Multiple sequence alignment - TraesCS4B01G251000

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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 TraesCS4B01G251000 chr4B 100.000 4517 0 0 1 4517 517276387 517271871 0 8342
1 TraesCS4B01G251000 chr4D 93.052 1943 84 18 4 1903 419315881 419313947 0 2793
2 TraesCS4B01G251000 chr4D 96.049 1544 52 4 1899 3442 419313921 419312387 0 2505
3 TraesCS4B01G251000 chr4A 91.803 1952 93 20 1 1903 45335428 45337361 0 2656
4 TraesCS4B01G251000 chr4A 98.708 1084 13 1 3435 4517 602517372 602516289 0 1923
5 TraesCS4B01G251000 chr4A 98.524 1084 15 1 3435 4517 476356584 476355501 0 1912
6 TraesCS4B01G251000 chr4A 96.247 826 31 0 2617 3442 45338060 45338885 0 1354
7 TraesCS4B01G251000 chr4A 90.469 682 59 3 1899 2580 45337387 45338062 0 894
8 TraesCS4B01G251000 chr1B 98.801 1084 12 1 3435 4517 319192874 319193957 0 1929
9 TraesCS4B01G251000 chr7A 98.708 1084 13 1 3435 4517 608311610 608312693 0 1923
10 TraesCS4B01G251000 chr3A 98.708 1084 13 1 3435 4517 678878264 678877181 0 1923
11 TraesCS4B01G251000 chr7B 98.616 1084 14 1 3435 4517 681650310 681651393 0 1917
12 TraesCS4B01G251000 chr7B 98.430 1083 15 2 3436 4517 678195983 678197064 0 1905
13 TraesCS4B01G251000 chr6B 98.616 1084 14 1 3435 4517 476396807 476397890 0 1917
14 TraesCS4B01G251000 chr6B 98.615 1083 14 1 3436 4517 52857317 52856235 0 1916


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 TraesCS4B01G251000 chr4B 517271871 517276387 4516 True 8342.000000 8342 100.000000 1 4517 1 chr4B.!!$R1 4516
1 TraesCS4B01G251000 chr4D 419312387 419315881 3494 True 2649.000000 2793 94.550500 4 3442 2 chr4D.!!$R1 3438
2 TraesCS4B01G251000 chr4A 602516289 602517372 1083 True 1923.000000 1923 98.708000 3435 4517 1 chr4A.!!$R2 1082
3 TraesCS4B01G251000 chr4A 476355501 476356584 1083 True 1912.000000 1912 98.524000 3435 4517 1 chr4A.!!$R1 1082
4 TraesCS4B01G251000 chr4A 45335428 45338885 3457 False 1634.666667 2656 92.839667 1 3442 3 chr4A.!!$F1 3441
5 TraesCS4B01G251000 chr1B 319192874 319193957 1083 False 1929.000000 1929 98.801000 3435 4517 1 chr1B.!!$F1 1082
6 TraesCS4B01G251000 chr7A 608311610 608312693 1083 False 1923.000000 1923 98.708000 3435 4517 1 chr7A.!!$F1 1082
7 TraesCS4B01G251000 chr3A 678877181 678878264 1083 True 1923.000000 1923 98.708000 3435 4517 1 chr3A.!!$R1 1082
8 TraesCS4B01G251000 chr7B 681650310 681651393 1083 False 1917.000000 1917 98.616000 3435 4517 1 chr7B.!!$F2 1082
9 TraesCS4B01G251000 chr7B 678195983 678197064 1081 False 1905.000000 1905 98.430000 3436 4517 1 chr7B.!!$F1 1081
