Multiple sequence alignment - TraesCS7D01G219400

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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 TraesCS7D01G219400 chr7D 100.000 5169 0 0 1 5169 180013072 180018240 0.000000e+00 9546.0
1 TraesCS7D01G219400 chr7D 92.165 1021 72 5 1833 2846 180071703 180072722 0.000000e+00 1435.0
2 TraesCS7D01G219400 chr7D 95.411 828 38 0 3397 4224 180073376 180074203 0.000000e+00 1319.0
3 TraesCS7D01G219400 chr7D 89.828 639 43 13 4207 4838 180074321 180074944 0.000000e+00 800.0
4 TraesCS7D01G219400 chr7D 93.082 477 30 1 1168 1641 180071041 180071517 0.000000e+00 695.0
5 TraesCS7D01G219400 chr7D 90.521 422 31 1 2914 3335 180072932 180073344 2.720000e-152 549.0
6 TraesCS7D01G219400 chr7D 84.615 325 24 11 4845 5168 180075371 180075670 3.030000e-77 300.0
7 TraesCS7D01G219400 chr7A 95.618 3674 139 10 1168 4838 184316347 184320001 0.000000e+00 5873.0
8 TraesCS7D01G219400 chr7A 89.130 1978 156 36 906 2846 184326303 184328258 0.000000e+00 2407.0
9 TraesCS7D01G219400 chr7A 84.923 1751 199 48 1168 2863 184169694 184171434 0.000000e+00 1711.0
10 TraesCS7D01G219400 chr7A 88.550 1310 114 22 2915 4215 184171519 184172801 0.000000e+00 1555.0
11 TraesCS7D01G219400 chr7A 93.961 828 47 1 3397 4224 184328896 184329720 0.000000e+00 1249.0
12 TraesCS7D01G219400 chr7A 87.159 623 59 12 4222 4838 184329851 184330458 0.000000e+00 688.0
13 TraesCS7D01G219400 chr7A 91.039 491 27 11 291 771 184168748 184169231 0.000000e+00 647.0
14 TraesCS7D01G219400 chr7A 95.596 386 16 1 785 1169 184169349 184169734 7.350000e-173 617.0
15 TraesCS7D01G219400 chr7A 90.284 422 32 1 2914 3335 184328452 184328864 1.270000e-150 544.0
16 TraesCS7D01G219400 chr7A 89.381 339 29 5 4833 5169 184320075 184320408 2.230000e-113 420.0
17 TraesCS7D01G219400 chr7A 82.378 471 63 14 704 1166 184315926 184316384 4.850000e-105 392.0
18 TraesCS7D01G219400 chr7A 83.333 324 30 10 4845 5168 184330887 184331186 1.420000e-70 278.0
19 TraesCS7D01G219400 chr7A 75.560 491 42 31 341 779 184315422 184315886 2.470000e-38 171.0
20 TraesCS7D01G219400 chr7A 86.765 136 10 3 5037 5169 184341751 184341881 1.500000e-30 145.0
21 TraesCS7D01G219400 chr7A 75.000 172 41 2 3514 3684 184171059 184171229 1.540000e-10 78.7
22 TraesCS7D01G219400 chr7B 88.941 1709 138 27 1168 2846 145964954 145966641 0.000000e+00 2061.0
23 TraesCS7D01G219400 chr7B 88.271 1313 115 23 2915 4215 145825873 145827158 0.000000e+00 1535.0
