Multiple sequence alignment - TraesCS4D01G031400

Loading Multiple Alignment...

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 TraesCS4D01G031400 chr4D 100.000 4070 0 0 1 4070 14670484 14666415 0.000000e+00 7516.0
1 TraesCS4D01G031400 chr4D 90.044 4078 239 63 60 4070 14604014 14607991 0.000000e+00 5127.0
2 TraesCS4D01G031400 chr4D 97.222 36 1 0 1840 1875 14605985 14606020 1.220000e-05 62.1
3 TraesCS4D01G031400 chr4D 97.143 35 1 0 2034 2068 14605799 14605833 4.390000e-05 60.2
4 TraesCS4D01G031400 chr4D 97.143 35 1 0 1841 1875 14668451 14668417 4.390000e-05 60.2
5 TraesCS4D01G031400 chr4D 97.143 35 1 0 2034 2068 14668644 14668610 4.390000e-05 60.2
6 TraesCS4D01G031400 chr4B 90.937 2626 149 40 808 3412 24570520 24567963 0.000000e+00 3448.0
7 TraesCS4D01G031400 chr4B 85.216 487 49 14 1 472 24571591 24571113 2.850000e-131 479.0
8 TraesCS4D01G031400 chr4B 91.509 212 17 1 3856 4066 24567141 24566930 1.430000e-74 291.0
9 TraesCS4D01G031400 chr4B 80.627 351 43 12 3440 3781 24567864 24567530 8.740000e-62 248.0
10 TraesCS4D01G031400 chr3B 88.900 2045 125 38 1 1985 452858248 452860250 0.000000e+00 2425.0
11 TraesCS4D01G031400 chr3B 91.494 1399 88 15 2017 3412 452860251 452861621 0.000000e+00 1895.0
12 TraesCS4D01G031400 chr3B 80.114 352 44 14 3440 3781 452861718 452862053 5.260000e-59 239.0
13 TraesCS4D01G031400 chr3B 97.222 36 1 0 1840 1875 452860267 452860302 1.220000e-05 62.1
14 TraesCS4D01G031400 chr4A 89.525 1852 108 40 810 2634 586730926 586732718 0.000000e+00 2266.0
15 TraesCS4D01G031400 chr4A 89.284 1801 120 30 2125 3915 574193618 574195355 0.000000e+00 2189.0
16 TraesCS4D01G031400 chr4A 87.068 1794 140 50 2094 3840 456481430 456483178 0.000000e+00 1943.0
17 TraesCS4D01G031400 chr4A 91.166 1415 95 15 2125 3537 586733305 586734691 0.000000e+00 1893.0
18 TraesCS4D01G031400 chr4A 91.880 1170 56 20 810 1956 456479670 456480823 0.000000e+00 1598.0
19 TraesCS4D01G031400 chr4A 85.549 692 50 23 1954 2634 456480764 456481416 0.000000e+00 678.0
20 TraesCS4D01G031400 chr4A 89.104 413 27 6 3661 4070 586734712 586735109 7.860000e-137 497.0
21 TraesCS4D01G031400 chr4A 81.481 378 42 13 2389 2759 574193264 574193620 6.660000e-73 285.0
22 TraesCS4D01G031400 chr4A 87.391 230 17 5 3837 4066 456483238 456483455 1.880000e-63 254.0
23 TraesCS4D01G031400 chr4A 93.750 128 6 1 3943 4070 574195352 574195477 1.490000e-44 191.0
24 TraesCS4D01G031400 chr4A 97.222 36 1 0 1840 1875 586732150 586732185 1.220000e-05 62.1
25 TraesCS4D01G031400 chr1B 82.500 320 49 5 3086 3402 17528993 17529308 1.440000e-69 274.0
