Multiple sequence alignment - TraesCS1B01G206300

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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 TraesCS1B01G206300 chr1B 100.000 3977 0 0 1 3977 373144069 373148045 0.000000e+00 7345.0
1 TraesCS1B01G206300 chr1A 95.259 2004 48 12 1535 3500 345788560 345790554 0.000000e+00 3131.0
2 TraesCS1B01G206300 chr1A 89.270 1575 82 27 2 1501 345786993 345788555 0.000000e+00 1892.0
3 TraesCS1B01G206300 chr1A 88.710 62 4 2 484 544 357787082 357787023 5.510000e-09 73.1
4 TraesCS1B01G206300 chr1D 93.898 1475 58 5 2531 3977 273817495 273818965 0.000000e+00 2196.0
5 TraesCS1B01G206300 chr1D 90.565 1558 76 34 2 1517 273814882 273816410 0.000000e+00 1997.0
6 TraesCS1B01G206300 chr1D 92.483 1011 37 12 1548 2536 273816402 273817395 0.000000e+00 1410.0
7 TraesCS1B01G206300 chr1D 89.091 165 15 3 1344 1508 193504381 193504542 6.740000e-48 202.0
8 TraesCS1B01G206300 chr4D 90.244 164 12 4 1340 1502 74079344 74079504 1.120000e-50 211.0
9 TraesCS1B01G206300 chr3D 91.083 157 8 5 1347 1501 315480426 315480578 1.450000e-49 207.0
10 TraesCS1B01G206300 chr2A 90.909 154 11 3 1349 1502 176673268 176673418 1.870000e-48 204.0
11 TraesCS1B01G206300 chr5D 90.385 156 9 4 1347 1502 528717279 528717428 2.420000e-47 200.0
12 TraesCS1B01G206300 chr5A 90.385 156 9 4 1347 1502 656872286 656872435 2.420000e-47 200.0
13 TraesCS1B01G206300 chr6D 88.024 167 15 4 1347 1512 410398430 410398268 4.060000e-45 193.0
14 TraesCS1B01G206300 chr6B 92.453 53 4 0 481 533 156379359 156379411 4.260000e-10 76.8
15 TraesCS1B01G206300 chr5B 91.228 57 3 2 484 538 110112883 110112827 4.260000e-10 76.8
16 TraesCS1B01G206300 chr2D 92.593 54 3 1 489 541 158275841 158275894 4.260000e-10 76.8
17 TraesCS1B01G206300 chr2B 89.831 59 4 2 489 547 785744951 785745007 1.530000e-09 75.0
18 TraesCS1B01G206300 chr4B 87.500 64 6 2 478 539 199205571 199205634 5.510000e-09 73.1
19 TraesCS1B01G206300 chr3B 88.333 60 6 1 481 539 798603602 798603661 1.980000e-08 71.3
20 TraesCS1B01G206300 chr6A 87.302 63 5 3 484 544 73655951 73655890 7.130000e-08 69.4


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 TraesCS1B01G206300 chr1B 373144069 373148045 3976 False 7345.000000 7345 100.000000 1 3977 1 chr1B.!!$F1 3976
1 TraesCS1B01G206300 chr1A 345786993 345790554 3561 False 2511.500000 3131 92.264500 2 3500 2 chr1A.!!$F1 3498
