Multiple sequence alignment - TraesCS3A01G105300

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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 TraesCS3A01G105300 chr3A 100.000 1877 0 0 2332 4208 69099414 69101290 0.000000e+00 3467
1 TraesCS3A01G105300 chr3A 100.000 1797 0 0 1 1797 69097083 69098879 0.000000e+00 3319
2 TraesCS3A01G105300 chr3A 100.000 481 0 0 2537 3017 69098260 69098740 0.000000e+00 889
3 TraesCS3A01G105300 chr3A 100.000 481 0 0 1178 1658 69099619 69100099 0.000000e+00 889
4 TraesCS3A01G105300 chr3A 91.810 232 19 0 2334 2565 54299370 54299601 1.460000e-84 324
5 TraesCS3A01G105300 chr3A 91.473 129 7 4 4082 4208 659427961 659427835 1.560000e-39 174
6 TraesCS3A01G105300 chr3D 87.684 1226 80 34 1 1177 60007977 60006774 0.000000e+00 1362
7 TraesCS3A01G105300 chr3D 92.012 964 40 17 3018 3970 60006778 60005841 0.000000e+00 1319
8 TraesCS3A01G105300 chr3D 92.100 481 29 4 1178 1658 599399044 599399515 0.000000e+00 669
9 TraesCS3A01G105300 chr3D 92.100 481 29 4 2537 3017 599399044 599399515 0.000000e+00 669
10 TraesCS3A01G105300 chr3B 91.348 994 55 14 3018 4010 96071052 96072015 0.000000e+00 1330
11 TraesCS3A01G105300 chr3B 86.191 659 42 20 1 633 96066161 96066796 0.000000e+00 667
12 TraesCS3A01G105300 chr3B 87.986 566 41 16 631 1177 96070499 96071056 0.000000e+00 643
13 TraesCS3A01G105300 chr7A 99.708 686 2 0 2332 3017 269245 269930 0.000000e+00 1256
14 TraesCS3A01G105300 chr7A 100.000 620 0 0 1178 1797 267930 268549 0.000000e+00 1146
15 TraesCS3A01G105300 chr7A 99.517 621 3 0 1177 1797 267156 267776 0.000000e+00 1131
16 TraesCS3A01G105300 chr7A 100.000 481 0 0 2537 3017 267930 268410 0.000000e+00 889
17 TraesCS3A01G105300 chr7A 99.585 482 2 0 1178 1659 269450 269931 0.000000e+00 880
18 TraesCS3A01G105300 chr7A 99.376 481 3 0 2537 3017 267157 267637 0.000000e+00 872
19 TraesCS3A01G105300 chr7A 94.215 121 6 1 4089 4208 615341904 615342024 2.580000e-42 183
20 TraesCS3A01G105300 chr7A 93.443 122 8 0 4087 4208 562303844 562303723 9.290000e-42 182
21 TraesCS3A01G105300 chr7A 94.167 120 6 1 4089 4208 699150270 699150388 9.290000e-42 182
22 TraesCS3A01G105300 chr7A 92.800 125 7 2 4084 4208 580592705 580592583 3.340000e-41 180
23 TraesCS3A01G105300 chr7A 93.388 121 8 0 4088 4208 653023047 653023167 3.340000e-41 180
24 TraesCS3A01G105300 chr7B 97.274 697 14 4 2332 3027 641879654 641878962 0.000000e+00 1177
25 TraesCS3A01G105300 chr7B 98.198 555 8 1 1243 1797 641880929 641880377 0.000000e+00 968
