Multiple sequence alignment - TraesCS6B01G319500

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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 TraesCS6B01G319500 chr6B 100.000 3705 0 0 1 3705 567400418 567396714 0.000000e+00 6842.0
1 TraesCS6B01G319500 chr6B 89.535 172 17 1 1 171 694898943 694899114 2.240000e-52 217.0
2 TraesCS6B01G319500 chr6D 96.012 2758 100 7 952 3705 379572164 379574915 0.000000e+00 4475.0
3 TraesCS6B01G319500 chr6D 93.639 959 55 5 1 955 379571148 379572104 0.000000e+00 1428.0
4 TraesCS6B01G319500 chr6D 88.372 172 18 2 1 171 465171685 465171515 4.850000e-49 206.0
5 TraesCS6B01G319500 chr6A 95.275 1545 61 10 2170 3705 521452243 521450702 0.000000e+00 2438.0
6 TraesCS6B01G319500 chr6A 96.822 1227 34 4 962 2186 521453823 521452600 0.000000e+00 2045.0
7 TraesCS6B01G319500 chr6A 93.431 959 56 6 1 955 521454848 521453893 0.000000e+00 1415.0
8 TraesCS6B01G319500 chr7D 77.889 398 63 14 2315 2707 171313850 171314227 1.340000e-54 224.0
9 TraesCS6B01G319500 chr7A 77.889 398 63 14 2315 2707 174205059 174205436 1.340000e-54 224.0
10 TraesCS6B01G319500 chr7B 77.193 399 64 17 2315 2707 137795620 137795997 1.350000e-49 207.0
11 TraesCS6B01G319500 chr7B 78.022 182 34 6 142 320 137793006 137793184 3.910000e-20 110.0
12 TraesCS6B01G319500 chr2A 89.855 138 13 1 1 137 49715501 49715364 3.800000e-40 176.0
13 TraesCS6B01G319500 chr1D 90.741 108 10 0 64 171 475908589 475908482 1.070000e-30 145.0
14 TraesCS6B01G319500 chr2B 93.478 46 2 1 1 45 248456052 248456007 2.390000e-07 67.6


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 TraesCS6B01G319500 chr6B 567396714 567400418 3704 True 6842.0 6842 100.0000 1 3705 1 chr6B.!!$R1 3704
1 TraesCS6B01G319500 chr6D 379571148 379574915 3767 False 2951.5 4475 94.8255 1 3705 2 chr6D.!!$F1 3704
2 TraesCS6B01G319500 chr6A 521450702 521454848 4146 True 1966.0 2438 95.1760 1 3705 3 chr6A.!!$R1 3704

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
718 723 0.105760 AGGTGTGCCAAATCCCAACA 60.106 50.000 0.0 0.0 37.19 3.33 F
843 848 0.178964 CCCCCACAAATGACACCACT 60.179 55.000 0.0 0.0 0.00 4.00 F
978 1046 0.739561 CCTTCGGTAAGACCTCTCCG 59.260 60.000 0.0 0.0 43.65 4.63 F
1055 1123 1.065782 GGAGAAGGAAGCTGGAAGGAC 60.066 57.143 0.0 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1581 1649 0.179009 ACCTGTTCTGCACATGCTGT 60.179 50.0 5.31 0.0 42.66 4.40 R