2 TraesCS1B01G206300 chr1D 273814882 273818965 4083 False 1867.666667 2196 92.315333 2 3977 3 chr1D.!!$F2 3975

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
293 309 0.179105 CTTGCTTGTTTGCAGTGCCA 60.179 50.000 13.72 0.00 44.27 4.92 F
803 885 0.329596 GGGCAGGAGTGACAATTCCT 59.670 55.000 4.33 4.33 43.06 3.36 F
1254 1352 1.143183 GGCGGCGAGAGTGGATTTA 59.857 57.895 12.98 0.00 0.00 1.40 F
2299 2421 1.001641 GCTGCCCATGAAGGTGAGT 60.002 57.895 0.00 0.00 34.66 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1707 1811 0.743701 CCACTGAGCTCAGACATGGC 60.744 60.000 42.76 3.3 46.59 4.40 R
1855 1963 2.094659 CAGTTACCTGGTCAGCGCG 61.095 63.158 0.63 0.0 34.90 6.86 R
2955 3188 0.609131 ACTGGCCTGGTTTGAATCCG 60.609 55.000 14.82 0.0 0.00 4.18 R
3555 3819 0.321387 TACGACTCCACACGAGAGCT 60.321 55.000 0.00 0.0 41.63 4.09 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
37 38 3.848272 ATCACCAAAACTGTAATGCGG 57.152 42.857 0.00 0.00 0.00 5.69
94 105 2.027625 GTGGAACGTCGCCTTCAGG 61.028 63.158 8.64 0.00 38.53 3.86
114 125 7.159322 TCAGGAGCGAAAGGTATAATATCTC 57.841 40.000 0.00 0.00 45.11 2.75
121 134 7.283580 AGCGAAAGGTATAATATCTCGAGCTAT 59.716 37.037 7.81 5.09 41.99 2.97
171 184 2.569404 AGTTCAGTGACCCAGATTCTCC 59.431 50.000 0.00 0.00 0.00 3.71
179 192 4.019771 GTGACCCAGATTCTCCTCTTTCTT 60.020 45.833 0.00 0.00 0.00 2.52
181 194 3.265479 ACCCAGATTCTCCTCTTTCTTGG 59.735 47.826 0.00 0.00 0.00 3.61
182 195 3.265479 CCCAGATTCTCCTCTTTCTTGGT 59.735 47.826 0.00 0.00 0.00 3.67
183 196 4.471386 CCCAGATTCTCCTCTTTCTTGGTA 59.529 45.833 0.00 0.00 0.00 3.25
184 197 5.396213 CCCAGATTCTCCTCTTTCTTGGTAG 60.396 48.000 0.00 0.00 0.00 3.18
186 199 3.983044 TTCTCCTCTTTCTTGGTAGCC 57.017 47.619 0.00 0.00 0.00 3.93
187 200 3.191888 TCTCCTCTTTCTTGGTAGCCT 57.808 47.619 0.00 0.00 0.00 4.58
188 201 4.332683 TCTCCTCTTTCTTGGTAGCCTA 57.667 45.455 0.00 0.00 0.00 3.93
288 304 1.980844 CGTATGCTTGCTTGTTTGCAG 59.019 47.619 0.00 0.00 44.27 4.41
289 305 2.605338 CGTATGCTTGCTTGTTTGCAGT 60.605 45.455 0.00 0.00 44.27 4.40
290 306 1.860676 ATGCTTGCTTGTTTGCAGTG 58.139 45.000 0.00 0.00 44.27 3.66
291 307 0.806884 TGCTTGCTTGTTTGCAGTGC 60.807 50.000 8.58 8.58 44.27 4.40
292 308 1.493134 GCTTGCTTGTTTGCAGTGCC 61.493 55.000 13.72 0.00 44.27 5.01
293 309 0.179105 CTTGCTTGTTTGCAGTGCCA 60.179 50.000 13.72 0.00 44.27 4.92
296 312 0.863144 GCTTGTTTGCAGTGCCATTG 59.137 50.000 13.72 1.42 0.00 2.82
297 313 0.863144 CTTGTTTGCAGTGCCATTGC 59.137 50.000 13.72 5.08 41.86 3.56