26 TraesCS3A01G105300 chr7B 97.505 481 8 3 1178 1658 641879449 641878973 0.000000e+00 819
27 TraesCS3A01G105300 chr7B 98.077 416 6 1 2602 3017 641880929 641880516 0.000000e+00 723
28 TraesCS3A01G105300 chr4B 98.390 621 9 1 1177 1797 142557396 142558015 0.000000e+00 1090
29 TraesCS3A01G105300 chr4B 98.174 493 9 0 2332 2824 142558943 142558451 0.000000e+00 861
30 TraesCS3A01G105300 chr4B 98.545 481 6 1 2537 3017 142557397 142557876 0.000000e+00 848
31 TraesCS3A01G105300 chr5B 92.070 681 36 6 2337 3017 130932173 130932835 0.000000e+00 942
32 TraesCS3A01G105300 chr5B 90.675 622 37 9 1178 1797 130931032 130931634 0.000000e+00 808
33 TraesCS3A01G105300 chr6A 90.288 278 26 1 2332 2609 579127825 579127549 3.090000e-96 363
34 TraesCS3A01G105300 chr6A 95.614 114 5 0 4095 4208 60057164 60057277 2.580000e-42 183
35 TraesCS3A01G105300 chr2B 91.518 224 18 1 2332 2555 8276447 8276225 1.470000e-79 307
36 TraesCS3A01G105300 chr2B 91.071 224 19 1 2332 2555 8273718 8273496 6.840000e-78 302
37 TraesCS3A01G105300 chr2B 93.750 144 9 0 1654 1797 184595101 184594958 2.550000e-52 217
38 TraesCS3A01G105300 chr4D 91.071 224 20 0 2332 2555 202705691 202705914 1.900000e-78 303
39 TraesCS3A01G105300 chr2A 95.918 147 6 0 1651 1797 149964253 149964399 5.440000e-59 239
40 TraesCS3A01G105300 chr2A 93.056 144 10 0 1654 1797 347818352 347818495 1.190000e-50 211
41 TraesCS3A01G105300 chr2A 93.056 144 10 0 1654 1797 347819522 347819665 1.190000e-50 211
42 TraesCS3A01G105300 chr2A 95.614 114 5 0 4095 4208 84977769 84977656 2.580000e-42 183
43 TraesCS3A01G105300 chr5A 96.552 116 4 0 4093 4208 609286034 609286149 4.290000e-45 193


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 TraesCS3A01G105300 chr3A 69097083 69101290 4207 False 2141.00 3467 100.000000 1 4208 4 chr3A.!!$F2 4207
1 TraesCS3A01G105300 chr3D 60005841 60007977 2136 True 1340.50 1362 89.848000 1 3970 2 chr3D.!!$R1 3969
2 TraesCS3A01G105300 chr3B 96066161 96072015 5854 False 880.00 1330 88.508333 1 4010 3 chr3B.!!$F1 4009
3 TraesCS3A01G105300 chr7A 267156 269931 2775 False 1029.00 1256 99.697667 1177 3017 6 chr7A.!!$F4 1840
4 TraesCS3A01G105300 chr7B 641878962 641880929 1967 True 921.75 1177 97.763500 1178 3027 4 chr7B.!!$R1 1849
5 TraesCS3A01G105300 chr4B 142557396 142558015 619 False 969.00 1090 98.467500 1177 3017 2 chr4B.!!$F1 1840
6 TraesCS3A01G105300 chr5B 130931032 130932835 1803 False 875.00 942 91.372500 1178 3017 2 chr5B.!!$F1 1839