26 TraesCS4D01G031400 chr1B 100.000 30 0 0 1361 1390 322421574 322421603 5.680000e-04 56.5
27 TraesCS4D01G031400 chr2B 78.431 204 34 6 167 365 90439122 90439320 1.540000e-24 124.0


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 TraesCS4D01G031400 chr4D 14666415 14670484 4069 True 2545.466667 7516 98.095333 1 4070 3 chr4D.!!$R1 4069
1 TraesCS4D01G031400 chr4D 14604014 14607991 3977 False 1749.766667 5127 94.803000 60 4070 3 chr4D.!!$F1 4010
2 TraesCS4D01G031400 chr4B 24566930 24571591 4661 True 1116.500000 3448 87.072250 1 4066 4 chr4B.!!$R1 4065
3 TraesCS4D01G031400 chr3B 452858248 452862053 3805 False 1155.275000 2425 89.432500 1 3781 4 chr3B.!!$F1 3780
4 TraesCS4D01G031400 chr4A 586730926 586735109 4183 False 1179.525000 2266 91.754250 810 4070 4 chr4A.!!$F3 3260
5 TraesCS4D01G031400 chr4A 456479670 456483455 3785 False 1118.250000 1943 87.972000 810 4066 4 chr4A.!!$F1 3256
6 TraesCS4D01G031400 chr4A 574193264 574195477 2213 False 888.333333 2189 88.171667 2125 4070 3 chr4A.!!$F2 1945

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
561 907 0.034089 ACTCCCAGCTAACCCATTGC 60.034 55.000 0.00 0.0 0.00 3.56 F
667 1014 0.107848 GTGTCTACCGTGGGATTGGG 60.108 60.000 0.00 0.0 0.00 4.12 F
938 1342 0.249398 AAACCCATCCGGACTCTTCG 59.751 55.000 6.12 0.0 34.64 3.79 F
939 1343 0.613853 AACCCATCCGGACTCTTCGA 60.614 55.000 6.12 0.0 34.64 3.71 F
2015 2466 1.070758 ACTGCGTAATGCTGATAGGGG 59.929 52.381 3.99 0.0 46.63 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1562 1998 1.204704 TCAGCAATCCGTCGAACTCAT 59.795 47.619 0.0 0.0 0.0 2.90 R
2011 2462 1.366319 ATCAGTCAGCTTGTTCCCCT 58.634 50.000 0.0 0.0 0.0 4.79 R
2101 2552 1.398692 ACACAAGTCGCCCACAAAAT 58.601 45.000 0.0 0.0 0.0 1.82 R
2465 3982 1.517832 CACAACGCCCCAAACCAAA 59.482 52.632 0.0 0.0 0.0 3.28 R
3739 5898 0.746659 AGCCAACAACAAACAGCTCC 59.253 50.000 0.0 0.0 0.0 4.70 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
50 51 7.814587 CCTATTCCACTTTCCTTTAAGCTTTTG 59.185 37.037 3.20 0.00 0.00 2.44
160 173 3.379445 GGGTTCAGGTCCTCGCGA 61.379 66.667 9.26 9.26 0.00 5.87
172 185 3.210857 CTCGCGACAGAGGGAAAAA 57.789 52.632 3.71 0.00 34.74 1.94
229 243 1.286248 ACAATGAGTACAGGGGGTCC 58.714 55.000 0.00 0.00 0.00 4.46
270 284 6.109359 ACAAAGAGTAGATTGTGTGCCTATC 58.891 40.000 0.00 0.00 38.29 2.08
285 299 1.867919 CTATCGACTAGCCCTGCCCG 61.868 65.000 0.00 0.00 0.00 6.13
300 314 2.632996 CTGCCCGGACTCATAAAGGATA 59.367 50.000 0.73 0.00 0.00 2.59
302 316 2.367567 GCCCGGACTCATAAAGGATACA 59.632 50.000 0.73 0.00 41.41 2.29
326 340 3.117663 GGGGCTAGGGTTTACATGAATCA 60.118 47.826 0.00 0.00 0.00 2.57