2478 2921 0.980231 GGCCTCTCTGTCCATGGAGT 60.980 60.0 16.81 0.0 0.00 3.85 R
2590 3033 1.215655 CGAATCGACCCTTGATCCGC 61.216 60.0 0.00 0.0 0.00 5.54 R
2985 3429 1.981256 TCCAAGGCAAACCAGAGTTC 58.019 50.0 0.00 0.0 39.06 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
71 72 9.974980 GGAAGAGATAGGTTAGAGATTTAACAG 57.025 37.037 0.00 0.00 35.67 3.16
72 73 9.974980 GAAGAGATAGGTTAGAGATTTAACAGG 57.025 37.037 0.00 0.00 35.67 4.00
80 81 3.081804 AGAGATTTAACAGGCCAAACCG 58.918 45.455 5.01 0.00 46.52 4.44
90 91 4.532834 ACAGGCCAAACCGTATGAATAAT 58.467 39.130 5.01 0.00 46.52 1.28
97 98 5.339177 CAAACCGTATGAATAATTGCAGCA 58.661 37.500 0.00 0.00 0.00 4.41
101 102 4.977963 CCGTATGAATAATTGCAGCAAAGG 59.022 41.667 12.97 0.00 0.00 3.11
147 148 5.808366 ACACTTCCTAGACTGAACATCAA 57.192 39.130 0.00 0.00 0.00 2.57
208 209 2.520465 TAGTGACATGGCAGGGTGCG 62.520 60.000 0.00 0.00 46.21 5.34
222 223 4.678622 CAGGGTGCGTTAAAACTTTTCTT 58.321 39.130 0.00 0.00 0.00 2.52
223 224 5.733937 GCAGGGTGCGTTAAAACTTTTCTTA 60.734 40.000 0.00 0.00 31.71 2.10
241 242 6.971726 TTCTTATGTATCTTCCGCTTCCTA 57.028 37.500 0.00 0.00 0.00 2.94
243 244 5.831525 TCTTATGTATCTTCCGCTTCCTACA 59.168 40.000 0.00 0.00 0.00 2.74
286 287 2.468915 AGAACAGCTAAGGGGAGTACC 58.531 52.381 0.00 0.00 39.11 3.34
294 295 3.740452 GCTAAGGGGAGTACCAACGAATC 60.740 52.174 0.00 0.00 42.91 2.52
418 421 6.206243 CCACATTGCCTTCTAATTCTCCTATG 59.794 42.308 0.00 0.00 0.00 2.23
636 640 4.285863 TCCAAACTGGGTTTCTCAAATGT 58.714 39.130 0.00 0.00 38.32 2.71
639 643 5.294060 CCAAACTGGGTTTCTCAAATGTTTG 59.706 40.000 0.00 0.00 41.18 2.93
667 672 6.071728 ACTCCTGTTCAATTGATGATTCCAAC 60.072 38.462 9.40 2.35 38.03 3.77
690 695 7.230466 ACTTACGTGAAAGTTGTTACTCTTG 57.770 36.000 0.00 0.00 36.26 3.02
701 706 9.930693 AAAGTTGTTACTCTTGTATTCTCTAGG 57.069 33.333 0.00 0.00 31.99 3.02
712 717 5.428253 TGTATTCTCTAGGTGTGCCAAATC 58.572 41.667 0.00 0.00 37.19 2.17
718 723 0.105760 AGGTGTGCCAAATCCCAACA 60.106 50.000 0.00 0.00 37.19 3.33
719 724 0.318120 GGTGTGCCAAATCCCAACAG 59.682 55.000 0.00 0.00 34.09 3.16
730 735 6.567050 CCAAATCCCAACAGATAATTGACAG 58.433 40.000 0.00 0.00 0.00 3.51
743 748 9.661187 CAGATAATTGACAGAAAATGATGTAGC 57.339 33.333 0.00 0.00 0.00 3.58
751 756 6.860080 ACAGAAAATGATGTAGCATTTGAGG 58.140 36.000 8.64 4.60 45.09 3.86
756 761 7.649533 AAATGATGTAGCATTTGAGGATTGA 57.350 32.000 7.24 0.00 44.39 2.57
