 3.96
2225 2397 5.819379 GCCATATGTTCAAGACAAGATCTCA 59.181 40.000 0.00 0.00 42.62 3.27
2235 2407 6.093633 TCAAGACAAGATCTCAGATGCAATTG 59.906 38.462 0.00 0.00 36.27 2.32
2291 2464 7.430844 ACCAGATAATATATAGCCTCCCTGAA 58.569 38.462 0.00 0.00 0.00 3.02
2576 2751 6.155475 TCAAACCACTAAATTGTTTCCAGG 57.845 37.500 0.00 0.00 30.19 4.45
2663 2838 3.928727 AACACATGTTCTTGCATCAGG 57.071 42.857 0.00 0.00 31.64 3.86
2664 2839 1.542915 ACACATGTTCTTGCATCAGGC 59.457 47.619 0.00 0.00 45.13 4.85
2665 2840 4.561979 AACACATGTTCTTGCATCAGGCA 61.562 43.478 0.00 0.00 42.36 4.75
2720 2895 8.766994 AATTAGCATAATTCACAAGGGTATGT 57.233 30.769 0.00 0.00 0.00 2.29
2821 2996 9.700831 AGCTACCAAGTGAAAATAAATAGGATT 57.299 29.630 0.00 0.00 0.00 3.01
2923 3112 8.706322 ATTATTGTCCAAAAGAAACAGTACCT 57.294 30.769 0.00 0.00 0.00 3.08
2928 3120 6.434652 TGTCCAAAAGAAACAGTACCTTGAAA 59.565 34.615 0.00 0.00 0.00 2.69
2937 3129 7.597369 AGAAACAGTACCTTGAAAACAACAAAC 59.403 33.333 0.00 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 1.226746 AGCAGCCTCGTTTAACACAC 58.773 50.000 0.00 0.00 0.00 3.82
112 119 2.147150 GAGAGGCACCTCAAAACAGAC 58.853 52.381 18.67 0.00 44.99 3.51
121 128 3.775654 CACCGGGAGAGGCACCTC 61.776 72.222 6.32 8.74 43.03 3.85
122 129 4.640690 ACACCGGGAGAGGCACCT 62.641 66.667 6.32 0.00 33.69 4.00
123 130 4.083862 GACACCGGGAGAGGCACC 62.084 72.222 6.32 0.00 33.69 5.01
124 131 4.083862 GGACACCGGGAGAGGCAC 62.084 72.222 6.32 0.00 33.69 5.01
125 132 4.631740 TGGACACCGGGAGAGGCA 62.632 66.667 6.32 0.00 33.69 4.75
126 133 3.775654 CTGGACACCGGGAGAGGC 61.776 72.222 6.32 0.00 33.69 4.70
127 134 2.283966 ACTGGACACCGGGAGAGG 60.284 66.667 6.32 0.00 33.40 3.69
128 135 1.599606 CTCACTGGACACCGGGAGAG 61.600 65.000 6.32 0.00 32.60 3.20
129 136 1.606601 CTCACTGGACACCGGGAGA 60.607 63.158 6.32 0.00 32.60 3.71
130 137 2.650116 CCTCACTGGACACCGGGAG 61.650 68.421 6.32 0.00 38.35 4.30
131 138 2.603473 CCTCACTGGACACCGGGA 60.603 66.667 6.32 0.00 38.35 5.14
132 139 3.706373 CCCTCACTGGACACCGGG 61.706 72.222 6.32 0.00 38.35 5.73
133 140 2.923035 ACCCTCACTGGACACCGG 60.923 66.667 0.00 0.00 38.35 5.28
134 141 2.657237 GACCCTCACTGGACACCG 59.343 66.667 0.00 0.00 38.35 4.94
135 142 2.657237 CGACCCTCACTGGACACC 59.343 66.667 0.00 0.00 38.35 4.16
136 143 2.207924 ACCGACCCTCACTGGACAC 61.208 63.158 0.00 0.00 38.35 3.67
137 144 2.200370 ACCGACCCTCACTGGACA 59.800 61.111 0.00 0.00 38.35 4.02
138 145 1.258445 ATCACCGACCCTCACTGGAC 61.258 60.000 0.00 0.00 38.35 4.02
139 146 0.970937 GATCACCGACCCTCACTGGA 60.971 60.000 0.00 0.00 38.35 3.86
140 147 1.517832 GATCACCGACCCTCACTGG 59.482 63.158 0.00 0.00 0.00 4.00
141 148 1.517832 GGATCACCGACCCTCACTG 59.482 63.158 0.00 0.00 0.00 3.66
142 149 4.035843 GGATCACCGACCCTCACT 57.964 61.111 0.00 0.00 0.00 3.41
236 247 7.559486 TCTCTTCTTCTGCTGCTGAATTATTA 58.441 34.615 19.98 6.80 0.00 0.98
248 259 1.789506 GCACGTTCTCTTCTTCTGCT 58.210 50.000 0.00 0.00 0.00 4.24
