Multiple sequence alignment - TraesCS2B01G016800

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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 TraesCS2B01G016800 chr2B 100.000 3820 0 0 1 3820 7817165 7813346 0.000000e+00 7055.0
1 TraesCS2B01G016800 chr2B 96.271 2306 80 2 839 3144 8252168 8249869 0.000000e+00 3777.0
2 TraesCS2B01G016800 chr2B 98.233 679 4 2 3142 3820 8249448 8248778 0.000000e+00 1181.0
3 TraesCS2B01G016800 chr2B 92.039 716 35 4 160 853 8252939 8252224 0.000000e+00 987.0
4 TraesCS2B01G016800 chr2B 86.769 718 70 15 3123 3820 772979657 772980369 0.000000e+00 776.0
5 TraesCS2B01G016800 chr2B 83.293 820 123 10 2167 2974 7644443 7645260 0.000000e+00 743.0
6 TraesCS2B01G016800 chr2B 78.812 892 164 17 1011 1900 7565646 7566514 9.200000e-161 577.0
7 TraesCS2B01G016800 chr2B 78.250 823 165 12 1122 1936 6875124 6875940 2.030000e-142 516.0
8 TraesCS2B01G016800 chr2B 78.250 823 165 12 1122 1936 6961082 6961898 2.030000e-142 516.0
9 TraesCS2B01G016800 chr2B 86.461 421 39 14 3128 3536 9107198 9107612 2.710000e-121 446.0
10 TraesCS2B01G016800 chr2B 96.094 128 5 0 1 128 8253064 8252937 3.870000e-50 209.0
11 TraesCS2B01G016800 chr2B 87.805 82 6 3 770 847 354080810 354080891 4.060000e-15 93.5
12 TraesCS2B01G016800 chr2B 85.567 97 5 8 753 840 726552115 726552211 4.060000e-15 93.5
13 TraesCS2B01G016800 chr2D 91.732 2177 136 22 959 3128 2876326 2874187 0.000000e+00 2983.0
14 TraesCS2B01G016800 chr2D 83.780 820 125 6 2173 2984 3081320 3080501 0.000000e+00 771.0
15 TraesCS2B01G016800 chr2D 87.687 601 65 7 3226 3820 630008556 630009153 0.000000e+00 691.0
16 TraesCS2B01G016800 chr2D 80.342 819 142 15 1124 1928 3084628 3083815 1.520000e-168 603.0
17 TraesCS2B01G016800 chr2D 79.306 807 152 11 1122 1928 3035641 3034850 5.580000e-153 551.0
18 TraesCS2B01G016800 chr3B 79.484 853 159 8 1098 1949 796839412 796838575 3.290000e-165 592.0
19 TraesCS2B01G016800 chr2A 82.138 683 116 4 1123 1805 2655919 2656595 7.110000e-162 580.0
20 TraesCS2B01G016800 chr2A 86.269 386 46 6 3406 3787 2897772 2897390 2.750000e-111 412.0
21 TraesCS2B01G016800 chr2A 85.283 265 21 7 3128 3375 2898114 2897851 1.360000e-64 257.0
22 TraesCS2B01G016800 chr2A 85.882 85 10 2 764 847 48870637 48870554 5.260000e-14 89.8
23 TraesCS2B01G016800 chrUn 85.987 471 42 16 3128 3580 15429247 15428783 2.060000e-132 483.0