759 764 5.355071 TGATGTAGCATTTGAGGATTGACAC 59.645 40.000 0.00 0.00 0.00 3.67
760 765 4.910195 TGTAGCATTTGAGGATTGACACT 58.090 39.130 0.00 0.00 0.00 3.55
810 815 0.385029 TGCAACCACAAGATGCACAC 59.615 50.000 0.00 0.00 44.52 3.82
843 848 0.178964 CCCCCACAAATGACACCACT 60.179 55.000 0.00 0.00 0.00 4.00
892 897 5.915900 ACCCTCCTATTAGTACTCCTCACTA 59.084 44.000 0.00 0.00 0.00 2.74
913 918 4.574599 AAAATTCCAACACTGACTGCTC 57.425 40.909 0.00 0.00 0.00 4.26
916 921 1.053835 TCCAACACTGACTGCTCCCA 61.054 55.000 0.00 0.00 0.00 4.37
929 934 1.298014 CTCCCACTCACTCCCAAGC 59.702 63.158 0.00 0.00 0.00 4.01
955 960 5.600069 AGTTCAAGAAAAGGATCAAAAGCCT 59.400 36.000 0.00 0.00 45.47 4.58
957 962 5.139727 TCAAGAAAAGGATCAAAAGCCTCA 58.860 37.500 0.00 0.00 41.63 3.86
958 963 5.598005 TCAAGAAAAGGATCAAAAGCCTCAA 59.402 36.000 0.00 0.00 41.63 3.02
959 964 5.459536 AGAAAAGGATCAAAAGCCTCAAC 57.540 39.130 0.00 0.00 41.63 3.18
973 1041 1.900486 CCTCAACCTTCGGTAAGACCT 59.100 52.381 0.00 0.00 35.66 3.85
978 1046 0.739561 CCTTCGGTAAGACCTCTCCG 59.260 60.000 0.00 0.00 43.65 4.63
1032 1100 2.823984 TGCAATTTCAACAGCAACCTG 58.176 42.857 0.00 0.00 44.80 4.00
1055 1123 1.065782 GGAGAAGGAAGCTGGAAGGAC 60.066 57.143 0.00 0.00 0.00 3.85
1357 1425 2.674380 CACTCCCAGCTGTTGCCC 60.674 66.667 13.81 0.00 40.80 5.36
1449 1517 1.349357 GAAGTGGACTCTTGGCTCCTT 59.651 52.381 0.00 0.00 0.00 3.36
1499 1567 5.986135 GTGCCAACAAGATAGATCGATACTT 59.014 40.000 0.00 0.00 0.00 2.24
1580 1648 6.882610 AGAACAATACAGAATGCAAGAACA 57.117 33.333 0.00 0.00 42.53 3.18
1581 1649 7.275888 AGAACAATACAGAATGCAAGAACAA 57.724 32.000 0.00 0.00 42.53 2.83
1582 1650 7.141363 AGAACAATACAGAATGCAAGAACAAC 58.859 34.615 0.00 0.00 42.53 3.32
1931 1999 9.851686 TTAGGATACAAGATGCAGATTATTTGT 57.148 29.630 0.00 0.00 41.41 2.83
1934 2002 8.844244 GGATACAAGATGCAGATTATTTGTCTT 58.156 33.333 0.00 0.00 31.84 3.01
1935 2003 9.661187 GATACAAGATGCAGATTATTTGTCTTG 57.339 33.333 15.74 15.74 43.91 3.02
1937 2005 7.736031 CAAGATGCAGATTATTTGTCTTGTG 57.264 36.000 11.11 0.00 37.42 3.33
2012 2081 5.456822 GCTTTTTAGCCTGATATTTTCTGCG 59.543 40.000 0.00 0.00 0.00 5.18
2037 2106 7.016153 AGTTCTTTTCCCACATACTGTATCA 57.984 36.000 0.00 0.00 0.00 2.15
2107 2176 9.239002 CTCAGACCTAAAATAATGTAGAAGTCG 57.761 37.037 0.00 0.00 0.00 4.18
2195 2638 8.904099 ACTTTGAACTGCTGTTAGTTACTTAT 57.096 30.769 9.14 0.00 40.78 1.73