24 TraesCS7D01G219400 chr7B 87.199 1289 108 29 2908 4180 145966826 145968073 0.000000e+00 1413.0
25 TraesCS7D01G219400 chr7B 90.490 1020 82 11 1833 2846 145932565 145933575 0.000000e+00 1332.0
26 TraesCS7D01G219400 chr7B 93.932 824 50 0 3397 4220 145934252 145935075 0.000000e+00 1245.0
27 TraesCS7D01G219400 chr7B 87.217 1017 94 20 704 1701 145931353 145932352 0.000000e+00 1125.0
28 TraesCS7D01G219400 chr7B 85.741 1080 123 22 1810 2863 145824714 145825788 0.000000e+00 1112.0
29 TraesCS7D01G219400 chr7B 91.779 596 36 9 4222 4813 145935210 145935796 0.000000e+00 817.0
30 TraesCS7D01G219400 chr7B 88.689 557 56 5 1168 1722 145824039 145824590 0.000000e+00 673.0
31 TraesCS7D01G219400 chr7B 93.028 459 17 6 1 459 145820811 145821254 0.000000e+00 656.0
32 TraesCS7D01G219400 chr7B 95.489 399 17 1 772 1169 145823681 145824079 2.030000e-178 636.0
33 TraesCS7D01G219400 chr7B 91.943 422 34 0 2914 3335 145933799 145934220 4.460000e-165 592.0
34 TraesCS7D01G219400 chr7B 94.690 339 13 5 4833 5169 145935889 145936224 5.930000e-144 521.0
35 TraesCS7D01G219400 chr7B 92.473 186 13 1 3 187 145930574 145930759 1.100000e-66 265.0
36 TraesCS7D01G219400 chr7B 97.315 149 2 1 619 767 145823468 145823614 8.590000e-63 252.0
37 TraesCS7D01G219400 chr7B 85.841 226 24 6 4833 5055 145970569 145970789 3.110000e-57 233.0
38 TraesCS7D01G219400 chr7B 92.547 161 2 1 457 617 145823093 145823243 6.740000e-54 222.0
39 TraesCS7D01G219400 chr7B 89.222 167 16 2 1001 1166 145964826 145964991 1.890000e-49 207.0
40 TraesCS7D01G219400 chr7B 87.654 162 20 0 4063 4224 145968073 145968234 6.830000e-44 189.0
41 TraesCS7D01G219400 chr7B 83.226 155 15 4 4331 4485 145968690 145968833 1.170000e-26 132.0
42 TraesCS7D01G219400 chr7B 84.375 128 18 2 4700 4826 145970363 145970489 1.950000e-24 124.0
43 TraesCS7D01G219400 chr4A 92.088 455 36 0 2392 2846 726121104 726120650 4.360000e-180 641.0
44 TraesCS7D01G219400 chr4A 89.971 349 35 0 2493 2841 726120487 726120139 7.890000e-123 451.0
45 TraesCS7D01G219400 chr4A 87.831 189 14 5 3137 3325 726120143 726119964 4.050000e-51 213.0
46 TraesCS7D01G219400 chr4A 91.589 107 9 0 2921 3027 726120545 726120439 1.160000e-31 148.0
47 TraesCS7D01G219400 chrUn 88.972 399 32 9 1810 2199 477165654 477165259 2.800000e-132 483.0
48 TraesCS7D01G219400 chr1D 88.636 88 10 0 1118 1205 475249013 475249100 1.970000e-19 108.0
49 TraesCS7D01G219400 chr1B 87.234 94 12 0 1118 1211 26337819 26337726 1.970000e-19 108.0