7 TraesCS3A01G105300 chr2B 8273496 8276447 2951 True 304.50 307 91.294500 2332 2555 2 chr2B.!!$R2 223
8 TraesCS3A01G105300 chr2A 347818352 347819665 1313 False 211.00 211 93.056000 1654 1797 2 chr2A.!!$F2 143

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
942 4702 0.035725 TCTCCCTAGTTCAGTCGCGA 60.036 55.000 3.71 3.71 0.0 5.87 F
961 4735 2.202623 CGACCTACCTCACGCAGC 60.203 66.667 0.00 0.00 0.0 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3021 8059 4.49852 AGCTCGATGACGGTGGCG 62.499 66.667 0.00 0.0 40.21 5.69 R
3219 8706 0.89009 GACGGGGAGTAGAGGATCCG 60.890 65.000 5.98 0.0 42.69 4.18 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
22 23 2.432628 CACCGTTCACCCTCTCGC 60.433 66.667 0.00 0.00 0.00 5.03
221 222 1.674980 AGTCCCACTCTCGTCGTCC 60.675 63.158 0.00 0.00 0.00 4.79
228 229 2.048784 TCTCGTCGTCCTCGTCGT 60.049 61.111 7.05 0.00 45.27 4.34
236 237 4.081030 TCCTCGTCGTCGTCGTGC 62.081 66.667 11.41 0.00 38.33 5.34
271 272 1.901464 GTCGTGCAAACATGGGGGT 60.901 57.895 0.00 0.00 33.32 4.95
273 274 0.606944 TCGTGCAAACATGGGGGTAC 60.607 55.000 0.00 0.00 33.32 3.34
276 277 0.606944 TGCAAACATGGGGGTACGTC 60.607 55.000 0.00 0.00 0.00 4.34
277 278 1.310216 GCAAACATGGGGGTACGTCC 61.310 60.000 0.00 0.00 0.00 4.79
458 479 1.643832 GAGTTTCGATGCCGGCATC 59.356 57.895 45.59 45.59 46.71 3.91
477 498 1.227497 GCATCTCCTCCAAGCCTCG 60.227 63.158 0.00 0.00 0.00 4.63
579 619 2.471255 AAAAATGCCGCTCCGAGAG 58.529 52.632 0.00 0.00 0.00 3.20
716 4476 0.106268 ACATGGTGGTGGTGCTGAAA 60.106 50.000 0.00 0.00 0.00 2.69
717 4477 1.039068 CATGGTGGTGGTGCTGAAAA 58.961 50.000 0.00 0.00 0.00 2.29
724 4484 4.244862 GTGGTGGTGCTGAAAATTAATGG 58.755 43.478 0.00 0.00 0.00 3.16
785 4545 2.358737 CCCACGGCTCCTTGTCAC 60.359 66.667 0.00 0.00 0.00 3.67
874 4634 2.363018 TCGCCTCTCCACCTCCTG 60.363 66.667 0.00 0.00 0.00 3.86
881 4641 2.038813 TCCACCTCCTGCGGATCA 59.961 61.111 0.00 0.00 0.00 2.92
883 4643 1.450312 CCACCTCCTGCGGATCAAC 60.450 63.158 0.00 0.00 0.00 3.18
906 4666 2.345641 CCGATCGATATTCATTCACGGC 59.654 50.000 18.66 0.00 0.00 5.68
911 4671 1.461127 GATATTCATTCACGGCGAGCC 59.539 52.381 16.62 3.59 0.00 4.70
912 4672 0.464036 TATTCATTCACGGCGAGCCT 59.536 50.000 16.62 0.00 0.00 4.58
914 4674 1.019278 TTCATTCACGGCGAGCCTTC 61.019 55.000 16.62 0.00 0.00 3.46
915 4675 1.448540 CATTCACGGCGAGCCTTCT 60.449 57.895 16.62 0.00 0.00 2.85