10 TraesCS4B01G251000 chr6B 476396807 476397890 1083 False 1917.000000 1917 98.616000 3435 4517 1 chr6B.!!$F1 1082
11 TraesCS4B01G251000 chr6B 52856235 52857317 1082 True 1916.000000 1916 98.615000 3436 4517 1 chr6B.!!$R1 1081

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
676 693 0.771127 AAGTTCCCTGCCAGTAAGCA 59.229 50.000 0.00 0.00 41.46 3.91 F
1377 1420 0.465287 TAAGAGGCGCTGCATCATCA 59.535 50.000 7.64 0.45 42.11 3.07 F
1398 1441 0.951558 AACACTTGGTTCCACGCATC 59.048 50.000 0.00 0.00 33.35 3.91 F
2591 2676 1.003233 GACCTCCAGAACTGTGGGC 60.003 63.158 12.80 8.05 38.26 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1816 1871 0.035317 ACATCTGAGCGTTCCTTGCA 59.965 50.000 0.00 0.0 33.85 4.08 R
2537 2622 1.771255 GAGCACCCATGTCCTCCTTAT 59.229 52.381 0.00 0.0 0.00 1.73 R
2619 2704 2.093500 AGTGCAATCGAGGCAATACTCA 60.093 45.455 15.17 0.0 43.91 3.41 R
4425 4510 0.882927 GGTAACCACGTCAGCAGCAA 60.883 55.000 0.00 0.0 0.00 3.91 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
20 21 2.457366 AGACATGGACGGTTGAACTC 57.543 50.000 0.00 0.00 0.00 3.01
35 36 5.007724 GGTTGAACTCGTGAAGTCTTGATTT 59.992 40.000 0.00 0.00 37.17 2.17
354 361 6.004574 AGGCCTATTATTTTTCTCGGGAATC 58.995 40.000 1.29 0.00 0.00 2.52
355 362 5.768164 GGCCTATTATTTTTCTCGGGAATCA 59.232 40.000 0.00 0.00 0.00 2.57
507 524 8.137437 TCTTTAATCTTTCAGTTTGGCTTCAAG 58.863 33.333 0.00 0.00 0.00 3.02
594 611 3.181494 GCAGCAGCATATCAATTGTCACA 60.181 43.478 5.13 0.00 41.58 3.58
676 693 0.771127 AAGTTCCCTGCCAGTAAGCA 59.229 50.000 0.00 0.00 41.46 3.91
688 705 3.420893 CCAGTAAGCAGTTGGGATCAAA 58.579 45.455 0.00 0.00 34.28 2.69
826 843 8.138712 TGTGTGGTTATTTAAGTGATTGAAACC 58.861 33.333 0.00 0.00 36.51 3.27
856 873 8.292448 ACAGTTCTGTGATGCTAACTATTTTTG 58.708 33.333 4.58 0.00 31.20 2.44
916 956 9.282247 GTTCTGATTAATAACACATGCTCTTTG 57.718 33.333 0.00 0.00 0.00 2.77
975 1015 1.347050 ACACTCAGCTGAGACAAGCAT 59.653 47.619 42.76 21.01 46.08 3.79
991 1031 4.406972 ACAAGCATTATCTCAGCTACTGGA 59.593 41.667 0.00 0.00 37.70 3.86
999 1039 2.111384 CTCAGCTACTGGAAGGCCTAA 58.889 52.381 5.16 0.00 39.30 2.69
1104 1147 3.211865 TGAGAAGACGGTATCACGCTAT 58.788 45.455 0.00 0.00 37.37 2.97
1216 1259 7.013750 GGAGAAGAAAGAAACTTCCAACTCATT 59.986 37.037 0.00 0.00 43.01 2.57
1239 1282 5.722263 TCAAATAATTTGACACTGCATGGG 58.278 37.500 0.00 0.00 44.21 4.00
1255 1298 5.614308 TGCATGGGTCAGTTATCTTAGATG 58.386 41.667 4.78 0.00 0.00 2.90
1336 1379 3.064207 GGTGAAGCTGATCGTGTTGTTA 58.936 45.455 0.00 0.00 0.00 2.41
1352 1395 9.047371 TCGTGTTGTTAACAAGATAAAATCAGA 57.953 29.630 21.12 9.32 43.30 3.27
1377 1420 0.465287 TAAGAGGCGCTGCATCATCA 59.535 50.000 7.64 0.45 42.11 3.07