24 TraesCS2B01G016800 chrUn 85.987 471 42 16 3128 3580 15586861 15586397 2.060000e-132 483.0
25 TraesCS2B01G016800 chrUn 85.987 471 42 16 3128 3580 15735025 15735489 2.060000e-132 483.0
26 TraesCS2B01G016800 chrUn 85.987 471 42 16 3128 3580 274168497 274168033 2.060000e-132 483.0
27 TraesCS2B01G016800 chrUn 87.328 363 30 8 3128 3475 273908771 273909132 5.940000e-108 401.0
28 TraesCS2B01G016800 chrUn 76.136 792 158 24 1122 1905 24012943 24013711 1.660000e-103 387.0
29 TraesCS2B01G016800 chrUn 79.487 429 61 12 3128 3529 15603209 15602781 2.910000e-71 279.0
30 TraesCS2B01G016800 chrUn 83.193 119 9 2 3128 3235 431964760 431964878 8.730000e-17 99.0
31 TraesCS2B01G016800 chr4B 89.024 82 6 3 768 846 172508804 172508723 8.730000e-17 99.0
32 TraesCS2B01G016800 chr5A 88.750 80 7 2 763 840 4610130 4610209 3.140000e-16 97.1
33 TraesCS2B01G016800 chr4A 87.805 82 6 4 763 840 18683307 18683388 4.060000e-15 93.5
34 TraesCS2B01G016800 chr4A 92.308 39 3 0 641 679 128339613 128339651 5.330000e-04 56.5
35 TraesCS2B01G016800 chr3D 88.312 77 7 2 767 841 105212659 105212735 1.460000e-14 91.6
36 TraesCS2B01G016800 chr1D 88.000 75 7 2 768 841 433912605 433912678 1.890000e-13 87.9
37 TraesCS2B01G016800 chr5D 83.333 96 11 4 757 847 480427571 480427666 2.450000e-12 84.2


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 TraesCS2B01G016800 chr2B 7813346 7817165 3819 True 7055.0 7055 100.00000 1 3820 1 chr2B.!!$R1 3819
1 TraesCS2B01G016800 chr2B 8248778 8253064 4286 True 1538.5 3777 95.65925 1 3820 4 chr2B.!!$R2 3819
2 TraesCS2B01G016800 chr2B 772979657 772980369 712 False 776.0 776 86.76900 3123 3820 1 chr2B.!!$F8 697
3 TraesCS2B01G016800 chr2B 7644443 7645260 817 False 743.0 743 83.29300 2167 2974 1 chr2B.!!$F4 807
4 TraesCS2B01G016800 chr2B 7565646 7566514 868 False 577.0 577 78.81200 1011 1900 1 chr2B.!!$F3 889
5 TraesCS2B01G016800 chr2B 6875124 6875940 816 False 516.0 516 78.25000 1122 1936 1 chr2B.!!$F1 814
6 TraesCS2B01G016800 chr2B 6961082 6961898 816 False 516.0 516 78.25000 1122 1936 1 chr2B.!!$F2 814
7 TraesCS2B01G016800 chr2D 2874187 2876326 2139 True 2983.0 2983 91.73200 959 3128 1 chr2D.!!$R1 2169
8 TraesCS2B01G016800 chr2D 630008556 630009153 597 False 691.0 691 87.68700 3226 3820 1 chr2D.!!$F1 594
9 TraesCS2B01G016800 chr2D 3080501 3084628 4127 True 687.0 771 82.06100 1124 2984 2 chr2D.!!$R3 1860
10 TraesCS2B01G016800 chr2D 3034850 3035641 791 True 551.0 551 79.30600 1122 1928 1 chr2D.!!$R2 806