50 TraesCS7D01G219400 chr1B 91.667 72 6 0 1131 1202 26337767 26337696 3.290000e-17 100.0


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 TraesCS7D01G219400 chr7D 180013072 180018240 5168 False 9546.000000 9546 100.000000 1 5169 1 chr7D.!!$F1 5168
1 TraesCS7D01G219400 chr7D 180071041 180075670 4629 False 849.666667 1435 90.937000 1168 5168 6 chr7D.!!$F2 4000
2 TraesCS7D01G219400 chr7A 184315422 184320408 4986 False 1714.000000 5873 85.734250 341 5169 4 chr7A.!!$F3 4828
3 TraesCS7D01G219400 chr7A 184326303 184331186 4883 False 1033.200000 2407 88.773400 906 5168 5 chr7A.!!$F4 4262
4 TraesCS7D01G219400 chr7A 184168748 184172801 4053 False 921.740000 1711 87.021600 291 4215 5 chr7A.!!$F2 3924
5 TraesCS7D01G219400 chr7B 145930574 145936224 5650 False 842.428571 1332 91.789143 3 5169 7 chr7B.!!$F2 5166
6 TraesCS7D01G219400 chr7B 145820811 145827158 6347 False 726.571429 1535 91.582857 1 4215 7 chr7B.!!$F1 4214
7 TraesCS7D01G219400 chr7B 145964826 145970789 5963 False 622.714286 2061 86.636857 1001 5055 7 chr7B.!!$F3 4054
8 TraesCS7D01G219400 chr4A 726119964 726121104 1140 True 363.250000 641 90.369750 2392 3325 4 chr4A.!!$R1 933

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
247 249 0.535102 AGTCCCAACAAACCTCTGCG 60.535 55.0 0.00 0.00 0.00 5.18 F
253 255 0.949105 AACAAACCTCTGCGCGGTAG 60.949 55.0 17.37 11.99 33.53 3.18 F
1067 3442 1.673767 AGGAATCTCACACCCATGGT 58.326 50.0 11.73 0.00 35.62 3.55 F
1509 3956 1.030457 CCATGATTCTGGGCTTGCTC 58.970 55.0 0.00 0.00 32.28 4.26 F
2390 5020 1.648467 GCCTTGATGGAACCTGACGC 61.648 60.0 0.00 0.00 38.35 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1067 3442 0.537188 GTTCTGCTCTCCGGAATCCA 59.463 55.000 5.23 1.21 40.75 3.41 R
1206 3611 0.543883 TCAGCTTCCACAGGAGCTCT 60.544 55.000 14.64 0.00 35.28 4.09 R
2377 4998 0.606401 CCTTGTGCGTCAGGTTCCAT 60.606 55.000 0.00 0.00 0.00 3.41 R
2396 5026 1.533129 GGTTGCCGTTGTTTGACTGAC 60.533 52.381 0.00 0.00 0.00 3.51 R
4360 7957 0.676782 GACACCGCCCTGCAGTAAAT 60.677 55.000 13.81 0.00 0.00 1.40 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
97 99 5.531287 ACTTAAAAACAAGCCGATCTCTGTT 59.469 36.000 0.00 0.00 0.00 3.16
204 206 1.000827 CTGCCTCGCTGGATACTACAG 60.001 57.143 0.00 0.00 38.35 2.74
212 214 3.628032 CGCTGGATACTACAGAGTCAGAA 59.372 47.826 0.00 0.00 38.20 3.02
213 215 4.496673 CGCTGGATACTACAGAGTCAGAAC 60.497 50.000 0.00 0.00 38.20 3.01