298 314 0.464870 TTGTTTGCAGTGCCATTGCT 59.535 45.000 13.72 0.00 42.02 3.91
300 316 0.863144 GTTTGCAGTGCCATTGCTTG 59.137 50.000 13.72 0.00 42.02 4.01
302 318 0.464870 TTGCAGTGCCATTGCTTGTT 59.535 45.000 13.72 0.00 42.02 2.83
303 319 0.464870 TGCAGTGCCATTGCTTGTTT 59.535 45.000 13.72 0.00 42.02 2.83
396 421 4.684877 CGAGAGCTGTAGACTGTAGAGTA 58.315 47.826 0.00 0.00 30.16 2.59
550 624 5.665459 AGTACCAGCTAGAATTTGTAGCAG 58.335 41.667 22.97 16.59 44.62 4.24
650 732 0.674534 GAGTTAGTGCGGATCCGGAT 59.325 55.000 33.98 19.21 42.52 4.18
728 810 1.735571 CAAGCAAATACCCGTTACGCT 59.264 47.619 0.00 0.00 0.00 5.07
730 812 1.066716 AGCAAATACCCGTTACGCTCA 60.067 47.619 0.00 0.00 0.00 4.26
735 817 2.300850 TACCCGTTACGCTCATGGCC 62.301 60.000 0.00 0.00 37.74 5.36
743 825 4.828296 GCTCATGGCCACCCCCAG 62.828 72.222 8.16 0.03 38.50 4.45
770 852 3.138304 TGCTTGCATAGGCCGTAAATAG 58.862 45.455 0.00 0.00 40.13 1.73
775 857 2.766313 CATAGGCCGTAAATAGCAGCA 58.234 47.619 0.00 0.00 0.00 4.41
803 885 0.329596 GGGCAGGAGTGACAATTCCT 59.670 55.000 4.33 4.33 43.06 3.36
921 1004 1.305887 CTCCCCAACCTCCGTACCT 60.306 63.158 0.00 0.00 0.00 3.08
1165 1262 3.508840 CACGCCGGAAAGGATGGC 61.509 66.667 5.05 0.00 45.00 4.40
1254 1352 1.143183 GGCGGCGAGAGTGGATTTA 59.857 57.895 12.98 0.00 0.00 1.40
1275 1373 3.626930 AGGCGTTTATTGGCTTGGATTA 58.373 40.909 0.00 0.00 39.50 1.75
1287 1385 5.297547 TGGCTTGGATTAATCGAGTGTATC 58.702 41.667 9.32 0.00 0.00 2.24
1670 1773 7.037438 TGTTTAGCTAATACGGTAGTTTCTGG 58.963 38.462 7.08 0.00 0.00 3.86
1855 1963 3.267483 TGTAAGCGGCTTCAAGGATTAC 58.733 45.455 20.06 9.64 0.00 1.89
1920 2040 8.795513 CATGTGCTTGGTATCAATATTTCCATA 58.204 33.333 0.00 0.00 31.75 2.74
1959 2079 7.596749 GTGTTGCACACTATCTATTAGTTGT 57.403 36.000 10.87 0.00 45.27 3.32
2069 2190 6.318648 TGGAATGCACAGTTTCTATATTGACC 59.681 38.462 0.00 0.00 0.00 4.02
2128 2249 6.605119 AGGTTTGCTCCTACATGCTATTAAT 58.395 36.000 0.00 0.00 35.87 1.40
2130 2251 7.013655 AGGTTTGCTCCTACATGCTATTAATTG 59.986 37.037 0.00 0.00 35.87 2.32
2164 2285 3.933332 GTGTCTATGGTCTTACAGCCAAC 59.067 47.826 0.00 0.00 38.38 3.77
2299 2421 1.001641 GCTGCCCATGAAGGTGAGT 60.002 57.895 0.00 0.00 34.66 3.41
2325 2450 8.588290 ACTTATCAGCTACATATCCCTCTAAG 57.412 38.462 0.00 0.00 0.00 2.18
2429 2554 5.277442 GCCATTGTGTTGTTGAGAAATTTGG 60.277 40.000 0.00 0.00 0.00 3.28
2614 2844 7.047891 CCTCAAAGTGCTGGATATGTTAACTA 58.952 38.462 7.22 0.00 0.00 2.24