297 312 3.801698 GCATCTGCACTCTTCTTGGATA 58.198 45.455 0.00 0.00 41.59 2.59
387 418 2.461416 TCGCTCTCGAGTGAGTCTG 58.539 57.895 18.27 2.29 42.43 3.51
461 498 1.883638 GCTCACCATTGCTCACTTGGA 60.884 52.381 5.37 0.00 34.52 3.53
462 499 0.524862 GCTCACCATTGCTCACTTGG 59.475 55.000 0.00 0.00 36.56 3.61
463 500 1.068748 GTGCTCACCATTGCTCACTTG 60.069 52.381 0.00 0.00 0.00 3.16
464 501 1.242076 GTGCTCACCATTGCTCACTT 58.758 50.000 0.00 0.00 0.00 3.16
467 504 0.671472 CTCGTGCTCACCATTGCTCA 60.671 55.000 0.00 0.00 0.00 4.26
469 506 2.037136 GCTCGTGCTCACCATTGCT 61.037 57.895 1.41 0.00 36.03 3.91
759 827 3.396911 GAGACGCCGACGAGCATGA 62.397 63.158 0.00 0.00 43.93 3.07
789 857 4.106925 GGAGGCTGCTGACCTGGG 62.107 72.222 10.45 0.00 37.77 4.45
845 920 4.786609 GCAGTGTGTTTTCAGCTGTAGTTC 60.787 45.833 14.67 2.95 36.80 3.01
856 931 5.636837 TGTCAAAAGTAGCAGTGTGTTTTC 58.363 37.500 0.00 0.00 0.00 2.29
866 946 2.076100 CGCCATCTGTCAAAAGTAGCA 58.924 47.619 0.00 0.00 0.00 3.49
876 956 2.013483 CTCGCGATCGCCATCTGTC 61.013 63.158 32.63 4.76 37.98 3.51
1192 1273 3.386237 GAGCTCTCTGGCCACCGT 61.386 66.667 0.00 0.00 0.00 4.83
1211 1292 4.181010 CGTCCCTGGCCTCCATGG 62.181 72.222 4.97 4.97 40.07 3.66
1213 1294 3.402681 CACGTCCCTGGCCTCCAT 61.403 66.667 3.32 0.00 30.82 3.41
1361 1442 0.890996 GGTCAGCTGGTTGAGGTTGG 60.891 60.000 15.13 0.00 0.00 3.77
1634 1720 2.660944 CAGCGCATGCAAAGAATGG 58.339 52.632 19.57 0.00 46.23 3.16
1681 1785 0.726452 GCACGATCTCCGCGAGTATC 60.726 60.000 8.23 6.06 43.32 2.24
1827 1931 3.056328 GTTCAGCCTTCCCGGTGC 61.056 66.667 0.00 0.00 34.25 5.01
1981 2085 3.452786 TCCTCTTCCTCTGGCGCG 61.453 66.667 0.00 0.00 0.00 6.86
1990 2094 2.079925 GCATGTTCACAGTCCTCTTCC 58.920 52.381 0.00 0.00 0.00 3.46
1994 2098 0.801251 GCAGCATGTTCACAGTCCTC 59.199 55.000 0.00 0.00 39.31 3.71
2006 2110 4.582656 AGTAGGAGTACTAGAAGCAGCATG 59.417 45.833 0.00 0.00 37.76 4.06
2012 2116 3.224269 CCCCAGTAGGAGTACTAGAAGC 58.776 54.545 0.00 0.00 37.40 3.86
2024 2128 1.281925 AAGCCATCCACCCCAGTAGG 61.282 60.000 0.00 0.00 0.00 3.18
2059 2163 0.742635 GCTGCTAGTCACTTCTGGCC 60.743 60.000 0.00 0.00 40.40 5.36
2077 2181 2.810852 GCCAAGCCTGTCTTAGATATGC 59.189 50.000 0.00 0.00 32.74 3.14
2155 2287 8.833231 TCTAGTTGAATATATGGCTGTAAAGC 57.167 34.615 0.00 0.00 0.00 3.51
2157 2289 9.219603 GCATCTAGTTGAATATATGGCTGTAAA 57.780 33.333 4.94 0.00 0.00 2.01
2158 2290 8.374743 TGCATCTAGTTGAATATATGGCTGTAA 58.625 33.333 4.94 0.00 0.00 2.41
2159 2291 7.906327 TGCATCTAGTTGAATATATGGCTGTA 58.094 34.615 4.94 0.00 0.00 2.74
2160 2292 6.772605 TGCATCTAGTTGAATATATGGCTGT 58.227 36.000 4.94 0.00 0.00 4.40
2161 2293 7.677454 TTGCATCTAGTTGAATATATGGCTG 57.323 36.000 4.94 0.00 0.00 4.85
2162 2294 8.874744 AATTGCATCTAGTTGAATATATGGCT 57.125 30.769 4.94 0.00 0.00 4.75
2168 2300 8.571336 GCCTGTAAATTGCATCTAGTTGAATAT 58.429 33.333 4.94 0.00 0.00 1.28