11 TraesCS2B01G016800 chr3B 796838575 796839412 837 True 592.0 592 79.48400 1098 1949 1 chr3B.!!$R1 851
12 TraesCS2B01G016800 chr2A 2655919 2656595 676 False 580.0 580 82.13800 1123 1805 1 chr2A.!!$F1 682
13 TraesCS2B01G016800 chr2A 2897390 2898114 724 True 334.5 412 85.77600 3128 3787 2 chr2A.!!$R2 659
14 TraesCS2B01G016800 chrUn 24012943 24013711 768 False 387.0 387 76.13600 1122 1905 1 chrUn.!!$F2 783

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
936 1029 0.036164 ACCGTCAATGGCTAACAGCA 59.964 50.000 0.00 0.0 44.75 4.41 F
1665 1777 0.611618 TTGTGATGATGGGCGGCTTT 60.612 50.000 9.56 0.0 0.00 3.51 F
1749 1861 0.613260 TGAAGAATAGCTGTGGCCGT 59.387 50.000 0.00 0.0 39.73 5.68 F
2054 4518 1.530720 CGCAGTGCACATGTTGTTCTA 59.469 47.619 21.04 0.0 0.00 2.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2243 4711 0.095935 CTGGATTTCGCACAAGCTCG 59.904 55.000 0.00 0.0 39.10 5.03 R
2699 5167 1.690219 ATGAAGTGAGGCTAGCCCCG 61.690 60.000 30.42 0.0 36.58 5.73 R
2814 5282 2.766313 TGCAAGCTTCGTACATCACTT 58.234 42.857 0.00 0.0 0.00 3.16 R
2858 5336 3.073678 GTGACACCATTGACATGTGCTA 58.926 45.455 1.15 0.0 29.96 3.49 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
27 28 6.763610 CCTCGGTTGAAGAAGCTAAGATAATT 59.236 38.462 0.00 0.00 0.00 1.40
99 100 5.500645 AAGAAACTTTACTTGTGTCCTGC 57.499 39.130 0.00 0.00 0.00 4.85
125 126 6.266558 ACAGGTCTAGACAGGATCAATATCAC 59.733 42.308 23.91 1.87 33.41 3.06
126 127 6.493115 CAGGTCTAGACAGGATCAATATCACT 59.507 42.308 23.91 4.17 33.41 3.41
127 128 7.667635 CAGGTCTAGACAGGATCAATATCACTA 59.332 40.741 23.91 0.00 33.41 2.74
128 129 7.888021 AGGTCTAGACAGGATCAATATCACTAG 59.112 40.741 23.91 0.00 33.41 2.57
129 130 7.362574 GGTCTAGACAGGATCAATATCACTAGC 60.363 44.444 23.91 0.00 33.41 3.42
130 131 5.736951 AGACAGGATCAATATCACTAGCC 57.263 43.478 0.00 0.00 33.41 3.93
131 132 5.401750 AGACAGGATCAATATCACTAGCCT 58.598 41.667 0.00 0.00 33.41 4.58
132 133 5.843421 AGACAGGATCAATATCACTAGCCTT 59.157 40.000 0.00 0.00 33.41 4.35
133 134 5.862845 ACAGGATCAATATCACTAGCCTTG 58.137 41.667 0.00 0.00 33.41 3.61
134 135 4.694509 CAGGATCAATATCACTAGCCTTGC 59.305 45.833 0.00 0.00 33.41 4.01
135 136 4.596643 AGGATCAATATCACTAGCCTTGCT 59.403 41.667 0.00 0.00 36.93 3.91
136 137 5.782331 AGGATCAATATCACTAGCCTTGCTA 59.218 40.000 0.00 0.00 35.48 3.49
137 138 5.872070 GGATCAATATCACTAGCCTTGCTAC 59.128 44.000 0.00 0.00 35.48 3.58