214 216 4.399618 GCTGGATACTACAGAGTCAGAACA 59.600 45.833 0.00 0.00 38.20 3.18
217 219 6.010850 TGGATACTACAGAGTCAGAACAACT 58.989 40.000 0.00 0.00 37.10 3.16
218 220 7.173032 TGGATACTACAGAGTCAGAACAACTA 58.827 38.462 0.00 0.00 37.10 2.24
219 221 7.337184 TGGATACTACAGAGTCAGAACAACTAG 59.663 40.741 0.00 0.00 37.10 2.57
220 222 7.553402 GGATACTACAGAGTCAGAACAACTAGA 59.447 40.741 0.00 0.00 37.10 2.43
221 223 8.865420 ATACTACAGAGTCAGAACAACTAGAA 57.135 34.615 0.00 0.00 37.10 2.10
222 224 7.209471 ACTACAGAGTCAGAACAACTAGAAG 57.791 40.000 0.00 0.00 0.00 2.85
223 225 6.999272 ACTACAGAGTCAGAACAACTAGAAGA 59.001 38.462 0.00 0.00 0.00 2.87
224 226 6.716934 ACAGAGTCAGAACAACTAGAAGAA 57.283 37.500 0.00 0.00 0.00 2.52
225 227 6.508777 ACAGAGTCAGAACAACTAGAAGAAC 58.491 40.000 0.00 0.00 0.00 3.01
226 228 6.096987 ACAGAGTCAGAACAACTAGAAGAACA 59.903 38.462 0.00 0.00 0.00 3.18
227 229 6.980978 CAGAGTCAGAACAACTAGAAGAACAA 59.019 38.462 0.00 0.00 0.00 2.83
228 230 7.492669 CAGAGTCAGAACAACTAGAAGAACAAA 59.507 37.037 0.00 0.00 0.00 2.83
229 231 7.708752 AGAGTCAGAACAACTAGAAGAACAAAG 59.291 37.037 0.00 0.00 0.00 2.77
230 232 7.331791 AGTCAGAACAACTAGAAGAACAAAGT 58.668 34.615 0.00 0.00 0.00 2.66
247 249 0.535102 AGTCCCAACAAACCTCTGCG 60.535 55.000 0.00 0.00 0.00 5.18
251 253 2.203153 AACAAACCTCTGCGCGGT 60.203 55.556 17.37 8.03 35.97 5.68
252 254 1.070105 AACAAACCTCTGCGCGGTA 59.930 52.632 17.37 1.97 33.53 4.02
253 255 0.949105 AACAAACCTCTGCGCGGTAG 60.949 55.000 17.37 11.99 33.53 3.18
313 315 3.477210 AGTCTTCAGGTCCAAGTCAAC 57.523 47.619 0.00 0.00 0.00 3.18
522 2399 5.842907 ACATGCTCCCTTAAAAAGAAACAC 58.157 37.500 0.00 0.00 0.00 3.32
588 2468 3.808728 CTCTGGAAAACTGTCTTGGACA 58.191 45.455 0.43 0.43 40.50 4.02
781 3122 6.540438 TCCAAATTAGGTAGGAGTGTAGTG 57.460 41.667 0.00 0.00 0.00 2.74
1004 3378 4.757149 ACTAGTTCACCTCAATCTTGCAAC 59.243 41.667 0.00 0.00 0.00 4.17
1067 3442 1.673767 AGGAATCTCACACCCATGGT 58.326 50.000 11.73 0.00 35.62 3.55
1128 3503 3.050275 GCTGGCAACACTCCCGTC 61.050 66.667 0.00 0.00 46.17 4.79
1129 3504 2.738521 CTGGCAACACTCCCGTCG 60.739 66.667 0.00 0.00 46.17 5.12
1130 3505 3.220999 CTGGCAACACTCCCGTCGA 62.221 63.158 0.00 0.00 46.17 4.20
1131 3506 2.432628 GGCAACACTCCCGTCGAG 60.433 66.667 0.00 0.00 44.95 4.04
1132 3507 3.112709 GCAACACTCCCGTCGAGC 61.113 66.667 0.00 0.00 43.01 5.03
1133 3508 2.432628 CAACACTCCCGTCGAGCC 60.433 66.667 0.00 0.00 43.01 4.70
1134 3509 4.052229 AACACTCCCGTCGAGCCG 62.052 66.667 0.00 0.00 43.01 5.52