917 4677 2.172483 ATTCACGGCGAGCCTTCTGT 62.172 55.000 16.62 0.00 0.00 3.41
918 4678 2.765250 TTCACGGCGAGCCTTCTGTC 62.765 60.000 16.62 0.00 0.00 3.51
919 4679 4.070552 ACGGCGAGCCTTCTGTCC 62.071 66.667 16.62 0.00 0.00 4.02
922 4682 4.443266 GCGAGCCTTCTGTCCGCT 62.443 66.667 0.00 0.00 42.24 5.52
925 4685 1.594310 GAGCCTTCTGTCCGCTTCT 59.406 57.895 0.00 0.00 31.61 2.85
926 4686 0.459411 GAGCCTTCTGTCCGCTTCTC 60.459 60.000 0.00 0.00 31.61 2.87
928 4688 1.219393 CCTTCTGTCCGCTTCTCCC 59.781 63.158 0.00 0.00 0.00 4.30
929 4689 1.261238 CCTTCTGTCCGCTTCTCCCT 61.261 60.000 0.00 0.00 0.00 4.20
930 4690 1.475403 CTTCTGTCCGCTTCTCCCTA 58.525 55.000 0.00 0.00 0.00 3.53
931 4691 1.407258 CTTCTGTCCGCTTCTCCCTAG 59.593 57.143 0.00 0.00 0.00 3.02
932 4692 0.331954 TCTGTCCGCTTCTCCCTAGT 59.668 55.000 0.00 0.00 0.00 2.57
933 4693 1.187087 CTGTCCGCTTCTCCCTAGTT 58.813 55.000 0.00 0.00 0.00 2.24
934 4694 1.135333 CTGTCCGCTTCTCCCTAGTTC 59.865 57.143 0.00 0.00 0.00 3.01
935 4695 1.183549 GTCCGCTTCTCCCTAGTTCA 58.816 55.000 0.00 0.00 0.00 3.18
936 4696 1.135333 GTCCGCTTCTCCCTAGTTCAG 59.865 57.143 0.00 0.00 0.00 3.02
937 4697 1.187087 CCGCTTCTCCCTAGTTCAGT 58.813 55.000 0.00 0.00 0.00 3.41
938 4698 1.135333 CCGCTTCTCCCTAGTTCAGTC 59.865 57.143 0.00 0.00 0.00 3.51
939 4699 1.202200 CGCTTCTCCCTAGTTCAGTCG 60.202 57.143 0.00 0.00 0.00 4.18
940 4700 1.470112 GCTTCTCCCTAGTTCAGTCGC 60.470 57.143 0.00 0.00 0.00 5.19
942 4702 0.035725 TCTCCCTAGTTCAGTCGCGA 60.036 55.000 3.71 3.71 0.00 5.87
957 4731 2.403987 CGAGCGACCTACCTCACG 59.596 66.667 0.00 0.00 0.00 4.35
961 4735 2.202623 CGACCTACCTCACGCAGC 60.203 66.667 0.00 0.00 0.00 5.25
962 4736 2.202623 GACCTACCTCACGCAGCG 60.203 66.667 14.82 14.82 0.00 5.18
963 4737 4.436998 ACCTACCTCACGCAGCGC 62.437 66.667 16.61 0.00 0.00 5.92
3018 8056 3.243336 GAGTAGGCTAGACAACAACACG 58.757 50.000 0.00 0.00 0.00 4.49
3020 8058 0.105964 AGGCTAGACAACAACACGCA 59.894 50.000 0.00 0.00 0.00 5.24
3021 8059 0.234884 GGCTAGACAACAACACGCAC 59.765 55.000 0.00 0.00 0.00 5.34
3211 8698 3.979739 CCCTCCGCGCCTAGCTAC 61.980 72.222 0.00 0.00 45.59 3.58
3219 8706 4.610714 GCCTAGCTACCAGCCGCC 62.611 72.222 0.00 0.00 43.77 6.13
3229 8716 2.912542 CAGCCGCCGGATCCTCTA 60.913 66.667 7.68 0.00 0.00 2.43
3280 8767 3.918220 CGCGCATGCTTCGTCTCC 61.918 66.667 17.13 0.00 39.65 3.71
3282 8769 2.507102 CGCATGCTTCGTCTCCGT 60.507 61.111 17.13 0.00 35.01 4.69
3283 8770 2.508891 CGCATGCTTCGTCTCCGTC 61.509 63.158 17.13 0.00 35.01 4.79