2230 2673 5.828747 TCTTCTACCGACATATAAGTGCAC 58.171 41.667 9.40 9.40 0.00 4.57
2234 2677 3.184541 ACCGACATATAAGTGCACGTTC 58.815 45.455 11.38 0.75 0.00 3.95
2282 2725 5.647658 CAGTTTCATCTTATTGCAGGGTGTA 59.352 40.000 0.00 0.00 0.00 2.90
2332 2775 6.092122 TGAAGTATTTCAGTGACTATTTGGCG 59.908 38.462 0.00 0.00 38.37 5.69
2667 3110 1.460497 TGTCACCACCAGCCCTACA 60.460 57.895 0.00 0.00 0.00 2.74
2791 3235 4.539152 GCATTGTGCAAGTGTCCG 57.461 55.556 0.00 0.00 44.26 4.79
2803 3247 3.251004 GCAAGTGTCCGAAATCTCTTGTT 59.749 43.478 0.00 0.00 37.43 2.83
2872 3316 4.751098 GTGGTCCAACGTAAATGTGAAGTA 59.249 41.667 0.00 0.00 0.00 2.24
2892 3336 9.942850 TGAAGTATGACATAAGAGAAAACATCA 57.057 29.630 0.00 0.00 0.00 3.07
2922 3366 6.092944 ACAATTCCAGTATTTCACGCGATTAA 59.907 34.615 15.93 3.23 0.00 1.40
2985 3429 9.282247 GTAGCATTTTTACATGTCAAGATGAAG 57.718 33.333 21.31 2.44 0.00 3.02
2993 3437 5.243981 ACATGTCAAGATGAAGAACTCTGG 58.756 41.667 0.00 0.00 0.00 3.86
3004 3448 1.494721 AGAACTCTGGTTTGCCTTGGA 59.505 47.619 0.00 0.00 35.58 3.53
3118 3565 8.246180 AGAAACATCATGGCTAAACATTAACAG 58.754 33.333 0.00 0.00 0.00 3.16
3119 3566 7.701539 AACATCATGGCTAAACATTAACAGA 57.298 32.000 0.00 0.00 0.00 3.41
3144 3591 8.463930 AGACATACATAACAATAAACCATGGG 57.536 34.615 18.09 0.00 0.00 4.00
3148 3595 9.126151 CATACATAACAATAAACCATGGGTACA 57.874 33.333 18.09 0.78 33.12 2.90
3155 3602 2.178912 AACCATGGGTACACACTTCG 57.821 50.000 18.09 0.00 33.12 3.79
3157 3604 0.611200 CCATGGGTACACACTTCGGA 59.389 55.000 0.00 0.00 0.00 4.55
3215 3663 6.458751 GCAGGTTCACACATGATTTCGATAAT 60.459 38.462 0.00 0.00 36.79 1.28
3236 3684 3.061322 TGGTTTACGACATCAGTTTCGG 58.939 45.455 0.00 0.00 39.63 4.30
3241 3689 2.132762 ACGACATCAGTTTCGGAACAC 58.867 47.619 9.76 0.00 39.63 3.32
3242 3690 2.131972 CGACATCAGTTTCGGAACACA 58.868 47.619 9.76 0.00 38.26 3.72
3354 3802 6.128172 CCCTTGCTATGTCAAGTAAAAGTGAG 60.128 42.308 7.65 0.00 41.29 3.51
3415 3863 0.802222 GCTGTCGCGCTATGTTGAGA 60.802 55.000 5.56 0.00 0.00 3.27
3420 3868 3.435327 TGTCGCGCTATGTTGAGAAAAAT 59.565 39.130 5.56 0.00 0.00 1.82
3421 3869 4.083537 TGTCGCGCTATGTTGAGAAAAATT 60.084 37.500 5.56 0.00 0.00 1.82
3422 3870 4.851558 GTCGCGCTATGTTGAGAAAAATTT 59.148 37.500 5.56 0.00 0.00 1.82
3434 3883 9.015577 TGTTGAGAAAAATTTATTGACGTTGTC 57.984 29.630 0.00 0.00 0.00 3.18
3456 3905 8.408043 TGTCTGTTGACCAATTTGATTAGAAT 57.592 30.769 0.00 0.00 42.28 2.40