138 139 6.295575 GGATCAATATCACTAGCCTTGCTACT 60.296 42.308 0.00 0.00 35.48 2.57
139 140 5.847304 TCAATATCACTAGCCTTGCTACTG 58.153 41.667 0.00 0.00 40.44 2.74
140 141 5.363868 TCAATATCACTAGCCTTGCTACTGT 59.636 40.000 0.00 0.00 40.44 3.55
141 142 6.549736 TCAATATCACTAGCCTTGCTACTGTA 59.450 38.462 0.00 0.00 40.44 2.74
142 143 7.233553 TCAATATCACTAGCCTTGCTACTGTAT 59.766 37.037 0.00 0.00 40.44 2.29
143 144 4.655762 TCACTAGCCTTGCTACTGTATG 57.344 45.455 0.00 0.00 40.44 2.39
144 145 3.384789 TCACTAGCCTTGCTACTGTATGG 59.615 47.826 0.00 0.00 40.44 2.74
145 146 3.384789 CACTAGCCTTGCTACTGTATGGA 59.615 47.826 0.00 0.00 40.44 3.41
146 147 4.039730 CACTAGCCTTGCTACTGTATGGAT 59.960 45.833 0.00 0.00 40.44 3.41
147 148 3.482156 AGCCTTGCTACTGTATGGATG 57.518 47.619 0.00 0.00 36.99 3.51
148 149 2.774234 AGCCTTGCTACTGTATGGATGT 59.226 45.455 0.00 0.00 36.99 3.06
149 150 3.200825 AGCCTTGCTACTGTATGGATGTT 59.799 43.478 0.00 0.00 36.99 2.71
150 151 4.408921 AGCCTTGCTACTGTATGGATGTTA 59.591 41.667 0.00 0.00 36.99 2.41
151 152 5.072329 AGCCTTGCTACTGTATGGATGTTAT 59.928 40.000 0.00 0.00 36.99 1.89
152 153 5.409826 GCCTTGCTACTGTATGGATGTTATC 59.590 44.000 0.00 0.00 0.00 1.75
153 154 6.742644 GCCTTGCTACTGTATGGATGTTATCT 60.743 42.308 0.00 0.00 0.00 1.98
154 155 7.525526 GCCTTGCTACTGTATGGATGTTATCTA 60.526 40.741 0.00 0.00 0.00 1.98
155 156 8.535335 CCTTGCTACTGTATGGATGTTATCTAT 58.465 37.037 0.00 0.00 34.64 1.98
323 324 2.568623 AATCCACGCTTCCTTCAACT 57.431 45.000 0.00 0.00 0.00 3.16
360 361 3.386486 TGTTTTGGACTGCAGTAGTACG 58.614 45.455 21.73 0.00 43.73 3.67
378 379 5.290386 AGTACGTAGCATATGAAAAGAGGC 58.710 41.667 6.97 0.00 0.00 4.70
395 396 6.716934 AAGAGGCTCAATCTTATCGTTCTA 57.283 37.500 18.26 0.00 35.26 2.10
480 481 1.413767 CTCGTCGTCCCAATCAAGCG 61.414 60.000 0.00 0.00 0.00 4.68
482 483 1.413767 CGTCGTCCCAATCAAGCGAG 61.414 60.000 0.00 0.00 32.07 5.03
515 520 1.226802 CTGATGTCAGTCTCGGCCG 60.227 63.158 22.12 22.12 39.09 6.13
584 589 4.419984 TCATATGATAGCTAGGGGGTGT 57.580 45.455 0.00 0.00 0.00 4.16
628 633 3.495001 GGGTATAGCGTGCTGAGAATTTC 59.505 47.826 4.25 0.00 0.00 2.17
725 730 8.936070 ATATTTTAAGGCCGGTGTTAATTTTC 57.064 30.769 1.90 0.00 0.00 2.29
733 738 5.066764 GGCCGGTGTTAATTTTCTTATAGCA 59.933 40.000 1.90 0.00 0.00 3.49
735 740 6.403855 GCCGGTGTTAATTTTCTTATAGCACA 60.404 38.462 1.90 0.00 33.89 4.57