1389 1432 3.489355 TGCATCATCAGAACACTTGGTT 58.511 40.909 0.00 0.00 44.10 3.67
1398 1441 0.951558 AACACTTGGTTCCACGCATC 59.048 50.000 0.00 0.00 33.35 3.91
1403 1446 1.573829 TTGGTTCCACGCATCGCTTC 61.574 55.000 0.00 0.00 0.00 3.86
1459 1502 5.047377 GGCAGAAAGAAACATCCAATGGTTA 60.047 40.000 0.00 0.00 41.00 2.85
1494 1537 3.785887 TGGCTAATCCAAGGTATTCCAGT 59.214 43.478 0.00 0.00 43.21 4.00
1533 1576 2.159327 AAAAAGCAGCAATGCCAGTC 57.841 45.000 0.00 0.00 34.90 3.51
1542 1585 1.619654 CAATGCCAGTCAAGGGTTCA 58.380 50.000 0.00 0.00 0.00 3.18
1647 1690 4.932200 CCAGCTTCACTTCCTACTAAACTG 59.068 45.833 0.00 0.00 0.00 3.16
1732 1775 9.157104 GAGATAAAAGTACTCTGAAAGGAAAGG 57.843 37.037 0.00 0.00 0.00 3.11
1767 1810 3.016736 AGCAATTATTACTGGCAAGCGT 58.983 40.909 0.00 0.00 0.00 5.07
1785 1828 4.571919 AGCGTACAAGCAATACTGGTAAA 58.428 39.130 0.00 0.00 36.52 2.01
1816 1871 4.142093 GGTCCAGCAATGCAAGTATCAATT 60.142 41.667 8.35 0.00 0.00 2.32
1863 1918 5.651139 CAGAACACCATTCTCCATTGAAGAT 59.349 40.000 0.00 0.00 0.00 2.40
1895 1950 6.258230 TGCATCTGTTGAATTACAAGAAGG 57.742 37.500 0.00 0.00 39.30 3.46
1969 2054 4.910195 AGACATATCTGAAACAGCACCAA 58.090 39.130 0.00 0.00 32.29 3.67
1986 2071 4.683320 GCACCAAAAGAAGAAAGCAGAATC 59.317 41.667 0.00 0.00 0.00 2.52
1987 2072 4.913924 CACCAAAAGAAGAAAGCAGAATCG 59.086 41.667 0.00 0.00 0.00 3.34
1995 2080 3.594134 AGAAAGCAGAATCGGTTCAGAG 58.406 45.455 11.72 1.14 36.79 3.35
2000 2085 2.831333 CAGAATCGGTTCAGAGGATGG 58.169 52.381 11.72 0.00 36.79 3.51
2007 2092 1.213926 GGTTCAGAGGATGGCTTGGAT 59.786 52.381 0.00 0.00 0.00 3.41
2013 2098 3.327172 CAGAGGATGGCTTGGATATGTCT 59.673 47.826 0.00 0.00 0.00 3.41
2014 2099 3.327172 AGAGGATGGCTTGGATATGTCTG 59.673 47.826 0.00 0.00 0.00 3.51
2015 2100 3.321039 AGGATGGCTTGGATATGTCTGA 58.679 45.455 0.00 0.00 0.00 3.27
2018 2103 5.075493 GGATGGCTTGGATATGTCTGAAAT 58.925 41.667 0.00 0.00 0.00 2.17
2022 2107 5.934043 TGGCTTGGATATGTCTGAAATATCG 59.066 40.000 17.52 8.53 37.72 2.92
2025 2110 6.870965 GCTTGGATATGTCTGAAATATCGTCT 59.129 38.462 17.52 0.00 37.72 4.18
2034 2119 5.746245 GTCTGAAATATCGTCTTCTGTCCAG 59.254 44.000 0.00 0.00 0.00 3.86
2040 2125 2.155279 TCGTCTTCTGTCCAGTCTGAG 58.845 52.381 0.00 0.00 0.00 3.35
2103 2188 5.370880 AGGTTCATCTATTACAGGCCATCTT 59.629 40.000 5.01 0.00 0.00 2.40
2289 2374 9.687210 GAATTGCAGCTATCATTTGATAATCAA 57.313 29.630 0.00 0.00 36.66 2.57
2316 2401 4.744570 TCAAGACTATGCTCAGTAAACCG 58.255 43.478 0.00 0.00 0.00 4.44
2343 2428 4.226427 AGAGCATATGCAACCAGAGAAA 57.774 40.909 28.62 0.00 45.16 2.52
2415 2500 2.063378 AGCTCTCTGCCAGCTACCC 61.063 63.158 0.00 0.00 45.76 3.69