344 358 7.284919 TGAATCATAGACGGTATCTAAAGCA 57.715 36.000 0.00 0.00 43.33 3.91
396 410 2.451490 TGTTTTGTGCTCCAAGTTCCA 58.549 42.857 0.00 0.00 33.75 3.53
402 416 1.228154 GCTCCAAGTTCCACGGGTT 60.228 57.895 0.00 0.00 0.00 4.11
506 852 1.173444 TTTGGCGCCATAACACCGTT 61.173 50.000 33.25 0.00 0.00 4.44
517 863 4.218852 CCATAACACCGTTAACAACCCATT 59.781 41.667 6.39 0.00 0.00 3.16
537 883 2.244695 TGCCTTCAAGACCTTCGAGTA 58.755 47.619 0.00 0.00 0.00 2.59
561 907 0.034089 ACTCCCAGCTAACCCATTGC 60.034 55.000 0.00 0.00 0.00 3.56
590 936 2.175499 CCCAGATAATTTCCTCTGCCCA 59.825 50.000 6.78 0.00 38.03 5.36
624 971 4.263209 CAGCCGCAACCGCAACAA 62.263 61.111 0.00 0.00 38.40 2.83
626 973 2.355718 GCCGCAACCGCAACAAAT 60.356 55.556 0.00 0.00 38.40 2.32
645 992 5.829924 ACAAATTCACCACTCTTCTTGACAT 59.170 36.000 0.00 0.00 0.00 3.06
662 1009 2.811410 ACATTAGTGTCTACCGTGGGA 58.189 47.619 0.00 0.00 31.41 4.37
665 1012 3.880047 TTAGTGTCTACCGTGGGATTG 57.120 47.619 0.00 0.00 0.00 2.67
666 1013 0.902531 AGTGTCTACCGTGGGATTGG 59.097 55.000 0.00 0.00 0.00 3.16
667 1014 0.107848 GTGTCTACCGTGGGATTGGG 60.108 60.000 0.00 0.00 0.00 4.12
686 1053 3.395607 TGGGATCTAGCATGGCATTAAGT 59.604 43.478 0.00 0.00 0.00 2.24
692 1059 6.866010 TCTAGCATGGCATTAAGTATTGTG 57.134 37.500 0.00 0.00 0.00 3.33
724 1091 9.516546 ACTGTTACCTTTAAAATAAAGAGGAGG 57.483 33.333 10.62 0.00 0.00 4.30
799 1166 3.191371 GGTCCAAAGCATCTTTACACAGG 59.809 47.826 0.00 0.00 0.00 4.00
825 1219 0.392461 GCACCCAGCGGTAATCAGAA 60.392 55.000 0.00 0.00 42.04 3.02
864 1258 4.584688 GCCATTTCACAGCTTGGC 57.415 55.556 9.01 9.01 46.94 4.52
867 1261 2.074547 CCATTTCACAGCTTGGCTTG 57.925 50.000 0.00 0.00 36.40 4.01
868 1262 1.337447 CCATTTCACAGCTTGGCTTGG 60.337 52.381 0.00 0.00 36.40 3.61
874 1273 0.475906 ACAGCTTGGCTTGGAGAACT 59.524 50.000 0.00 0.00 36.40 3.01
938 1342 0.249398 AAACCCATCCGGACTCTTCG 59.751 55.000 6.12 0.00 34.64 3.79
939 1343 0.613853 AACCCATCCGGACTCTTCGA 60.614 55.000 6.12 0.00 34.64 3.71
1443 1879 1.605058 CCGACTTCCAGTCCGTCCAT 61.605 60.000 0.00 0.00 42.12 3.41
1561 1997 1.471684 GCCCTCTTGAGCTGTTTGATG 59.528 52.381 0.00 0.00 0.00 3.07
1562 1998 2.877300 GCCCTCTTGAGCTGTTTGATGA 60.877 50.000 0.00 0.00 0.00 2.92
1566 2002 4.333095 CCTCTTGAGCTGTTTGATGATGAG 59.667 45.833 0.00 0.00 0.00 2.90
1570 2006 3.681417 TGAGCTGTTTGATGATGAGTTCG 59.319 43.478 0.00 0.00 0.00 3.95
1575 2011 3.250744 GTTTGATGATGAGTTCGACGGA 58.749 45.455 0.00 0.00 0.00 4.69
1612 2053 7.346175 TGGTTTACTGGATGGATACTAGCTTAA 59.654 37.037 0.00 0.00 37.61 1.85
1631 2072 8.556213 AGCTTAATTGGTAAATTTAGTCACGA 57.444 30.769 0.00 0.00 35.69 4.35