3284 8771 1.153745 GCATGCTTCGTCTCCGTCT 60.154 57.895 11.37 0.00 35.01 4.18
3402 8889 2.373540 AAATAAGCTGTACCGCACGA 57.626 45.000 12.05 0.00 0.00 4.35
3405 8892 1.452110 TAAGCTGTACCGCACGAGTA 58.548 50.000 12.05 0.00 0.00 2.59
3406 8893 0.599558 AAGCTGTACCGCACGAGTAA 59.400 50.000 12.05 0.00 0.00 2.24
3426 8918 6.383415 AGTAAGAAGACAACGAGATGAACTC 58.617 40.000 0.00 0.00 41.79 3.01
3427 8919 5.461032 AAGAAGACAACGAGATGAACTCT 57.539 39.130 0.00 0.00 42.92 3.24
3428 8920 6.576662 AAGAAGACAACGAGATGAACTCTA 57.423 37.500 0.00 0.00 42.92 2.43
3429 8921 6.189677 AGAAGACAACGAGATGAACTCTAG 57.810 41.667 0.00 0.00 42.92 2.43
3430 8922 4.364415 AGACAACGAGATGAACTCTAGC 57.636 45.455 0.00 0.00 42.92 3.42
3444 8936 2.443390 TAGCCTAGCGGGGGTGTC 60.443 66.667 11.84 0.00 37.66 3.67
3602 9098 4.590850 AATCTTGCTTCTGTTTTGTCCC 57.409 40.909 0.00 0.00 0.00 4.46
3619 9115 1.278637 CCGGTGTGACGTTCTTTGC 59.721 57.895 0.00 0.00 0.00 3.68
3627 9123 2.429069 CGTTCTTTGCTTGGCGCC 60.429 61.111 22.73 22.73 38.05 6.53
3716 9212 4.452455 GCGGGGAGATAACATATTCAAGTG 59.548 45.833 0.00 0.00 0.00 3.16
3784 9281 1.315257 ACCCTAATGGCTGCTTTGCG 61.315 55.000 0.00 0.00 37.83 4.85
3835 9332 2.183555 GGTACGGCGGGACTTCAG 59.816 66.667 13.24 0.00 0.00 3.02
3841 9338 3.050275 GCGGGACTTCAGCCACAC 61.050 66.667 0.00 0.00 0.00 3.82
3854 9351 2.669229 CACACGCTGTGGATGGCA 60.669 61.111 12.18 0.00 44.27 4.92
3855 9352 2.112928 ACACGCTGTGGATGGCAA 59.887 55.556 12.18 0.00 37.94 4.52
3868 9365 0.901580 ATGGCAAGCAAGGGTTGGAG 60.902 55.000 9.82 0.00 40.77 3.86
3911 9408 2.051334 TGGAACCAATATTGAGGCCG 57.949 50.000 17.23 2.20 0.00 6.13
3934 9431 5.385617 GGATGAACTGAATGAAACTTGTCG 58.614 41.667 0.00 0.00 0.00 4.35
3937 9434 6.429791 TGAACTGAATGAAACTTGTCGAAA 57.570 33.333 0.00 0.00 0.00 3.46
3945 9442 5.890424 TGAAACTTGTCGAAACCTTTCTT 57.110 34.783 0.00 0.00 35.07 2.52
3972 9469 4.861102 AGCACCTCCTTTTTCTGAATTG 57.139 40.909 0.00 0.00 0.00 2.32
3982 9479 5.221303 CCTTTTTCTGAATTGAAGACTGGCA 60.221 40.000 9.08 0.00 0.00 4.92
4010 9507 8.865420 TCATTAGTGGTACTCCTAGATGATAC 57.135 38.462 0.00 0.00 34.23 2.24
4011 9508 8.670490 TCATTAGTGGTACTCCTAGATGATACT 58.330 37.037 0.00 0.00 34.23 2.12
4012 9509 8.735315 CATTAGTGGTACTCCTAGATGATACTG 58.265 40.741 0.00 0.00 34.23 2.74
4013 9510 6.268855 AGTGGTACTCCTAGATGATACTGT 57.731 41.667 0.00 0.00 34.23 3.55
4014 9511 7.390013 AGTGGTACTCCTAGATGATACTGTA 57.610 40.000 0.00 0.00 34.23 2.74
4015 9512 7.813331 AGTGGTACTCCTAGATGATACTGTAA 58.187 38.462 0.00 0.00 34.23 2.41