2494 2579 1.876322 CTCGGGAATGGAAGCTGATC 58.124 55.000 0.00 0.00 0.00 2.92
2537 2622 5.758296 GTGTGGAGTCTGTAATCACTGAAAA 59.242 40.000 0.00 0.00 34.78 2.29
2553 2638 4.292306 ACTGAAAATAAGGAGGACATGGGT 59.708 41.667 0.00 0.00 0.00 4.51
2587 2672 2.103153 TCAAGGACCTCCAGAACTGT 57.897 50.000 0.00 0.00 38.89 3.55
2588 2673 1.694150 TCAAGGACCTCCAGAACTGTG 59.306 52.381 0.00 0.00 38.89 3.66
2589 2674 1.059913 AAGGACCTCCAGAACTGTGG 58.940 55.000 0.00 5.55 38.89 4.17
2591 2676 1.003233 GACCTCCAGAACTGTGGGC 60.003 63.158 12.80 8.05 38.26 5.36
2592 2677 1.768684 GACCTCCAGAACTGTGGGCA 61.769 60.000 10.48 0.00 38.26 5.36
2619 2704 4.038271 TGAAAAACATGCTGAGGATCCT 57.962 40.909 16.13 16.13 0.00 3.24
2767 2852 2.399916 ACTTCTGGAGCAATCAGAGC 57.600 50.000 4.36 0.00 41.57 4.09
2774 2859 1.375098 GAGCAATCAGAGCCTGTGCC 61.375 60.000 11.54 3.94 35.13 5.01
2985 3070 5.246656 AGAAGCAATCAACCCAAATGATGAA 59.753 36.000 0.00 0.00 37.58 2.57
3297 3382 1.078214 CAAGAAGGATGCGCAGGGA 60.078 57.895 18.32 0.00 0.00 4.20
3405 3490 3.033659 ACGGTGATACTTCTCCAGGAT 57.966 47.619 0.00 0.00 35.62 3.24
3406 3491 4.180377 ACGGTGATACTTCTCCAGGATA 57.820 45.455 0.00 0.00 35.62 2.59
3700 3785 2.035961 TGAAGCTCTTAACAGACGCACT 59.964 45.455 0.00 0.00 0.00 4.40
4425 4510 2.685017 TCTGGCGGCTCCATCTGT 60.685 61.111 11.43 0.00 45.50 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 3.454375 TCAAGACTTCACGAGTTCAACC 58.546 45.455 0.00 0.00 39.19 3.77
20 21 4.153117 CAGAAGGGAAATCAAGACTTCACG 59.847 45.833 0.00 0.00 39.87 4.35
66 67 3.072915 TGGAACAGACAAGTGGATGACAT 59.927 43.478 0.00 0.00 0.00 3.06
168 175 2.179427 TGTACCTGCTGCACTACTGAT 58.821 47.619 0.00 0.00 0.00 2.90
182 189 6.182507 TCTTCACCAACTGTTATTGTACCT 57.817 37.500 0.00 0.00 0.00 3.08
507 524 3.740115 TCTTCCTACAAGGTTGAAGTGC 58.260 45.455 0.00 0.00 36.53 4.40
676 693 1.812571 GTGTGCGATTTGATCCCAACT 59.187 47.619 0.00 0.00 30.88 3.16
742 759 0.456221 TGCACGCTCTAGAGTAAGGC 59.544 55.000 20.75 17.96 0.00 4.35
822 839 3.399330 CATCACAGAACTGTACCGGTTT 58.601 45.455 15.04 0.00 42.83 3.27
826 843 2.370281 AGCATCACAGAACTGTACCG 57.630 50.000 7.15 0.70 42.83 4.02
975 1015 2.700897 GGCCTTCCAGTAGCTGAGATAA 59.299 50.000 0.00 0.00 32.44 1.75
1074 1114 7.457060 GTGATACCGTCTTCTCATTCTTTTTC 58.543 38.462 0.00 0.00 0.00 2.29
1128 1171 4.645588 TGTCCATGCTTGCATAAATCATGA 59.354 37.500 7.84 0.00 37.34 3.07
1188 1231 4.100279 TGGAAGTTTCTTTCTTCTCCCC 57.900 45.455 0.00 0.00 40.50 4.81
1216 1259 5.245751 ACCCATGCAGTGTCAAATTATTTGA 59.754 36.000 15.46 15.46 46.68 2.69
1239 1282 5.023533 TGGGTGCATCTAAGATAACTGAC 57.976 43.478 0.00 0.00 0.00 3.51