1632 2073 9.174166 AGCTTAATTGGTAAATTTAGTCACGAT 57.826 29.630 0.00 0.00 35.69 3.73
1633 2074 9.783256 GCTTAATTGGTAAATTTAGTCACGATT 57.217 29.630 0.00 4.54 35.69 3.34
1675 2116 6.458232 AAGCTGTCGATTCATCTTAGTAGT 57.542 37.500 0.00 0.00 0.00 2.73
1991 2440 8.258007 TGGTTCTGAGTAACTGTATATTTCTGG 58.742 37.037 0.00 0.00 0.00 3.86
2011 2462 2.036733 GGGGTACTGCGTAATGCTGATA 59.963 50.000 3.99 0.00 46.63 2.15
2015 2466 1.070758 ACTGCGTAATGCTGATAGGGG 59.929 52.381 3.99 0.00 46.63 4.79
2032 2483 2.503356 AGGGGAACAAGCTGACTGATAG 59.497 50.000 0.00 0.00 0.00 2.08
2093 2544 6.716934 ATTGACCTATCAGTTCATCGTAGT 57.283 37.500 0.00 0.00 35.83 2.73
2098 2549 5.466058 ACCTATCAGTTCATCGTAGTACTCG 59.534 44.000 0.00 3.38 0.00 4.18
2101 2552 6.915544 ATCAGTTCATCGTAGTACTCGTAA 57.084 37.500 0.00 0.00 0.00 3.18
2175 2628 6.426937 TGGCTTTGACTAACTGTACATTTCTC 59.573 38.462 1.18 0.09 0.00 2.87
2257 2710 2.825532 ACATGGAAAACGAAAGATGGGG 59.174 45.455 0.00 0.00 0.00 4.96
2274 2727 4.935352 TGGGGCATATTTAATTGCAGAC 57.065 40.909 11.79 4.80 40.66 3.51
2281 2734 6.805271 GGCATATTTAATTGCAGACTAGCATG 59.195 38.462 11.79 0.00 45.19 4.06
2284 2737 8.562052 CATATTTAATTGCAGACTAGCATGTGA 58.438 33.333 0.00 0.00 45.19 3.58
2296 2749 2.522185 AGCATGTGAGTTTGCATCCTT 58.478 42.857 0.00 0.00 41.35 3.36
2355 3870 8.768501 TCCTATATTGAGAGATGTGTTACACT 57.231 34.615 16.79 2.23 35.11 3.55
2465 3982 3.442625 CAGATTGGCATTCATGTCAGTGT 59.557 43.478 11.57 0.00 44.05 3.55
2474 4513 4.383850 TTCATGTCAGTGTTTGGTTTGG 57.616 40.909 0.00 0.00 0.00 3.28
2520 4559 5.012664 TGTGTATCCTCAATGGTGTTACTGT 59.987 40.000 0.00 0.00 37.07 3.55
2522 4561 6.430000 GTGTATCCTCAATGGTGTTACTGTTT 59.570 38.462 0.00 0.00 37.07 2.83
2523 4562 7.604927 GTGTATCCTCAATGGTGTTACTGTTTA 59.395 37.037 0.00 0.00 37.07 2.01
2524 4563 7.604927 TGTATCCTCAATGGTGTTACTGTTTAC 59.395 37.037 0.00 0.00 37.07 2.01
2525 4564 6.182507 TCCTCAATGGTGTTACTGTTTACT 57.817 37.500 0.00 0.00 37.07 2.24
2526 4565 5.995282 TCCTCAATGGTGTTACTGTTTACTG 59.005 40.000 0.00 0.00 37.07 2.74
2527 4566 5.181245 CCTCAATGGTGTTACTGTTTACTGG 59.819 44.000 0.00 0.00 0.00 4.00
2528 4567 5.686753 TCAATGGTGTTACTGTTTACTGGT 58.313 37.500 0.00 0.00 0.00 4.00
2529 4568 6.123651 TCAATGGTGTTACTGTTTACTGGTT 58.876 36.000 0.00 0.00 0.00 3.67
2530 4569 7.281098 TCAATGGTGTTACTGTTTACTGGTTA 58.719 34.615 0.00 0.00 0.00 2.85
2531 4570 7.774157 TCAATGGTGTTACTGTTTACTGGTTAA 59.226 33.333 0.00 0.00 0.00 2.01
2534 4573 9.969001 ATGGTGTTACTGTTTACTGGTTAATAT 57.031 29.630 0.00 0.00 0.00 1.28
2834 4899 3.063588 GGCGTGAAAATAGCTACACTTCC 59.936 47.826 0.00 0.66 0.00 3.46