4016 9513 7.940137 AGTGGTACTCCTAGATGATACTGTAAG 59.060 40.741 0.00 0.00 35.45 2.34
4017 9514 6.715718 TGGTACTCCTAGATGATACTGTAAGC 59.284 42.308 0.00 0.00 33.34 3.09
4018 9515 6.151480 GGTACTCCTAGATGATACTGTAAGCC 59.849 46.154 0.00 0.00 37.60 4.35
4019 9516 5.706447 ACTCCTAGATGATACTGTAAGCCA 58.294 41.667 0.00 0.00 37.60 4.75
4020 9517 6.136857 ACTCCTAGATGATACTGTAAGCCAA 58.863 40.000 0.00 0.00 37.60 4.52
4021 9518 6.041069 ACTCCTAGATGATACTGTAAGCCAAC 59.959 42.308 0.00 0.00 37.60 3.77
4022 9519 6.136857 TCCTAGATGATACTGTAAGCCAACT 58.863 40.000 0.00 0.00 37.60 3.16
4023 9520 7.295340 TCCTAGATGATACTGTAAGCCAACTA 58.705 38.462 0.00 0.00 37.60 2.24
4024 9521 7.950684 TCCTAGATGATACTGTAAGCCAACTAT 59.049 37.037 0.00 0.00 37.60 2.12
4025 9522 8.589338 CCTAGATGATACTGTAAGCCAACTATT 58.411 37.037 0.00 0.00 37.60 1.73
4026 9523 9.988815 CTAGATGATACTGTAAGCCAACTATTT 57.011 33.333 0.00 0.00 37.60 1.40
4027 9524 8.668510 AGATGATACTGTAAGCCAACTATTTG 57.331 34.615 0.00 0.00 37.60 2.32
4028 9525 8.267894 AGATGATACTGTAAGCCAACTATTTGT 58.732 33.333 0.00 0.00 37.60 2.83
4029 9526 9.542462 GATGATACTGTAAGCCAACTATTTGTA 57.458 33.333 0.00 0.00 37.60 2.41
4030 9527 8.942338 TGATACTGTAAGCCAACTATTTGTAG 57.058 34.615 0.00 0.00 37.60 2.74
4031 9528 8.537016 TGATACTGTAAGCCAACTATTTGTAGT 58.463 33.333 0.00 0.00 37.60 2.73
4032 9529 8.943909 ATACTGTAAGCCAACTATTTGTAGTC 57.056 34.615 0.00 0.00 37.60 2.59
4033 9530 6.171213 ACTGTAAGCCAACTATTTGTAGTCC 58.829 40.000 0.00 0.00 37.60 3.85
4034 9531 5.493809 TGTAAGCCAACTATTTGTAGTCCC 58.506 41.667 0.00 0.00 0.00 4.46
4035 9532 3.646736 AGCCAACTATTTGTAGTCCCC 57.353 47.619 0.00 0.00 0.00 4.81
4036 9533 2.241430 AGCCAACTATTTGTAGTCCCCC 59.759 50.000 0.00 0.00 0.00 5.40
4053 9550 3.290948 CCCCCGGAAATGTGAAATAGA 57.709 47.619 0.73 0.00 0.00 1.98
4054 9551 3.214328 CCCCCGGAAATGTGAAATAGAG 58.786 50.000 0.73 0.00 0.00 2.43
4055 9552 3.371595 CCCCCGGAAATGTGAAATAGAGT 60.372 47.826 0.73 0.00 0.00 3.24
4056 9553 4.141574 CCCCCGGAAATGTGAAATAGAGTA 60.142 45.833 0.73 0.00 0.00 2.59
4057 9554 5.057149 CCCCGGAAATGTGAAATAGAGTAG 58.943 45.833 0.73 0.00 0.00 2.57
4058 9555 5.396436 CCCCGGAAATGTGAAATAGAGTAGT 60.396 44.000 0.73 0.00 0.00 2.73
4059 9556 6.113411 CCCGGAAATGTGAAATAGAGTAGTT 58.887 40.000 0.73 0.00 0.00 2.24
4060 9557 7.270047 CCCGGAAATGTGAAATAGAGTAGTTA 58.730 38.462 0.73 0.00 0.00 2.24
4061 9558 7.767198 CCCGGAAATGTGAAATAGAGTAGTTAA 59.233 37.037 0.73 0.00 0.00 2.01