2169 2301 7.775093 AGCCTGTAAATTGCATCTAGTTGAATA 59.225 33.333 4.94 0.00 0.00 1.75
2170 2302 6.604795 AGCCTGTAAATTGCATCTAGTTGAAT 59.395 34.615 4.94 0.14 0.00 2.57
2171 2303 5.945784 AGCCTGTAAATTGCATCTAGTTGAA 59.054 36.000 4.94 0.00 0.00 2.69
2172 2304 5.500234 AGCCTGTAAATTGCATCTAGTTGA 58.500 37.500 4.94 0.00 0.00 3.18
2173 2305 5.824904 AGCCTGTAAATTGCATCTAGTTG 57.175 39.130 0.00 0.00 0.00 3.16
2174 2306 6.840780 AAAGCCTGTAAATTGCATCTAGTT 57.159 33.333 0.00 0.00 0.00 2.24
2175 2307 6.884295 TGTAAAGCCTGTAAATTGCATCTAGT 59.116 34.615 0.00 0.00 0.00 2.57
2176 2308 7.320443 TGTAAAGCCTGTAAATTGCATCTAG 57.680 36.000 0.00 0.00 0.00 2.43
2177 2309 6.183360 GCTGTAAAGCCTGTAAATTGCATCTA 60.183 38.462 0.00 0.00 0.00 1.98
2178 2310 5.393461 GCTGTAAAGCCTGTAAATTGCATCT 60.393 40.000 0.00 0.00 0.00 2.90
2179 2311 4.800471 GCTGTAAAGCCTGTAAATTGCATC 59.200 41.667 0.00 0.00 0.00 3.91
2180 2312 4.747810 GCTGTAAAGCCTGTAAATTGCAT 58.252 39.130 0.00 0.00 0.00 3.96
2181 2313 4.173036 GCTGTAAAGCCTGTAAATTGCA 57.827 40.909 0.00 0.00 0.00 4.08
2225 2397 8.814038 AGTTTAGAGGATTAACAATTGCATCT 57.186 30.769 5.05 4.01 0.00 2.90
2291 2464 0.674534 GCCGTCTCCGATACTGGAAT 59.325 55.000 0.00 0.00 37.64 3.01
2352 2526 4.159135 TCGTTTAGTCCCATCTAACAGGTC 59.841 45.833 0.00 0.00 30.87 3.85
2354 2528 4.730949 TCGTTTAGTCCCATCTAACAGG 57.269 45.455 0.00 0.00 30.87 4.00
2576 2751 4.521256 TGTTTACTTTGTGCAGGGTAATCC 59.479 41.667 0.00 0.00 0.00 3.01
2656 2831 3.080319 ACTCTCTTTTCTTGCCTGATGC 58.920 45.455 0.00 0.00 41.77 3.91
2657 2832 6.596888 TGATTACTCTCTTTTCTTGCCTGATG 59.403 38.462 0.00 0.00 0.00 3.07
2658 2833 6.715280 TGATTACTCTCTTTTCTTGCCTGAT 58.285 36.000 0.00 0.00 0.00 2.90
2659 2834 6.114187 TGATTACTCTCTTTTCTTGCCTGA 57.886 37.500 0.00 0.00 0.00 3.86
2660 2835 6.808008 TTGATTACTCTCTTTTCTTGCCTG 57.192 37.500 0.00 0.00 0.00 4.85
2717 2892 7.781693 AGCCCATTAGATTTATCAACTTCACAT 59.218 33.333 0.00 0.00 0.00 3.21
2719 2894 7.573968 AGCCCATTAGATTTATCAACTTCAC 57.426 36.000 0.00 0.00 0.00 3.18
2720 2895 7.441157 CGTAGCCCATTAGATTTATCAACTTCA 59.559 37.037 0.00 0.00 0.00 3.02
2721 2896 7.095187 CCGTAGCCCATTAGATTTATCAACTTC 60.095 40.741 0.00 0.00 0.00 3.01
2722 2897 6.710744 CCGTAGCCCATTAGATTTATCAACTT 59.289 38.462 0.00 0.00 0.00 2.66
2723 2898 6.231211 CCGTAGCCCATTAGATTTATCAACT 58.769 40.000 0.00 0.00 0.00 3.16
2724 2899 5.106673 GCCGTAGCCCATTAGATTTATCAAC 60.107 44.000 0.00 0.00 0.00 3.18
2725 2900 5.001232 GCCGTAGCCCATTAGATTTATCAA 58.999 41.667 0.00 0.00 0.00 2.57
2726 2901 4.575885 GCCGTAGCCCATTAGATTTATCA 58.424 43.478 0.00 0.00 0.00 2.15
2749 2924 6.201226 TCACATACTCTTCAAGCTAGTCTG 57.799 41.667 0.00 0.00 0.00 3.51
2923 3112 6.900189 TCGTAGTCAAGTTTGTTGTTTTCAA 58.100 32.000 0.00 0.00 37.48 2.69
2928 3120 7.079182 TCATTTCGTAGTCAAGTTTGTTGTT 57.921 32.000 0.00 0.00 0.00 2.83
2937 3129 5.812642 AGGTAAGCATCATTTCGTAGTCAAG 59.187 40.000 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.