1152 3527 2.871099 CAGCAGCTGCAGCAAGAG 59.129 61.111 38.24 24.95 45.16 2.85
1153 3528 2.360100 AGCAGCTGCAGCAAGAGG 60.360 61.111 38.24 22.35 45.16 3.69
1154 3529 3.441290 GCAGCTGCAGCAAGAGGG 61.441 66.667 38.24 20.69 45.16 4.30
1155 3530 3.441290 CAGCTGCAGCAAGAGGGC 61.441 66.667 38.24 12.01 45.16 5.19
1438 3885 2.102757 CTCATGGTGCTCATACTGCTCT 59.897 50.000 0.00 0.00 34.12 4.09
1464 3911 2.431683 GAGCTGACCCACAAGGCA 59.568 61.111 0.00 0.00 40.58 4.75
1509 3956 1.030457 CCATGATTCTGGGCTTGCTC 58.970 55.000 0.00 0.00 32.28 4.26
1647 4094 2.158900 GCATCTGGCACCTAAGAAGCTA 60.159 50.000 0.00 0.00 43.97 3.32
1839 4454 7.814264 AGAGAAGAGAAAAATTGCAGAAGAA 57.186 32.000 0.00 0.00 0.00 2.52
2269 4890 4.118410 GCTCTACCTCATCATTCAGTGTG 58.882 47.826 0.00 0.00 0.00 3.82
2390 5020 1.648467 GCCTTGATGGAACCTGACGC 61.648 60.000 0.00 0.00 38.35 5.19
2396 5026 0.606401 ATGGAACCTGACGCACAAGG 60.606 55.000 0.00 0.00 0.00 3.61
2557 5202 6.000219 ACAGATAACAGTGATGGGCATATTC 59.000 40.000 0.00 0.00 0.00 1.75
2896 5577 2.157738 GCATAATAGGGGCTTCTGCTG 58.842 52.381 0.00 0.00 39.59 4.41
2899 5580 1.527457 AATAGGGGCTTCTGCTGGAT 58.473 50.000 0.00 0.00 39.59 3.41
3028 5904 5.192927 CAGGTGGCTTTTGGACTGATAATA 58.807 41.667 0.00 0.00 0.00 0.98
3088 5967 3.044286 GAGTTTCGAGAACGCTATAGGC 58.956 50.000 1.04 0.00 39.58 3.93
3111 5990 5.064071 GCTGTTCTTCTACTTCAATGCTACC 59.936 44.000 0.00 0.00 0.00 3.18
3316 6381 6.073276 TGTTGCAGTGTTTGTCTATGTCATAC 60.073 38.462 0.00 0.00 0.00 2.39
3342 6407 2.227388 AGTCCTGCTTCTGAAATTTGCG 59.773 45.455 0.00 0.00 0.00 4.85
3353 6418 4.744631 TCTGAAATTTGCGAAAGAAAAGGC 59.255 37.500 0.00 0.00 43.07 4.35
3531 6629 2.078849 TCACTGTCACATACCAAGCG 57.921 50.000 0.00 0.00 0.00 4.68
3614 6712 3.117550 CCAATCCTCCATGATACCAACCA 60.118 47.826 0.00 0.00 0.00 3.67
3618 6716 2.682856 CCTCCATGATACCAACCAAACG 59.317 50.000 0.00 0.00 0.00 3.60
3856 6954 2.575363 CCGTGATCATCTACATCGTCG 58.425 52.381 0.00 0.00 0.00 5.12
3913 7011 4.565861 GGTTAGTGAAGGAGAAGGGGAAAG 60.566 50.000 0.00 0.00 0.00 2.62
4043 7152 6.257849 TCAGTTGTGACATTTGTTCAGTCTAC 59.742 38.462 0.00 0.00 33.56 2.59
4231 7606 2.907892 ACCTTCTGATGTGGAGAGGAA 58.092 47.619 0.00 0.00 0.00 3.36
4246 7621 3.209410 AGAGGAACAAAACAGTCTGCAG 58.791 45.455 7.63 7.63 0.00 4.41
4258 7633 3.119137 ACAGTCTGCAGCGATACACAATA 60.119 43.478 9.47 0.00 0.00 1.90
4310 7685 6.834168 AATAGGTGTAATGTTCCAAAGTGG 57.166 37.500 0.00 0.00 39.43 4.00
4496 8105 9.023962 TGAGGATATTTTGGGTATGCATTATTC 57.976 33.333 3.54 0.00 0.00 1.75