2866 4931 6.738114 TCATTTCCTGAATTTGACTTGTGTC 58.262 36.000 0.00 0.00 43.20 3.67
2867 4932 7.014518 ATCATTTCCTGAATTTGACTTGTGTCA 59.985 33.333 0.00 0.00 43.32 3.58
2944 5011 4.084223 CGGTTGGTTGTACTTGTACATCAC 60.084 45.833 13.46 9.92 0.00 3.06
3018 5085 5.413309 AGCTGTCTACTGCATTAACTTCT 57.587 39.130 13.46 0.00 42.33 2.85
3115 5184 1.804151 GCAGCATCACACGAGGTAAAA 59.196 47.619 0.00 0.00 0.00 1.52
3157 5226 1.693062 TCCGTGCCCTTTAGTACAACA 59.307 47.619 0.00 0.00 0.00 3.33
3167 5236 6.458342 GCCCTTTAGTACAACAATGTAGATGC 60.458 42.308 0.00 0.00 42.54 3.91
3184 5253 2.905415 TGCTCCAATCATCCCTGTTT 57.095 45.000 0.00 0.00 0.00 2.83
3196 5265 9.520204 CAATCATCCCTGTTTATACATTTTGAC 57.480 33.333 0.00 0.00 32.86 3.18
3215 5285 1.006571 TTCCGTGGACGTCTTCTGC 60.007 57.895 16.46 0.00 37.74 4.26
3232 5302 0.314618 TGCGAGGCACACGTAGTTTA 59.685 50.000 0.00 0.00 45.83 2.01
3540 5691 8.283291 GGACAAATAACGAGTTTGGATATCATC 58.717 37.037 4.83 0.00 40.08 2.92
3557 5708 2.378208 TCATCATCCAAAACCTGGTCCA 59.622 45.455 0.00 0.00 46.51 4.02
3563 5714 3.230134 TCCAAAACCTGGTCCAAATGAG 58.770 45.455 0.00 0.00 46.51 2.90
3715 5874 7.610580 TTTGGAAAATACCTCTGGAACAAAT 57.389 32.000 0.00 0.00 38.70 2.32
3894 6444 0.030773 CTAATGCATGCTGCCTGCTG 59.969 55.000 26.07 12.69 44.23 4.41
3926 6476 1.217244 GCCTTCCGCGTCCTAAAGA 59.783 57.895 4.92 0.00 0.00 2.52
3967 6517 5.360999 TCCCATTTGTTGATTGTTACACACA 59.639 36.000 0.00 0.00 0.00 3.72
3968 6518 6.041409 TCCCATTTGTTGATTGTTACACACAT 59.959 34.615 0.00 0.00 34.43 3.21
3980 6530 7.420184 TTGTTACACACATTGTATGTCTCTG 57.580 36.000 3.55 0.00 42.70 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
172 185 2.559381 AATCAGAGCAGGAGTAGGGT 57.441 50.000 0.00 0.00 0.00 4.34
285 299 3.244112 CCCCGTGTATCCTTTATGAGTCC 60.244 52.174 0.00 0.00 0.00 3.85
300 314 0.837260 TGTAAACCCTAGCCCCGTGT 60.837 55.000 0.00 0.00 0.00 4.49
302 316 0.544697 CATGTAAACCCTAGCCCCGT 59.455 55.000 0.00 0.00 0.00 5.28
326 340 5.138276 TCCACTGCTTTAGATACCGTCTAT 58.862 41.667 0.00 0.00 39.14 1.98
364 378 1.008995 CAAAACAAGGTGGTCGGCG 60.009 57.895 0.00 0.00 0.00 6.46
372 386 2.456577 ACTTGGAGCACAAAACAAGGT 58.543 42.857 0.00 0.00 43.36 3.50
506 852 3.572255 GTCTTGAAGGCAATGGGTTGTTA 59.428 43.478 0.00 0.00 37.65 2.41
517 863 1.048601 ACTCGAAGGTCTTGAAGGCA 58.951 50.000 0.00 0.00 0.00 4.75
537 883 2.062636 TGGGTTAGCTGGGAGTTTCTT 58.937 47.619 0.00 0.00 0.00 2.52
548 894 2.440247 GCCGGCAATGGGTTAGCT 60.440 61.111 24.80 0.00 0.00 3.32
561 907 0.535102 AAATTATCTGGGCTCGCCGG 60.535 55.000 0.00 0.00 36.85 6.13
572 918 3.075134 GGGATGGGCAGAGGAAATTATCT 59.925 47.826 0.00 0.00 0.00 1.98