2615 2845 7.552687 CCTCAAAGTGCTGGATATGTTAACTAA 59.447 37.037 7.22 0.00 0.00 2.24
2883 3116 2.688902 ACCAGAGTACCCTGTACACA 57.311 50.000 3.50 0.00 32.43 3.72
3207 3442 8.774890 ATGCACTTTGATTACAAATAATTGCA 57.225 26.923 15.98 15.98 43.64 4.08
3251 3486 8.103305 AGTTGTTCATTCACTGGTTATGATACT 58.897 33.333 0.00 0.00 0.00 2.12
3252 3487 7.848223 TGTTCATTCACTGGTTATGATACTG 57.152 36.000 0.00 0.00 0.00 2.74
3461 3725 4.619760 CACAAAGAGCAATAACACTGCATG 59.380 41.667 0.00 0.00 42.48 4.06
3487 3751 7.753580 GGTGTAGAACAGCAAATTATTTGTACC 59.246 37.037 17.51 9.25 45.26 3.34
3510 3774 6.152154 ACCGGAAAGGAATTTGTTATACTTGG 59.848 38.462 9.46 0.00 45.00 3.61
3518 3782 7.451566 AGGAATTTGTTATACTTGGAAGCAACT 59.548 33.333 0.00 0.00 0.00 3.16
3529 3793 1.970640 GGAAGCAACTTTGGATGGGTT 59.029 47.619 0.00 0.00 0.00 4.11
3536 3800 2.586425 ACTTTGGATGGGTTGTCAGTG 58.414 47.619 0.00 0.00 0.00 3.66
3548 3812 3.433173 GGTTGTCAGTGAGGTTACCTTGT 60.433 47.826 4.99 0.00 31.76 3.16
3549 3813 3.469008 TGTCAGTGAGGTTACCTTGTG 57.531 47.619 4.99 3.85 31.76 3.33
3555 3819 1.213182 TGAGGTTACCTTGTGGCAACA 59.787 47.619 4.99 0.00 40.52 3.33
3565 3829 2.821685 TGGCAACAGCTCTCGTGT 59.178 55.556 0.00 0.00 46.17 4.49
3571 3835 0.315568 AACAGCTCTCGTGTGGAGTC 59.684 55.000 0.00 0.00 43.60 3.36
3581 3845 2.293955 TCGTGTGGAGTCGTATCAAACA 59.706 45.455 0.00 0.00 0.00 2.83
3589 3853 6.035758 GTGGAGTCGTATCAAACAGGTAATTC 59.964 42.308 0.00 0.00 0.00 2.17
3600 3864 3.486383 ACAGGTAATTCCCACACAAGTG 58.514 45.455 0.00 0.00 45.47 3.16
3613 3877 2.361610 AAGTGCCTTGGATGCGGG 60.362 61.111 0.00 0.00 0.00 6.13
3720 3984 8.682936 AGAAGATTTTACAGTTCTTGTCACAT 57.317 30.769 0.00 0.00 41.29 3.21
3776 4040 7.915508 TGTTATTTGTGGAGCTTAATACATCG 58.084 34.615 0.00 0.00 0.00 3.84
3900 4164 4.899502 AGTCACCGTCTTCATCAAAATCT 58.100 39.130 0.00 0.00 0.00 2.40
3906 4170 4.333926 CCGTCTTCATCAAAATCTCTTCCC 59.666 45.833 0.00 0.00 0.00 3.97
3913 4177 3.260205 TCAAAATCTCTTCCCTCAGGGT 58.740 45.455 10.50 0.00 44.74 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.054802 GGTGATAAGCATATCCCCTCTGG 60.055 52.174 6.50 0.00 37.68 3.86
3 4 4.640771 TTGGTGATAAGCATATCCCCTC 57.359 45.455 11.06 0.00 37.08 4.30
37 38 1.459592 CATCCAACAAAGTCGGACGAC 59.540 52.381 16.39 16.39 44.86 4.34
94 105 5.740099 GCTCGAGATATTATACCTTTCGCTC 59.260 44.000 18.75 0.00 0.00 5.03
114 125 2.033927 TGCAGCTCTGACTAATAGCTCG 59.966 50.000 0.29 0.00 44.58 5.03