4518 8127 4.772624 TCCTATGCACTGTAGTTTCTCTGT 59.227 41.667 0.00 0.00 0.00 3.41
4630 8298 2.867109 TTTGCAAGAGAGGAAGGAGG 57.133 50.000 0.00 0.00 0.00 4.30
4671 8339 1.002011 GGAACTCCCTGCCTGGTTC 60.002 63.158 0.00 0.00 37.79 3.62
4782 9803 1.093159 GAAGTGCCAGGAGATTGCAG 58.907 55.000 0.00 0.00 35.33 4.41
4813 9835 1.135460 GCATCTCAGCTTGCCAAACTC 60.135 52.381 0.00 0.00 32.66 3.01
4814 9836 2.156917 CATCTCAGCTTGCCAAACTCA 58.843 47.619 0.00 0.00 0.00 3.41
4815 9837 1.888215 TCTCAGCTTGCCAAACTCAG 58.112 50.000 0.00 0.00 0.00 3.35
4816 9838 1.141657 TCTCAGCTTGCCAAACTCAGT 59.858 47.619 0.00 0.00 0.00 3.41
4817 9839 1.266175 CTCAGCTTGCCAAACTCAGTG 59.734 52.381 0.00 0.00 0.00 3.66
4818 9840 1.027357 CAGCTTGCCAAACTCAGTGT 58.973 50.000 0.00 0.00 0.00 3.55
4819 9841 1.002033 CAGCTTGCCAAACTCAGTGTC 60.002 52.381 0.00 0.00 0.00 3.67
4830 9852 1.434622 CTCAGTGTCATCGGCATGGC 61.435 60.000 9.69 9.69 34.92 4.40
4843 10287 0.601558 GCATGGCCCATCTGCTTATG 59.398 55.000 0.00 0.00 33.15 1.90
4988 10435 6.739331 ATTCATTCGAGGAAGACTAGGATT 57.261 37.500 7.52 0.00 0.00 3.01
5114 10562 0.882927 TAACACAAGTGCCTGCGGAC 60.883 55.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
97 99 2.203922 TACCAGGCTGCCACAGGA 60.204 61.111 25.23 7.53 31.21 3.86
204 206 7.492994 ACTTTGTTCTTCTAGTTGTTCTGACTC 59.507 37.037 0.00 0.00 0.00 3.36
212 214 5.367945 TGGGACTTTGTTCTTCTAGTTGT 57.632 39.130 0.00 0.00 0.00 3.32
213 215 5.588648 TGTTGGGACTTTGTTCTTCTAGTTG 59.411 40.000 0.00 0.00 0.00 3.16
214 216 5.751586 TGTTGGGACTTTGTTCTTCTAGTT 58.248 37.500 0.00 0.00 0.00 2.24
217 219 5.358725 GGTTTGTTGGGACTTTGTTCTTCTA 59.641 40.000 0.00 0.00 0.00 2.10
218 220 4.159693 GGTTTGTTGGGACTTTGTTCTTCT 59.840 41.667 0.00 0.00 0.00 2.85
219 221 4.159693 AGGTTTGTTGGGACTTTGTTCTTC 59.840 41.667 0.00 0.00 0.00 2.87
220 222 4.093743 AGGTTTGTTGGGACTTTGTTCTT 58.906 39.130 0.00 0.00 0.00 2.52
221 223 3.699538 GAGGTTTGTTGGGACTTTGTTCT 59.300 43.478 0.00 0.00 0.00 3.01
222 224 3.699538 AGAGGTTTGTTGGGACTTTGTTC 59.300 43.478 0.00 0.00 0.00 3.18
223 225 3.447229 CAGAGGTTTGTTGGGACTTTGTT 59.553 43.478 0.00 0.00 0.00 2.83
224 226 3.023832 CAGAGGTTTGTTGGGACTTTGT 58.976 45.455 0.00 0.00 0.00 2.83
225 227 2.223805 GCAGAGGTTTGTTGGGACTTTG 60.224 50.000 0.00 0.00 0.00 2.77
226 228 2.031870 GCAGAGGTTTGTTGGGACTTT 58.968 47.619 0.00 0.00 0.00 2.66
227 229 1.692411 GCAGAGGTTTGTTGGGACTT 58.308 50.000 0.00 0.00 0.00 3.01