3460 3909 9.177608 CTGTTGACCAATTTGATTAGAATCCTA 57.822 33.333 0.00 0.00 34.50 2.94
3476 3926 6.779860 AGAATCCTAGCAAAGGTTTGAAGTA 58.220 36.000 6.63 0.00 46.62 2.24
3584 4036 2.796593 GCATAAATGGAAAATGCTCGCC 59.203 45.455 0.00 0.00 42.15 5.54
3597 4049 4.607293 ATGCTCGCCTGACATCTATTTA 57.393 40.909 0.00 0.00 0.00 1.40
3613 4065 9.606631 ACATCTATTTAGGAAATTCACAGAGAC 57.393 33.333 0.00 0.00 32.38 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 4.048504 GCAATTATTCATACGGTTTGGCC 58.951 43.478 0.00 0.00 0.00 5.36
72 73 4.677584 TGCAATTATTCATACGGTTTGGC 58.322 39.130 0.00 0.00 0.00 4.52
80 81 8.545420 CATTTCCTTTGCTGCAATTATTCATAC 58.455 33.333 16.77 0.00 0.00 2.39
109 110 6.485171 AGGAAGTGTATTTACTGGCATCTTT 58.515 36.000 0.00 0.00 0.00 2.52
125 126 5.305644 AGTTGATGTTCAGTCTAGGAAGTGT 59.694 40.000 0.00 0.00 0.00 3.55
170 171 4.466370 CACTAGATAGTTTCAGTGGGACCA 59.534 45.833 0.00 0.00 35.77 4.02
222 223 6.010850 AGATGTAGGAAGCGGAAGATACATA 58.989 40.000 0.00 0.00 34.81 2.29
223 224 4.835615 AGATGTAGGAAGCGGAAGATACAT 59.164 41.667 0.00 0.00 36.75 2.29
241 242 4.768968 CCTTTTGGAACCTCATCAAGATGT 59.231 41.667 9.66 0.00 44.07 3.06
243 244 5.003096 ACCTTTTGGAACCTCATCAAGAT 57.997 39.130 0.00 0.00 44.07 2.40
286 287 2.286713 TGAGGTTTTGTGCGATTCGTTG 60.287 45.455 8.03 0.00 0.00 4.10
294 295 2.541588 CCAAAGTCTGAGGTTTTGTGCG 60.542 50.000 8.15 0.00 31.55 5.34
418 421 8.803397 ACTAGATTACTGGAATAAACCCAAAC 57.197 34.615 0.00 0.00 32.53 2.93
577 581 8.604184 TGTATAAGGGGTTACACTTTATGTTGA 58.396 33.333 11.50 0.00 43.19 3.18
636 640 5.827267 TCATCAATTGAACAGGAGTCACAAA 59.173 36.000 13.09 0.00 31.45 2.83
639 643 6.404074 GGAATCATCAATTGAACAGGAGTCAC 60.404 42.308 13.09 7.33 38.03 3.67
667 672 8.975439 ATACAAGAGTAACAACTTTCACGTAAG 58.025 33.333 0.00 0.00 37.25 2.34
686 691 4.093743 TGGCACACCTAGAGAATACAAGA 58.906 43.478 0.00 0.00 36.63 3.02
690 695 4.816925 GGATTTGGCACACCTAGAGAATAC 59.183 45.833 0.00 0.00 39.29 1.89
700 705 0.318120 CTGTTGGGATTTGGCACACC 59.682 55.000 0.00 0.00 39.29 4.16
701 706 1.327303 TCTGTTGGGATTTGGCACAC 58.673 50.000 0.00 0.00 39.29 3.82
712 717 7.829725 TCATTTTCTGTCAATTATCTGTTGGG 58.170 34.615 0.00 0.00 0.00 4.12
718 723 9.399797 TGCTACATCATTTTCTGTCAATTATCT 57.600 29.630 0.00 0.00 0.00 1.98
730 735 8.192774 TCAATCCTCAAATGCTACATCATTTTC 58.807 33.333 0.00 0.00 42.21 2.29
743 748 4.999311 TGTCTCAGTGTCAATCCTCAAATG 59.001 41.667 0.00 0.00 0.00 2.32