121 134 0.681175 TGCAGTGCAGCTCTGACTAA 59.319 50.000 25.42 6.99 35.20 2.24
288 304 0.532417 TGGCAAACAAGCAATGGCAC 60.532 50.000 0.00 0.00 43.60 5.01
289 305 0.532417 GTGGCAAACAAGCAATGGCA 60.532 50.000 0.00 0.00 45.85 4.92
290 306 1.229975 GGTGGCAAACAAGCAATGGC 61.230 55.000 0.00 0.00 39.81 4.40
291 307 0.393820 AGGTGGCAAACAAGCAATGG 59.606 50.000 0.00 0.00 35.83 3.16
292 308 1.068895 TCAGGTGGCAAACAAGCAATG 59.931 47.619 0.00 0.00 35.83 2.82
293 309 1.069049 GTCAGGTGGCAAACAAGCAAT 59.931 47.619 0.00 0.00 35.83 3.56
296 312 0.031178 CAGTCAGGTGGCAAACAAGC 59.969 55.000 0.00 0.00 0.00 4.01
297 313 1.392589 ACAGTCAGGTGGCAAACAAG 58.607 50.000 0.00 0.00 0.00 3.16
298 314 2.719531 TACAGTCAGGTGGCAAACAA 57.280 45.000 0.00 0.00 0.00 2.83
300 316 4.202111 ACATTTTACAGTCAGGTGGCAAAC 60.202 41.667 0.00 0.00 0.00 2.93
302 318 3.561143 ACATTTTACAGTCAGGTGGCAA 58.439 40.909 0.00 0.00 0.00 4.52
303 319 3.222173 ACATTTTACAGTCAGGTGGCA 57.778 42.857 0.00 0.00 0.00 4.92
485 524 5.590530 TGTCGGGAAAATGGATAAAATGG 57.409 39.130 0.00 0.00 0.00 3.16
550 624 3.863142 AGCCTTCAATGTTGCTGATTC 57.137 42.857 0.00 0.00 31.70 2.52
650 732 4.321601 CCCATGAAATTTCTGCCACGTTAA 60.322 41.667 18.64 0.00 0.00 2.01
743 825 1.875364 GCCTATGCAAGCAAAGCGC 60.875 57.895 0.00 0.00 38.10 5.92
745 827 1.226773 CGGCCTATGCAAGCAAAGC 60.227 57.895 0.00 2.35 40.13 3.51
746 828 1.378531 TACGGCCTATGCAAGCAAAG 58.621 50.000 0.00 2.88 40.13 2.77
747 829 1.827681 TTACGGCCTATGCAAGCAAA 58.172 45.000 0.00 0.00 40.13 3.68
803 885 3.052490 TGGGGAGTTTTCCTTTCCTTTCA 60.052 43.478 0.00 0.00 43.49 2.69
902 985 1.305549 GGTACGGAGGTTGGGGAGA 60.306 63.158 0.00 0.00 0.00 3.71
1165 1262 2.816520 CCCGACCGCCGTAAAAGG 60.817 66.667 0.00 0.00 36.31 3.11
1180 1277 4.629523 TGACCGGAAACCACGCCC 62.630 66.667 9.46 0.00 0.00 6.13
1254 1352 2.143876 ATCCAAGCCAATAAACGCCT 57.856 45.000 0.00 0.00 0.00 5.52
1287 1385 3.461061 TCTCTGCATCTGAAATTAGCCG 58.539 45.455 0.00 0.00 0.00 5.52
1288 1386 7.607223 AGATAATCTCTGCATCTGAAATTAGCC 59.393 37.037 0.00 0.00 31.12 3.93
1389 1490 7.210718 ACGTGTCTATATACATCCGATTCAA 57.789 36.000 7.85 0.00 0.00 2.69
1390 1491 6.812879 ACGTGTCTATATACATCCGATTCA 57.187 37.500 7.85 0.00 0.00 2.57
1481 1584 8.469309 AATATTACTCCCTCCATTCACAAATG 57.531 34.615 0.00 0.00 41.69 2.32
1513 1616 6.691328 ACATCCTATGTCCCTTGAGCTAAGG 61.691 48.000 12.51 12.51 44.37 2.69
1514 1617 4.346418 ACATCCTATGTCCCTTGAGCTAAG 59.654 45.833 0.00 0.00 39.92 2.18