1255 1298 0.038166 TTCCTGACATCCTTGGGTGC 59.962 55.000 0.00 0.00 0.00 5.01
1352 1395 3.193267 TGATGCAGCGCCTCTTAAATTTT 59.807 39.130 2.29 0.00 0.00 1.82
1359 1402 0.814410 CTGATGATGCAGCGCCTCTT 60.814 55.000 2.29 0.00 0.00 2.85
1389 1432 0.807275 CTGATGAAGCGATGCGTGGA 60.807 55.000 0.00 0.00 0.00 4.02
1403 1446 6.110543 TCACGTTTTTATGATCTGCTGATG 57.889 37.500 11.21 0.00 32.19 3.07
1410 1453 7.065085 CCATCAGAGTTCACGTTTTTATGATCT 59.935 37.037 0.00 0.00 0.00 2.75
1422 1465 3.820595 TCTGCCATCAGAGTTCACG 57.179 52.632 0.00 0.00 43.95 4.35
1459 1502 1.742308 TTAGCCAAAGTCCTCTGGGT 58.258 50.000 0.00 0.00 45.24 4.51
1533 1576 2.031120 TCTGGCAACTTTGAACCCTTG 58.969 47.619 0.00 0.00 37.61 3.61
1542 1585 3.209410 CAGTGTCTTCTCTGGCAACTTT 58.791 45.455 0.00 0.00 33.25 2.66
1600 1643 5.917541 TTCTTAACTAACGGTTGCTTGAG 57.082 39.130 3.07 1.42 38.75 3.02
1706 1749 9.157104 CCTTTCCTTTCAGAGTACTTTTATCTC 57.843 37.037 0.00 0.00 0.00 2.75
1732 1775 5.904362 ATAATTGCTGGTGAAGAAGGAAC 57.096 39.130 0.00 0.00 0.00 3.62
1767 1810 9.378551 CTCATAGTTTTACCAGTATTGCTTGTA 57.621 33.333 0.00 0.00 0.00 2.41
1785 1828 2.025981 TGCATTGCTGGACCTCATAGTT 60.026 45.455 10.49 0.00 0.00 2.24
1816 1871 0.035317 ACATCTGAGCGTTCCTTGCA 59.965 50.000 0.00 0.00 33.85 4.08
1863 1918 8.791675 TGTAATTCAACAGATGCAATAAACTCA 58.208 29.630 0.00 0.00 0.00 3.41
1895 1950 3.990469 CACTACTGTTGACTCCACATCAC 59.010 47.826 0.00 0.00 0.00 3.06
1953 2038 4.889409 TCTTCTTTTGGTGCTGTTTCAGAT 59.111 37.500 0.66 0.00 32.44 2.90
1957 2042 4.268644 GCTTTCTTCTTTTGGTGCTGTTTC 59.731 41.667 0.00 0.00 0.00 2.78
1969 2054 4.821805 TGAACCGATTCTGCTTTCTTCTTT 59.178 37.500 0.00 0.00 35.69 2.52
1986 2071 0.745845 CCAAGCCATCCTCTGAACCG 60.746 60.000 0.00 0.00 0.00 4.44
1987 2072 0.620556 TCCAAGCCATCCTCTGAACC 59.379 55.000 0.00 0.00 0.00 3.62
1995 2080 3.777106 TCAGACATATCCAAGCCATCC 57.223 47.619 0.00 0.00 0.00 3.51
2000 2085 6.870965 AGACGATATTTCAGACATATCCAAGC 59.129 38.462 9.96 0.32 32.09 4.01
2007 2092 7.068226 TGGACAGAAGACGATATTTCAGACATA 59.932 37.037 0.00 0.00 0.00 2.29
2013 2098 5.419155 AGACTGGACAGAAGACGATATTTCA 59.581 40.000 6.29 0.00 0.00 2.69
2014 2099 5.746245 CAGACTGGACAGAAGACGATATTTC 59.254 44.000 6.29 0.00 0.00 2.17
2015 2100 5.419155 TCAGACTGGACAGAAGACGATATTT 59.581 40.000 6.29 0.00 0.00 1.40
2018 2103 3.942115 CTCAGACTGGACAGAAGACGATA 59.058 47.826 6.29 0.00 0.00 2.92
2022 2107 3.319405 TCAACTCAGACTGGACAGAAGAC 59.681 47.826 6.29 0.00 0.00 3.01
2025 2110 3.300388 AGTCAACTCAGACTGGACAGAA 58.700 45.455 6.29 0.00 46.58 3.02
2034 2119 3.104843 ACAGAAGCAGTCAACTCAGAC 57.895 47.619 0.00 0.00 38.81 3.51