751 756 2.159234 GCTGCTTGTCTCAGTGTCAATC 59.841 50.000 0.00 0.00 34.21 2.67
756 761 1.443407 ACGCTGCTTGTCTCAGTGT 59.557 52.632 3.66 3.66 46.71 3.55
759 764 0.389037 TGCTACGCTGCTTGTCTCAG 60.389 55.000 0.00 0.00 34.79 3.35
760 765 0.389037 CTGCTACGCTGCTTGTCTCA 60.389 55.000 0.00 0.00 0.00 3.27
820 825 1.303236 TGTCATTTGTGGGGGCGAG 60.303 57.895 0.00 0.00 0.00 5.03
843 848 2.705658 AGTGGAATCCAGTGAGTGACAA 59.294 45.455 9.15 0.00 35.61 3.18
892 897 3.319122 GGAGCAGTCAGTGTTGGAATTTT 59.681 43.478 0.00 0.00 0.00 1.82
913 918 0.607489 CTTGCTTGGGAGTGAGTGGG 60.607 60.000 0.00 0.00 0.00 4.61
916 921 1.490490 TGAACTTGCTTGGGAGTGAGT 59.510 47.619 0.00 0.00 0.00 3.41
929 934 6.201615 GGCTTTTGATCCTTTTCTTGAACTTG 59.798 38.462 0.00 0.00 0.00 3.16
973 1041 0.394938 TTGCAACTTGTAGGCGGAGA 59.605 50.000 0.00 0.00 0.00 3.71
978 1046 7.707104 ACATATAAATCTTGCAACTTGTAGGC 58.293 34.615 0.00 0.00 0.00 3.93
1032 1100 2.431454 CTTCCAGCTTCCTTCTCCAAC 58.569 52.381 0.00 0.00 0.00 3.77
1041 1109 2.278332 AACTTGTCCTTCCAGCTTCC 57.722 50.000 0.00 0.00 0.00 3.46
1055 1123 0.609662 CCTGGCCCATGGAAAACTTG 59.390 55.000 15.22 0.00 0.00 3.16
1107 1175 1.869767 GCATCAGCACAGCAGTATACC 59.130 52.381 0.00 0.00 41.58 2.73
1580 1648 0.956633 CCTGTTCTGCACATGCTGTT 59.043 50.000 5.31 0.00 42.66 3.16
1581 1649 0.179009 ACCTGTTCTGCACATGCTGT 60.179 50.000 5.31 0.00 42.66 4.40
1582 1650 1.466167 GTACCTGTTCTGCACATGCTG 59.534 52.381 5.31 4.87 42.66 4.41
1772 1840 4.383774 TCGCCGAATGATAATTTAAGCG 57.616 40.909 8.13 8.13 42.20 4.68
1931 1999 4.656112 AGAAAAGAGGAAGGAGACACAAGA 59.344 41.667 0.00 0.00 0.00 3.02
1934 2002 4.227197 AGAGAAAAGAGGAAGGAGACACA 58.773 43.478 0.00 0.00 0.00 3.72
1935 2003 4.526650 AGAGAGAAAAGAGGAAGGAGACAC 59.473 45.833 0.00 0.00 0.00 3.67
1937 2005 5.480422 AGAAGAGAGAAAAGAGGAAGGAGAC 59.520 44.000 0.00 0.00 0.00 3.36
1972 2041 5.770685 AAAAAGCCTGACCTAGAAGATCT 57.229 39.130 0.00 0.00 0.00 2.75
2195 2638 4.158025 GTCGGTAGAAGAGTTTGAGATCCA 59.842 45.833 0.00 0.00 0.00 3.41
2209 2652 4.096833 ACGTGCACTTATATGTCGGTAGAA 59.903 41.667 16.19 0.00 0.00 2.10
2282 2725 7.944729 ATAATATGAGAAGTGCTGGTTTTGT 57.055 32.000 0.00 0.00 0.00 2.83
2478 2921 0.980231 GGCCTCTCTGTCCATGGAGT 60.980 60.000 16.81 0.00 0.00 3.85
2590 3033 1.215655 CGAATCGACCCTTGATCCGC 61.216 60.000 0.00 0.00 0.00 5.54
2691 3134 5.922053 TCTCATTACATCAGAACCATGGAG 58.078 41.667 21.47 5.31 0.00 3.86