767 772 5.886960 AAGCAGATTTCACTACAATGTCC 57.113 39.130 0.00 0.00 0.00 4.02
773 778 4.553330 TTTCACTACAATGTCCTCCCTC 57.447 45.455 0.00 0.00 0.00 4.30
774 779 3.474798 TCACTACAATGTCCTCCCTCT 57.525 47.619 0.00 0.00 0.00 3.69
777 782 3.100671 ACTACAATGTCCTCCCTCTGTC 58.899 50.000 0.00 0.00 0.00 3.51
779 784 1.279496 CAATGTCCTCCCTCTGTCCA 58.721 55.000 0.00 0.00 0.00 4.02
781 786 1.504912 ATGTCCTCCCTCTGTCCATG 58.495 55.000 0.00 0.00 0.00 3.66
801 806 8.854117 GTCCATGATATAAGAGCCTTTTTGAAT 58.146 33.333 0.00 0.00 0.00 2.57
803 808 9.075678 CCATGATATAAGAGCCTTTTTGAATCT 57.924 33.333 0.00 0.00 0.00 2.40
865 958 8.104566 AGAATATACTGCTAGTAGGTGGAGTAG 58.895 40.741 12.78 0.00 39.69 2.57
870 963 4.462133 TGCTAGTAGGTGGAGTAGATGAC 58.538 47.826 0.00 0.00 0.00 3.06
935 1028 0.727398 GACCGTCAATGGCTAACAGC 59.273 55.000 0.00 0.00 41.46 4.40
936 1029 0.036164 ACCGTCAATGGCTAACAGCA 59.964 50.000 0.00 0.00 44.75 4.41
1041 1135 1.515521 GGCTACGCTTGTGCTTGGTT 61.516 55.000 0.00 0.00 36.97 3.67
1312 1406 3.322541 TGTTATGAAGACCAACGACCTCA 59.677 43.478 0.00 0.00 0.00 3.86
1347 1441 2.507102 CAGAGCGCGACGTTGGAT 60.507 61.111 12.10 0.00 0.00 3.41
1387 1481 2.742116 GGGATCGCCTTAGCACCCA 61.742 63.158 0.00 0.00 42.47 4.51
1511 1617 2.001361 CTCCTCCGTTACATCGCCGT 62.001 60.000 0.00 0.00 0.00 5.68
1665 1777 0.611618 TTGTGATGATGGGCGGCTTT 60.612 50.000 9.56 0.00 0.00 3.51
1749 1861 0.613260 TGAAGAATAGCTGTGGCCGT 59.387 50.000 0.00 0.00 39.73 5.68
1841 1971 3.733960 CGACGACGAGGACCTGCA 61.734 66.667 0.00 0.00 42.66 4.41
1842 1972 2.649034 GACGACGAGGACCTGCAA 59.351 61.111 0.00 0.00 0.00 4.08
2031 4495 6.152661 GTGGAACCATGAATGAATTAGGACAA 59.847 38.462 0.00 0.00 0.00 3.18
2040 4504 4.944962 TGAATTAGGACAAATCGCAGTG 57.055 40.909 0.00 0.00 0.00 3.66
2054 4518 1.530720 CGCAGTGCACATGTTGTTCTA 59.469 47.619 21.04 0.00 0.00 2.10
2127 4591 6.583427 TGCATCTTTGAATCATTAATATGCGC 59.417 34.615 0.00 0.00 39.94 6.09
2128 4592 6.034256 GCATCTTTGAATCATTAATATGCGCC 59.966 38.462 4.18 0.00 0.00 6.53
2285 4753 4.989279 AATTATGGCTAAGGCACAACAG 57.011 40.909 0.00 0.00 41.84 3.16
2317 4785 2.041891 AGGTGCTAGGTGTAGACAGAGT 59.958 50.000 0.00 0.00 0.00 3.24
2375 4843 2.093500 CACGGAGATGGTCATCAAGGAA 60.093 50.000 12.75 0.00 40.22 3.36
2699 5167 2.440539 TCGACTGGAAGCTTCTTGAC 57.559 50.000 25.05 16.14 37.60 3.18
2753 5221 5.180492 CGAGAAATTTGGGCTTACACTACAA 59.820 40.000 0.00 0.00 0.00 2.41