1515 1618 4.298626 ACATCCTATGTCCCTTGAGCTAA 58.701 43.478 0.00 0.00 39.92 3.09
1516 1619 3.928754 ACATCCTATGTCCCTTGAGCTA 58.071 45.455 0.00 0.00 39.92 3.32
1517 1620 2.769209 ACATCCTATGTCCCTTGAGCT 58.231 47.619 0.00 0.00 39.92 4.09
1518 1621 3.567478 AACATCCTATGTCCCTTGAGC 57.433 47.619 0.00 0.00 44.07 4.26
1519 1622 5.393461 GCAAAAACATCCTATGTCCCTTGAG 60.393 44.000 10.47 0.00 44.07 3.02
1520 1623 4.462483 GCAAAAACATCCTATGTCCCTTGA 59.538 41.667 10.47 0.00 44.07 3.02
1521 1624 4.220382 TGCAAAAACATCCTATGTCCCTTG 59.780 41.667 0.00 0.15 44.07 3.61
1522 1625 4.415596 TGCAAAAACATCCTATGTCCCTT 58.584 39.130 0.00 0.00 44.07 3.95
1523 1626 4.046286 TGCAAAAACATCCTATGTCCCT 57.954 40.909 0.00 0.00 44.07 4.20
1524 1627 4.160252 ACATGCAAAAACATCCTATGTCCC 59.840 41.667 0.00 0.00 44.07 4.46
1525 1628 5.329035 ACATGCAAAAACATCCTATGTCC 57.671 39.130 0.00 0.00 44.07 4.02
1526 1629 6.091169 CCAAACATGCAAAAACATCCTATGTC 59.909 38.462 0.00 0.00 44.07 3.06
1528 1631 5.163834 GCCAAACATGCAAAAACATCCTATG 60.164 40.000 0.00 0.00 0.00 2.23
1529 1632 4.937015 GCCAAACATGCAAAAACATCCTAT 59.063 37.500 0.00 0.00 0.00 2.57
1530 1633 4.314121 GCCAAACATGCAAAAACATCCTA 58.686 39.130 0.00 0.00 0.00 2.94
1531 1634 3.140623 GCCAAACATGCAAAAACATCCT 58.859 40.909 0.00 0.00 0.00 3.24
1532 1635 2.226200 GGCCAAACATGCAAAAACATCC 59.774 45.455 0.00 0.00 0.00 3.51
1533 1636 3.140623 AGGCCAAACATGCAAAAACATC 58.859 40.909 5.01 0.00 0.00 3.06
1641 1744 9.741647 GAAACTACCGTATTAGCTAAACAGTAT 57.258 33.333 10.85 0.00 0.00 2.12
1642 1745 8.960591 AGAAACTACCGTATTAGCTAAACAGTA 58.039 33.333 10.85 11.10 0.00 2.74
1643 1746 7.758528 CAGAAACTACCGTATTAGCTAAACAGT 59.241 37.037 10.85 10.60 0.00 3.55
1670 1773 7.181143 TCCAGATAACACTAACACGTTTTTC 57.819 36.000 0.00 0.00 0.00 2.29
1707 1811 0.743701 CCACTGAGCTCAGACATGGC 60.744 60.000 42.76 3.30 46.59 4.40
1855 1963 2.094659 CAGTTACCTGGTCAGCGCG 61.095 63.158 0.63 0.00 34.90 6.86
2069 2190 3.423123 GGTTGAGTGCAGTTTCGTATTCG 60.423 47.826 0.00 0.00 38.55 3.34
2128 2249 6.489603 ACCATAGACACCAATGGAATTACAA 58.510 36.000 6.16 0.00 44.62 2.41
2130 2251 6.357367 AGACCATAGACACCAATGGAATTAC 58.643 40.000 6.16 0.00 44.62 1.89
2164 2285 6.636666 AAGAAAATAGCGTTGATGCAAATG 57.363 33.333 0.00 0.00 37.31 2.32
2299 2421 9.688091 CTTAGAGGGATATGTAGCTGATAAGTA 57.312 37.037 0.00 0.00 0.00 2.24
2429 2554 3.806625 AAATACATTGGCATGTGGAGC 57.193 42.857 11.26 0.00 43.92 4.70