2040 2125 4.355543 TGTTTCAACAGAAGCAGTCAAC 57.644 40.909 0.00 0.00 34.30 3.18
2064 2149 3.753815 TGAACCTTGCACATCATCTTCA 58.246 40.909 0.00 0.00 0.00 3.02
2070 2155 6.413892 TGTAATAGATGAACCTTGCACATCA 58.586 36.000 14.53 5.02 41.64 3.07
2103 2188 2.218037 CTGCTAGCGCTGACTCCACA 62.218 60.000 22.90 6.41 37.28 4.17
2125 2210 2.865119 TCTGTGGCATGTGAAGACAT 57.135 45.000 0.00 0.00 44.08 3.06
2127 2212 4.637534 ACATATTCTGTGGCATGTGAAGAC 59.362 41.667 0.00 0.00 36.48 3.01
2289 2374 6.842437 TTACTGAGCATAGTCTTGAGTTCT 57.158 37.500 0.00 0.00 32.19 3.01
2316 2401 4.020751 TCTGGTTGCATATGCTCTAGATCC 60.021 45.833 27.13 15.21 42.66 3.36
2415 2500 5.715429 TTTGCACAGCTGTTAATTGTTTG 57.285 34.783 18.94 3.49 0.00 2.93
2494 2579 2.983136 CACTAGCACTGACTTTCACTCG 59.017 50.000 0.00 0.00 0.00 4.18
2537 2622 1.771255 GAGCACCCATGTCCTCCTTAT 59.229 52.381 0.00 0.00 0.00 1.73
2587 2672 3.803021 GCATGTTTTTCATCAACTGCCCA 60.803 43.478 0.00 0.00 34.09 5.36
2588 2673 2.738314 GCATGTTTTTCATCAACTGCCC 59.262 45.455 0.00 0.00 34.09 5.36
2589 2674 3.430895 CAGCATGTTTTTCATCAACTGCC 59.569 43.478 0.00 0.00 34.09 4.85
2591 2676 4.921515 CCTCAGCATGTTTTTCATCAACTG 59.078 41.667 0.00 0.00 37.40 3.16
2592 2677 4.828939 TCCTCAGCATGTTTTTCATCAACT 59.171 37.500 0.00 0.00 37.40 3.16
2594 2679 5.105635 GGATCCTCAGCATGTTTTTCATCAA 60.106 40.000 3.84 0.00 37.40 2.57
2596 2681 4.643784 AGGATCCTCAGCATGTTTTTCATC 59.356 41.667 9.02 0.00 37.40 2.92
2597 2682 4.401519 CAGGATCCTCAGCATGTTTTTCAT 59.598 41.667 12.69 0.00 37.40 2.57
2598 2683 3.760151 CAGGATCCTCAGCATGTTTTTCA 59.240 43.478 12.69 0.00 37.40 2.69
2599 2684 4.012374 TCAGGATCCTCAGCATGTTTTTC 58.988 43.478 12.69 0.00 37.40 2.29
2600 2685 4.015084 CTCAGGATCCTCAGCATGTTTTT 58.985 43.478 12.69 0.00 37.40 1.94
2601 2686 3.009916 ACTCAGGATCCTCAGCATGTTTT 59.990 43.478 13.42 0.00 37.40 2.43
2619 2704 2.093500 AGTGCAATCGAGGCAATACTCA 60.093 45.455 15.17 0.00 43.91 3.41
2767 2852 6.543465 TGTAGATTAGAATCAATTGGCACAGG 59.457 38.462 5.42 0.00 37.52 4.00
2774 2859 9.655769 CATCGGTTTGTAGATTAGAATCAATTG 57.344 33.333 0.00 0.00 37.89 2.32
3127 3212 6.540189 TCATTGGCAGCTCTTCTTCTAAATAC 59.460 38.462 0.00 0.00 0.00 1.89
3300 3385 9.118236 GCAGTTTCTTCTATTACATTGTTGAAC 57.882 33.333 0.00 0.00 0.00 3.18
3405 3490 2.236146 CTGTGGTGTAGTGGGATTGCTA 59.764 50.000 0.00 0.00 0.00 3.49
3406 3491 1.003580 CTGTGGTGTAGTGGGATTGCT 59.996 52.381 0.00 0.00 0.00 3.91
3700 3785 1.965414 TCTCTGGGCCAAATGAGGTA 58.035 50.000 18.17 0.98 0.00 3.08
4425 4510 0.882927 GGTAACCACGTCAGCAGCAA 60.883 55.000 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.