2814 5282 1.271108 TGTCCAAAGCTACGCCATTGA 60.271 47.619 0.00 0.00 30.72 2.57
2858 5336 3.343941 TCGCCTATTACCTGCACTTTT 57.656 42.857 0.00 0.00 0.00 2.27
3064 5545 7.925993 TGAACTTTGGTTTAACACATCTACTG 58.074 34.615 0.00 0.00 35.58 2.74
3105 5586 5.468592 TGTGATTCGTTTGGAATGGATTTG 58.531 37.500 0.00 0.00 45.33 2.32
3352 6294 8.046708 TGAATTGCAGTCACCTAACTAATACAT 58.953 33.333 0.00 0.00 0.00 2.29
3802 6779 5.615544 GCACAGATATTAACTATGCTTGCCG 60.616 44.000 0.00 0.00 35.31 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.778470 AATTATCTTAGCTTCTTCAACCGAG 57.222 36.000 0.00 0.00 0.00 4.63
27 28 5.925506 TCTGTCCGGTGATTTACAGATTA 57.074 39.130 15.36 0.00 42.46 1.75
42 43 5.643777 AGGACTTATCATTGTTTTCTGTCCG 59.356 40.000 0.00 0.00 44.14 4.79
99 100 6.266330 TGATATTGATCCTGTCTAGACCTGTG 59.734 42.308 20.11 7.69 0.00 3.66
125 126 4.039730 ACATCCATACAGTAGCAAGGCTAG 59.960 45.833 0.00 0.00 42.11 3.42
126 127 3.967326 ACATCCATACAGTAGCAAGGCTA 59.033 43.478 0.00 0.00 40.44 3.93
127 128 2.774234 ACATCCATACAGTAGCAAGGCT 59.226 45.455 0.00 0.00 43.41 4.58
128 129 3.199880 ACATCCATACAGTAGCAAGGC 57.800 47.619 0.00 0.00 0.00 4.35
129 130 6.763355 AGATAACATCCATACAGTAGCAAGG 58.237 40.000 0.00 0.00 0.00 3.61
226 227 6.787085 AAAGTGAAACACATAGCTGTAGAC 57.213 37.500 0.00 0.00 41.43 2.59
341 342 3.738830 ACGTACTACTGCAGTCCAAAA 57.261 42.857 25.56 4.02 38.80 2.44
360 361 6.709846 AGATTGAGCCTCTTTTCATATGCTAC 59.290 38.462 0.00 0.00 0.00 3.58
378 379 8.467402 AACAACTGTAGAACGATAAGATTGAG 57.533 34.615 0.00 0.00 0.00 3.02
395 396 5.772825 AATAGCACACATCAAACAACTGT 57.227 34.783 0.00 0.00 0.00 3.55
480 481 6.211584 TGACATCAGGGAGGTATAATAAGCTC 59.788 42.308 0.00 0.00 42.10 4.09
482 483 6.360370 TGACATCAGGGAGGTATAATAAGC 57.640 41.667 0.00 0.00 0.00 3.09
515 520 6.421377 TGTGTTGTCTGTATGTCATTATGC 57.579 37.500 0.00 0.00 0.00 3.14
561 566 5.353986 ACACCCCCTAGCTATCATATGAAT 58.646 41.667 9.99 1.44 0.00 2.57
563 568 4.419984 ACACCCCCTAGCTATCATATGA 57.580 45.455 8.10 8.10 0.00 2.15
600 605 0.666913 AGCACGCTATACCCGTACTG 59.333 55.000 0.00 0.00 37.12 2.74
606 611 2.821991 ATTCTCAGCACGCTATACCC 57.178 50.000 0.00 0.00 0.00 3.69
636 641 9.182214 AGTGAGACATTATGCACTGATTTATTT 57.818 29.630 3.76 0.00 39.88 1.40
655 660 7.113684 CACGCTATAACTTGCTATTAGTGAGAC 59.886 40.741 0.00 0.00 0.00 3.36
692 697 8.578448 ACACCGGCCTTAAAATATACTTTTAA 57.422 30.769 0.00 10.06 34.07 1.52
705 710 7.706100 ATAAGAAAATTAACACCGGCCTTAA 57.294 32.000 0.00 3.75 0.00 1.85