590 936 1.383943 TGTGGCGATAGTGGGGGAT 60.384 57.895 0.00 0.00 39.35 3.85
624 971 7.173907 CACTAATGTCAAGAAGAGTGGTGAATT 59.826 37.037 0.00 0.00 32.49 2.17
626 973 5.991606 CACTAATGTCAAGAAGAGTGGTGAA 59.008 40.000 0.00 0.00 32.49 3.18
645 992 2.498481 CCAATCCCACGGTAGACACTAA 59.502 50.000 0.00 0.00 0.00 2.24
656 1003 0.758734 TGCTAGATCCCAATCCCACG 59.241 55.000 0.00 0.00 31.78 4.94
660 1007 1.074405 TGCCATGCTAGATCCCAATCC 59.926 52.381 0.00 0.00 31.78 3.01
661 1008 2.574006 TGCCATGCTAGATCCCAATC 57.426 50.000 0.00 0.00 0.00 2.67
662 1009 3.537795 AATGCCATGCTAGATCCCAAT 57.462 42.857 0.00 0.00 0.00 3.16
665 1012 4.026356 ACTTAATGCCATGCTAGATCCC 57.974 45.455 0.00 0.00 0.00 3.85
666 1013 6.656693 ACAATACTTAATGCCATGCTAGATCC 59.343 38.462 0.00 0.00 0.00 3.36
667 1014 7.524912 CACAATACTTAATGCCATGCTAGATC 58.475 38.462 0.00 0.00 0.00 2.75
772 1139 5.475564 GTGTAAAGATGCTTTGGACCCTAAA 59.524 40.000 2.85 0.00 0.00 1.85
799 1166 3.365265 CCGCTGGGTGCCTCAAAC 61.365 66.667 0.00 0.00 38.78 2.93
822 1216 1.141053 AGCAACGAAACTGGAGGTTCT 59.859 47.619 3.04 0.00 37.12 3.01
825 1219 1.134220 TCAAGCAACGAAACTGGAGGT 60.134 47.619 0.00 0.00 0.00 3.85
864 1258 6.080406 GCTTTTCGAATTGTAGTTCTCCAAG 58.920 40.000 0.00 0.00 0.00 3.61
865 1259 5.529430 TGCTTTTCGAATTGTAGTTCTCCAA 59.471 36.000 0.00 0.00 0.00 3.53
866 1260 5.060506 TGCTTTTCGAATTGTAGTTCTCCA 58.939 37.500 0.00 0.00 0.00 3.86
867 1261 5.607119 TGCTTTTCGAATTGTAGTTCTCC 57.393 39.130 0.00 0.00 0.00 3.71
868 1262 6.359883 GGTTTGCTTTTCGAATTGTAGTTCTC 59.640 38.462 0.00 0.00 0.00 2.87
874 1273 4.920640 TGGGTTTGCTTTTCGAATTGTA 57.079 36.364 0.00 0.00 0.00 2.41
938 1342 6.237358 GCGTTTATTTTTCGTCTCTCTCTCTC 60.237 42.308 0.00 0.00 0.00 3.20
939 1343 5.573669 GCGTTTATTTTTCGTCTCTCTCTCT 59.426 40.000 0.00 0.00 0.00 3.10
980 1401 4.179599 GGGGAGGGAGGGAGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
1561 1997 1.590238 CAGCAATCCGTCGAACTCATC 59.410 52.381 0.00 0.00 0.00 2.92
1562 1998 1.204704 TCAGCAATCCGTCGAACTCAT 59.795 47.619 0.00 0.00 0.00 2.90
1566 2002 3.163594 CAAAATCAGCAATCCGTCGAAC 58.836 45.455 0.00 0.00 0.00 3.95
1570 2006 3.575965 AACCAAAATCAGCAATCCGTC 57.424 42.857 0.00 0.00 0.00 4.79
1575 2011 6.400568 CATCCAGTAAACCAAAATCAGCAAT 58.599 36.000 0.00 0.00 0.00 3.56
1638 2079 9.502145 GAATCGACAGCTTAATCTATGATCTAG 57.498 37.037 0.00 0.00 0.00 2.43
1648 2089 7.938563 ACTAAGATGAATCGACAGCTTAATC 57.061 36.000 12.88 1.54 44.30 1.75
1675 2116 3.322828 AGTCGCCCACAAAACTAAGAGTA 59.677 43.478 0.00 0.00 0.00 2.59
1949 2398 4.223032 CAGAACCAACTACCAGTCTACCAT 59.777 45.833 0.00 0.00 0.00 3.55