228 230 0.535102 CGCAGAGGTTTGTTGGGACT 60.535 55.000 0.00 0.00 0.00 3.85
229 231 1.949257 CGCAGAGGTTTGTTGGGAC 59.051 57.895 0.00 0.00 0.00 4.46
230 232 1.896660 GCGCAGAGGTTTGTTGGGA 60.897 57.895 0.30 0.00 0.00 4.37
247 249 8.770438 ATACTACTATTGAGTACTACTACCGC 57.230 38.462 0.00 0.00 37.10 5.68
313 315 7.752695 ACACAGACTTGTCTTTGTTCTTTTAG 58.247 34.615 14.54 0.00 34.62 1.85
399 405 1.739466 GCAATTCTTGGACTGCGATGA 59.261 47.619 0.00 0.00 0.00 2.92
588 2468 6.331369 AGCTATAACACAACTTGCACAAAT 57.669 33.333 0.00 0.00 0.00 2.32
781 3122 4.987912 GTCCTAGCTTCATACAGCATCTTC 59.012 45.833 0.00 0.00 42.84 2.87
1004 3378 5.674525 TCTAAAGATTGTAGCTCATGTGGG 58.325 41.667 0.00 0.00 0.00 4.61
1067 3442 0.537188 GTTCTGCTCTCCGGAATCCA 59.463 55.000 5.23 1.21 40.75 3.41
1101 3476 2.203379 TTGCCAGCAGCTGCAGAA 60.203 55.556 38.24 22.49 45.16 3.02
1102 3477 2.981909 GTTGCCAGCAGCTGCAGA 60.982 61.111 38.24 17.23 45.16 4.26
1135 3510 2.691771 CCTCTTGCTGCAGCTGCTG 61.692 63.158 36.61 35.16 42.66 4.41
1136 3511 2.360100 CCTCTTGCTGCAGCTGCT 60.360 61.111 36.61 0.00 42.66 4.24
1137 3512 3.441290 CCCTCTTGCTGCAGCTGC 61.441 66.667 36.61 31.89 42.66 5.25
1138 3513 3.441290 GCCCTCTTGCTGCAGCTG 61.441 66.667 36.61 27.98 42.66 4.24
1206 3611 0.543883 TCAGCTTCCACAGGAGCTCT 60.544 55.000 14.64 0.00 35.28 4.09
1746 4340 3.588842 TCAATTCTTCCATCTGGACTGGT 59.411 43.478 0.00 0.00 45.39 4.00
1765 4359 4.929808 GCGACTTCTTTCAAGGTCTATCAA 59.070 41.667 0.00 0.00 0.00 2.57
1767 4361 4.495422 TGCGACTTCTTTCAAGGTCTATC 58.505 43.478 0.00 0.00 0.00 2.08
1768 4362 4.499183 CTGCGACTTCTTTCAAGGTCTAT 58.501 43.478 0.00 0.00 0.00 1.98
1839 4454 0.903942 CCTCTCTCTCCTTTGCAGCT 59.096 55.000 0.00 0.00 0.00 4.24
1979 4600 2.182842 GGATCACCAGCGATGTGGC 61.183 63.158 0.00 0.00 41.90 5.01
1986 4607 4.457496 AGCACCGGATCACCAGCG 62.457 66.667 9.46 0.00 34.70 5.18
2040 4661 0.815734 AAGCAGTGGCATTGCAGATC 59.184 50.000 32.23 7.06 43.92 2.75
2269 4890 5.277538 CCAACTTAGACAGAGCAAGTTCAAC 60.278 44.000 0.00 0.00 39.78 3.18
2377 4998 0.606401 CCTTGTGCGTCAGGTTCCAT 60.606 55.000 0.00 0.00 0.00 3.41
2390 5020 2.223249 CCGTTGTTTGACTGACCTTGTG 60.223 50.000 0.00 0.00 0.00 3.33
2396 5026 1.533129 GGTTGCCGTTGTTTGACTGAC 60.533 52.381 0.00 0.00 0.00 3.51
2896 5577 3.894427 TCTTCTGGAGTATCAGCAGATCC 59.106 47.826 0.00 0.00 34.22 3.36
2899 5580 3.701664 TGTCTTCTGGAGTATCAGCAGA 58.298 45.455 0.00 0.00 35.34 4.26
3088 5967 5.289675 CGGTAGCATTGAAGTAGAAGAACAG 59.710 44.000 0.00 0.00 0.00 3.16