2614 2844 8.081517 ACATGTGATATTGTGAAATCCCATTT 57.918 30.769 0.00 0.00 34.64 2.32
2615 2845 7.201938 GGACATGTGATATTGTGAAATCCCATT 60.202 37.037 1.15 0.00 0.00 3.16
2955 3188 0.609131 ACTGGCCTGGTTTGAATCCG 60.609 55.000 14.82 0.00 0.00 4.18
3109 3342 4.701663 CCGTTGACATGGCACTCT 57.298 55.556 0.00 0.00 0.00 3.24
3251 3486 7.732025 TCTCAAGTAACAAGACAAGATTACCA 58.268 34.615 0.00 0.00 0.00 3.25
3252 3487 8.779354 ATCTCAAGTAACAAGACAAGATTACC 57.221 34.615 0.00 0.00 0.00 2.85
3461 3725 7.753580 GGTACAAATAATTTGCTGTTCTACACC 59.246 37.037 0.00 0.00 44.39 4.16
3487 3751 7.385778 TCCAAGTATAACAAATTCCTTTCCG 57.614 36.000 0.00 0.00 0.00 4.30
3510 3774 2.365293 ACAACCCATCCAAAGTTGCTTC 59.635 45.455 2.21 0.00 43.68 3.86
3518 3782 2.488891 CCTCACTGACAACCCATCCAAA 60.489 50.000 0.00 0.00 0.00 3.28
3529 3793 2.104111 CCACAAGGTAACCTCACTGACA 59.896 50.000 0.00 0.00 30.89 3.58
3548 3812 1.595109 CACACGAGAGCTGTTGCCA 60.595 57.895 0.00 0.00 40.80 4.92
3549 3813 2.320587 CCACACGAGAGCTGTTGCC 61.321 63.158 0.00 0.00 40.80 4.52
3555 3819 0.321387 TACGACTCCACACGAGAGCT 60.321 55.000 0.00 0.00 41.63 4.09
3562 3826 2.993899 CCTGTTTGATACGACTCCACAC 59.006 50.000 0.00 0.00 0.00 3.82
3564 3828 3.314541 ACCTGTTTGATACGACTCCAC 57.685 47.619 0.00 0.00 0.00 4.02
3565 3829 5.670792 ATTACCTGTTTGATACGACTCCA 57.329 39.130 0.00 0.00 0.00 3.86
3571 3835 4.938832 TGTGGGAATTACCTGTTTGATACG 59.061 41.667 8.55 0.00 38.98 3.06
3581 3845 2.514803 GCACTTGTGTGGGAATTACCT 58.485 47.619 8.55 0.00 43.97 3.08
3600 3864 1.172812 GGATTACCCGCATCCAAGGC 61.173 60.000 0.00 0.00 40.21 4.35
3704 3968 9.554395 TTCAGATTTTATGTGACAAGAACTGTA 57.446 29.630 0.00 0.00 38.84 2.74
3715 3979 9.295825 AGTACAAATGGTTCAGATTTTATGTGA 57.704 29.630 0.00 0.00 0.00 3.58
3716 3980 9.912634 AAGTACAAATGGTTCAGATTTTATGTG 57.087 29.630 0.00 0.00 0.00 3.21
3720 3984 9.290988 TGCTAAGTACAAATGGTTCAGATTTTA 57.709 29.630 0.00 0.00 0.00 1.52
3743 4007 4.003648 GCTCCACAAATAACAGTACTGCT 58.996 43.478 22.90 13.57 0.00 4.24
3835 4099 1.271054 GGCTCTCTGAACTGGCTTTCA 60.271 52.381 2.75 2.75 34.30 2.69
3913 4177 4.168871 TCTCCCAGAGATGGATAGACTCAA 59.831 45.833 0.00 0.00 33.35 3.02
3954 4218 0.389817 CCGATGAGCGTGTTGGAGAA 60.390 55.000 0.00 0.00 38.67 2.87
3955 4219 1.215382 CCGATGAGCGTGTTGGAGA 59.785 57.895 0.00 0.00 38.67 3.71
3956 4220 2.456119 GCCGATGAGCGTGTTGGAG 61.456 63.158 0.00 0.00 38.67 3.86


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

AutoCloner maintained by Alex Coulton.