1991 2440 2.240493 ATCAGCATTACGCAGTACCC 57.760 50.000 0.00 0.00 45.76 3.69
2011 2462 1.366319 ATCAGTCAGCTTGTTCCCCT 58.634 50.000 0.00 0.00 0.00 4.79
2015 2466 6.857777 ATTATGCTATCAGTCAGCTTGTTC 57.142 37.500 0.00 0.00 39.83 3.18
2032 2483 8.644619 CACATGCTAATCTGCAATTAATTATGC 58.355 33.333 0.00 2.71 46.61 3.14
2061 2512 7.988737 TGAACTGATAGGTCAATTTATGCAAG 58.011 34.615 0.00 0.00 39.34 4.01
2093 2544 2.995258 GTCGCCCACAAAATTACGAGTA 59.005 45.455 0.00 0.00 0.00 2.59
2098 2549 3.243267 ACACAAGTCGCCCACAAAATTAC 60.243 43.478 0.00 0.00 0.00 1.89
2101 2552 1.398692 ACACAAGTCGCCCACAAAAT 58.601 45.000 0.00 0.00 0.00 1.82
2257 2710 7.325338 CACATGCTAGTCTGCAATTAAATATGC 59.675 37.037 0.00 4.76 46.61 3.14
2274 2727 3.276857 AGGATGCAAACTCACATGCTAG 58.723 45.455 0.00 0.00 42.34 3.42
2296 2749 4.776349 TGACCACTCTAGAAAAGTTGCAA 58.224 39.130 0.00 0.00 0.00 4.08
2446 3963 4.561938 CCAAACACTGACATGAATGCCAAT 60.562 41.667 0.00 0.00 0.00 3.16
2465 3982 1.517832 CACAACGCCCCAAACCAAA 59.482 52.632 0.00 0.00 0.00 3.28
2789 4836 5.942236 CCACTTGGATAATGATATGTCTGGG 59.058 44.000 0.00 0.00 37.39 4.45
2834 4899 6.805271 GTCAAATTCAGGAAATGATGTGACAG 59.195 38.462 0.00 0.00 40.08 3.51
2866 4931 8.572828 TGAAATAAAATTAGTGCACACAACTG 57.427 30.769 21.04 0.00 0.00 3.16
2867 4932 9.593134 TTTGAAATAAAATTAGTGCACACAACT 57.407 25.926 21.04 0.00 0.00 3.16
2965 5032 5.263599 TGAAACTCTGGTGCCATGATAAAT 58.736 37.500 0.00 0.00 0.00 1.40
3115 5184 7.770897 ACGGAAATAGAGAGTAAAATTCTGCAT 59.229 33.333 0.00 0.00 0.00 3.96
3134 5203 3.706600 TGTACTAAAGGGCACGGAAAT 57.293 42.857 0.00 0.00 0.00 2.17
3157 5226 4.353191 AGGGATGATTGGAGCATCTACATT 59.647 41.667 6.20 0.00 41.39 2.71
3167 5236 8.469309 AAATGTATAAACAGGGATGATTGGAG 57.531 34.615 0.00 0.00 39.49 3.86
3196 5265 1.009389 GCAGAAGACGTCCACGGAAG 61.009 60.000 13.01 0.00 44.95 3.46
3215 5285 1.625616 CCTAAACTACGTGTGCCTCG 58.374 55.000 0.00 0.00 0.00 4.63
3232 5302 2.603008 GCCACATGCATACCCCCT 59.397 61.111 0.00 0.00 40.77 4.79
3250 5320 7.971201 TCTTCAGTCATAGCAATAGATCCATT 58.029 34.615 0.00 0.00 0.00 3.16
3429 5501 2.887152 CCTAAACTGAACTTGCAAGGCT 59.113 45.455 29.18 16.50 0.00 4.58
3612 5767 5.692115 TCAATGCCTAACATCTAGGTGAA 57.308 39.130 10.76 0.00 38.34 3.18
3739 5898 0.746659 AGCCAACAACAAACAGCTCC 59.253 50.000 0.00 0.00 0.00 4.70
3926 6476 4.098914 TGGGAGTGTAGTGCTTCAATTT 57.901 40.909 0.00 0.00 0.00 1.82
3967 6517 3.031736 AGTACCCGCAGAGACATACAAT 58.968 45.455 0.00 0.00 0.00 2.71
3968 6518 2.426024 GAGTACCCGCAGAGACATACAA 59.574 50.000 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.