2752 3195 3.059868 CACGAACCATATGATTACGGTGC 60.060 47.826 3.65 0.00 0.00 5.01
2818 3262 6.857437 TTTGTCTTCATATGGTCTCAGAGA 57.143 37.500 2.13 0.00 0.00 3.10
2872 3316 9.683069 GTTGTTTGATGTTTTCTCTTATGTCAT 57.317 29.630 0.00 0.00 0.00 3.06
2892 3336 5.689961 GCGTGAAATACTGGAATTGTTGTTT 59.310 36.000 0.00 0.00 0.00 2.83
2922 3366 4.900635 CAACCTTTGTTGCTACTCTTGT 57.099 40.909 0.00 0.00 44.86 3.16
2985 3429 1.981256 TCCAAGGCAAACCAGAGTTC 58.019 50.000 0.00 0.00 39.06 3.01
2993 3437 4.747810 CTCCATGTTTATCCAAGGCAAAC 58.252 43.478 8.39 8.39 33.70 2.93
3051 3498 7.443575 GCAGATCACTGATATTGGAACTATGTT 59.556 37.037 0.00 0.00 46.03 2.71
3058 3505 4.502087 CCTCGCAGATCACTGATATTGGAA 60.502 45.833 0.00 0.00 46.03 3.53
3118 3565 8.567948 CCCATGGTTTATTGTTATGTATGTCTC 58.432 37.037 11.73 0.00 0.00 3.36
3119 3566 8.058847 ACCCATGGTTTATTGTTATGTATGTCT 58.941 33.333 11.73 0.00 27.29 3.41
3144 3591 8.699283 AGTAATTATTCTTCCGAAGTGTGTAC 57.301 34.615 8.01 5.17 31.60 2.90
3203 3651 7.492994 TGATGTCGTAAACCATTATCGAAATCA 59.507 33.333 12.57 12.57 41.09 2.57
3204 3652 7.847487 TGATGTCGTAAACCATTATCGAAATC 58.153 34.615 8.48 8.48 38.32 2.17
3215 3663 3.061322 CCGAAACTGATGTCGTAAACCA 58.939 45.455 0.00 0.00 35.48 3.67
3236 3684 1.388547 TCTGGTGCCTTTGTGTGTTC 58.611 50.000 0.00 0.00 0.00 3.18
3241 3689 2.507484 TCTCATTCTGGTGCCTTTGTG 58.493 47.619 0.00 0.00 0.00 3.33
3242 3690 2.957402 TCTCATTCTGGTGCCTTTGT 57.043 45.000 0.00 0.00 0.00 2.83
3415 3863 8.803799 GTCAACAGACAACGTCAATAAATTTTT 58.196 29.630 0.00 0.00 34.60 1.94
3420 3868 4.876679 TGGTCAACAGACAACGTCAATAAA 59.123 37.500 0.00 0.00 34.60 1.40
3421 3869 4.443621 TGGTCAACAGACAACGTCAATAA 58.556 39.130 0.00 0.00 34.60 1.40
3422 3870 4.061357 TGGTCAACAGACAACGTCAATA 57.939 40.909 0.00 0.00 34.60 1.90
3434 3883 8.059798 AGGATTCTAATCAAATTGGTCAACAG 57.940 34.615 5.15 0.00 37.15 3.16
3460 3909 4.524328 CCCTTCATACTTCAAACCTTTGCT 59.476 41.667 0.00 0.00 38.05 3.91
3467 3916 5.429130 CCTCTACCCCTTCATACTTCAAAC 58.571 45.833 0.00 0.00 0.00 2.93
3476 3926 2.503869 ATCTGCCTCTACCCCTTCAT 57.496 50.000 0.00 0.00 0.00 2.57
3584 4036 9.605275 TCTGTGAATTTCCTAAATAGATGTCAG 57.395 33.333 0.00 0.00 0.00 3.51
3597 4049 2.900546 AGTCCGTCTCTGTGAATTTCCT 59.099 45.455 0.00 0.00 0.00 3.36
3613 4065 2.724977 TGTTCTGTTCTGCTAGTCCG 57.275 50.000 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.