712 717 7.748847 AGTGTGCTATAAGAAAATTAACACCG 58.251 34.615 0.00 0.00 36.84 4.94
748 753 4.878397 GGGAGGACATTGTAGTGAAATCTG 59.122 45.833 0.00 0.00 0.00 2.90
764 769 1.799933 ATCATGGACAGAGGGAGGAC 58.200 55.000 0.00 0.00 0.00 3.85
767 772 5.105392 GCTCTTATATCATGGACAGAGGGAG 60.105 48.000 0.00 0.00 0.00 4.30
773 778 7.500227 TCAAAAAGGCTCTTATATCATGGACAG 59.500 37.037 0.00 0.00 0.00 3.51
774 779 7.345691 TCAAAAAGGCTCTTATATCATGGACA 58.654 34.615 0.00 0.00 0.00 4.02
777 782 9.075678 AGATTCAAAAAGGCTCTTATATCATGG 57.924 33.333 0.00 0.00 0.00 3.66
779 784 8.574737 GCAGATTCAAAAAGGCTCTTATATCAT 58.425 33.333 0.00 0.00 0.00 2.45
781 786 7.934457 TGCAGATTCAAAAAGGCTCTTATATC 58.066 34.615 0.00 0.00 0.00 1.63
801 806 7.231317 CCCATAATATAAGAGCCTTTTTGCAGA 59.769 37.037 0.00 0.00 0.00 4.26
803 808 7.014230 GTCCCATAATATAAGAGCCTTTTTGCA 59.986 37.037 0.00 0.00 0.00 4.08
935 1028 5.221521 CCCCCTCCATCGACATATGTATATG 60.222 48.000 8.71 14.30 44.37 1.78
936 1029 4.901849 CCCCCTCCATCGACATATGTATAT 59.098 45.833 8.71 2.43 0.00 0.86
1041 1135 2.895404 CGCTAGTAGGGTAAATAGGGCA 59.105 50.000 6.07 0.00 0.00 5.36
1347 1441 4.585526 CCGCCGCAGCCGAAGATA 62.586 66.667 0.00 0.00 36.29 1.98
1749 1861 3.133362 TGTCAGAGATGATGTGCTGCATA 59.867 43.478 5.27 2.74 38.06 3.14
1816 1931 4.731503 CTCGTCGTCGCCGTCGTT 62.732 66.667 5.34 0.00 44.09 3.85
1841 1971 2.358003 GCCTGAGCAGCACGTCTT 60.358 61.111 0.00 0.00 39.53 3.01
1842 1972 3.309506 AGCCTGAGCAGCACGTCT 61.310 61.111 0.00 0.00 43.56 4.18
1949 3671 8.362639 AGTTGGACGATAAAAAGTTCAGTAGTA 58.637 33.333 0.00 0.00 0.00 1.82
2031 4495 0.953727 ACAACATGTGCACTGCGATT 59.046 45.000 19.41 2.61 0.00 3.34
2243 4711 0.095935 CTGGATTTCGCACAAGCTCG 59.904 55.000 0.00 0.00 39.10 5.03
2285 4753 0.745468 CTAGCACCTCCCGTACTTCC 59.255 60.000 0.00 0.00 0.00 3.46
2375 4843 1.224592 CGGATGCAACCTAAGGGCT 59.775 57.895 11.65 0.00 35.63 5.19
2699 5167 1.690219 ATGAAGTGAGGCTAGCCCCG 61.690 60.000 30.42 0.00 36.58 5.73
2753 5221 5.072329 TCTGAGTTTCAGGTCATTCCTTCTT 59.928 40.000 6.27 0.00 45.67 2.52
2814 5282 2.766313 TGCAAGCTTCGTACATCACTT 58.234 42.857 0.00 0.00 0.00 3.16
2858 5336 3.073678 GTGACACCATTGACATGTGCTA 58.926 45.455 1.15 0.00 29.96 3.49
3688 6662 5.843969 TCTATTGATAGGAACATGCCACCTA 59.156 40.000 13.09 13.09 39.99 3.08


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

AutoCloner maintained by Alex Coulton.