3111 5990 1.731433 CCAGGGATGCCATGAAAGCG 61.731 60.000 5.86 0.00 37.52 4.68
3342 6407 2.911102 CGAGCAATTCGCCTTTTCTTTC 59.089 45.455 0.00 0.00 43.22 2.62
3432 6530 6.467677 ACTATCAGTATCACTTGTGCTTGTT 58.532 36.000 0.00 0.00 0.00 2.83
3531 6629 2.190488 CTCCAGGTGGAAGCAGACCC 62.190 65.000 0.00 0.00 44.91 4.46
3614 6712 3.323751 AGAATACCTTGTACCGCGTTT 57.676 42.857 4.92 0.00 0.00 3.60
3618 6716 5.050295 GCAATAGAAGAATACCTTGTACCGC 60.050 44.000 0.00 0.00 34.04 5.68
3856 6954 6.738352 GTCAAATGACAACAAGACATGAAC 57.262 37.500 8.63 0.00 44.18 3.18
3913 7011 1.896220 TTCAGACATTGCACCCACTC 58.104 50.000 0.00 0.00 0.00 3.51
4043 7152 3.452264 TGGAGGTTGTGTCTATCTCATGG 59.548 47.826 0.00 0.00 0.00 3.66
4231 7606 1.597742 ATCGCTGCAGACTGTTTTGT 58.402 45.000 20.43 0.00 0.00 2.83
4246 7621 5.539582 TTGTTCCAAGTATTGTGTATCGC 57.460 39.130 0.00 0.00 46.99 4.58
4258 7633 7.939039 TCTCTTTCATTCAGTATTGTTCCAAGT 59.061 33.333 0.00 0.00 0.00 3.16
4360 7957 0.676782 GACACCGCCCTGCAGTAAAT 60.677 55.000 13.81 0.00 0.00 1.40
4496 8105 5.078411 ACAGAGAAACTACAGTGCATAGG 57.922 43.478 0.00 0.00 0.00 2.57
4500 8109 7.801716 ATAAAAACAGAGAAACTACAGTGCA 57.198 32.000 0.00 0.00 0.00 4.57
4532 8143 1.691823 CCCCTCCCCTCCTTGAAAC 59.308 63.158 0.00 0.00 0.00 2.78
4630 8298 1.202545 GGTAGTCCCGCCAAAGATCTC 60.203 57.143 0.00 0.00 0.00 2.75
4663 8331 1.909700 TTTCATCACAGGAACCAGGC 58.090 50.000 0.00 0.00 0.00 4.85
4692 8361 1.274703 GCCTCTTCCTCATGGACCCA 61.275 60.000 0.00 0.00 43.06 4.51
4696 8365 0.984961 CAGGGCCTCTTCCTCATGGA 60.985 60.000 0.95 0.00 41.36 3.41
4782 9803 5.330295 CAAGCTGAGATGCAGTGTTATTTC 58.670 41.667 0.00 0.00 46.62 2.17
4813 9835 2.475466 GGCCATGCCGATGACACTG 61.475 63.158 0.00 0.00 39.62 3.66
4814 9836 2.124570 GGCCATGCCGATGACACT 60.125 61.111 0.00 0.00 39.62 3.55
4830 9852 2.634815 AGAGCACATAAGCAGATGGG 57.365 50.000 3.26 0.00 36.85 4.00
4843 10287 6.307318 CACTGAAGCAAAATCATTTAGAGCAC 59.693 38.462 5.30 0.00 0.00 4.40
4988 10435 9.787435 AAAACATACAGGTTCTGTTATTCTGTA 57.213 29.630 5.86 0.00 42.59 2.74
5091 10539 0.593128 GCAGGCACTTGTGTTACCAG 59.407 55.000 2.61 0.00 34.60 4.00
5114 10562 1.290955 CTTGTGCACATTGCCCTGG 59.709 57.895 22.39 0.28 44.23 4.45
5120 10568 3.491639 CACAATGAACCTTGTGCACATTG 59.508 43.478 22.39 20.99 46.63 2.82
5122 10570 3.374220 CACAATGAACCTTGTGCACAT 57.626 42.857 22.39 5.14 46.63 3.21


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

AutoCloner maintained by Alex Coulton.