4062 9559 9.326413 CCGGAAATGTGAAATAGAGTAGTTAAT 57.674 33.333 0.00 0.00 0.00 1.40
4109 9606 8.950007 AAATTTTTACTACTCCCTTCATTCCA 57.050 30.769 0.00 0.00 0.00 3.53
4110 9607 8.950007 AATTTTTACTACTCCCTTCATTCCAA 57.050 30.769 0.00 0.00 0.00 3.53
4111 9608 8.950007 ATTTTTACTACTCCCTTCATTCCAAA 57.050 30.769 0.00 0.00 0.00 3.28
4112 9609 8.770010 TTTTTACTACTCCCTTCATTCCAAAA 57.230 30.769 0.00 0.00 0.00 2.44
4113 9610 8.950007 TTTTACTACTCCCTTCATTCCAAAAT 57.050 30.769 0.00 0.00 0.00 1.82
4118 9615 9.004231 ACTACTCCCTTCATTCCAAAATATAGT 57.996 33.333 0.00 0.00 0.00 2.12
4119 9616 9.277783 CTACTCCCTTCATTCCAAAATATAGTG 57.722 37.037 0.00 0.00 0.00 2.74
4120 9617 6.547510 ACTCCCTTCATTCCAAAATATAGTGC 59.452 38.462 0.00 0.00 0.00 4.40
4121 9618 6.430864 TCCCTTCATTCCAAAATATAGTGCA 58.569 36.000 0.00 0.00 0.00 4.57
4122 9619 6.321181 TCCCTTCATTCCAAAATATAGTGCAC 59.679 38.462 9.40 9.40 0.00 4.57
4123 9620 6.461509 CCCTTCATTCCAAAATATAGTGCACC 60.462 42.308 14.63 0.00 0.00 5.01
4124 9621 6.461509 CCTTCATTCCAAAATATAGTGCACCC 60.462 42.308 14.63 0.00 0.00 4.61
4125 9622 4.578516 TCATTCCAAAATATAGTGCACCCG 59.421 41.667 14.63 0.00 0.00 5.28
4126 9623 2.294074 TCCAAAATATAGTGCACCCGC 58.706 47.619 14.63 0.00 39.24 6.13
4127 9624 1.002900 CCAAAATATAGTGCACCCGCG 60.003 52.381 14.63 0.00 42.97 6.46
4128 9625 1.668751 CAAAATATAGTGCACCCGCGT 59.331 47.619 14.63 0.00 42.97 6.01
4129 9626 2.032680 AAATATAGTGCACCCGCGTT 57.967 45.000 14.63 0.00 42.97 4.84
4130 9627 2.032680 AATATAGTGCACCCGCGTTT 57.967 45.000 14.63 0.00 42.97 3.60
4131 9628 2.032680 ATATAGTGCACCCGCGTTTT 57.967 45.000 14.63 0.00 42.97 2.43
4132 9629 1.361793 TATAGTGCACCCGCGTTTTC 58.638 50.000 14.63 0.00 42.97 2.29
4133 9630 1.303091 ATAGTGCACCCGCGTTTTCC 61.303 55.000 14.63 0.00 42.97 3.13
4134 9631 4.676586 GTGCACCCGCGTTTTCCG 62.677 66.667 5.22 0.00 42.97 4.30
4135 9632 4.912485 TGCACCCGCGTTTTCCGA 62.912 61.111 4.92 0.00 42.97 4.55
4136 9633 4.084888 GCACCCGCGTTTTCCGAG 62.085 66.667 4.92 0.00 39.56 4.63
4141 9638 2.356553 CGCGTTTTCCGAGGTCCA 60.357 61.111 0.00 0.00 39.56 4.02
4142 9639 1.957186 CGCGTTTTCCGAGGTCCAA 60.957 57.895 0.00 0.00 39.56 3.53
4143 9640 1.572941 GCGTTTTCCGAGGTCCAAC 59.427 57.895 0.00 0.00 39.56 3.77
4144 9641 0.883370 GCGTTTTCCGAGGTCCAACT 60.883 55.000 0.00 0.00 39.56 3.16
4145 9642 1.589803 CGTTTTCCGAGGTCCAACTT 58.410 50.000 0.00 0.00 39.56 2.66
4146 9643 1.944709 CGTTTTCCGAGGTCCAACTTT 59.055 47.619 0.00 0.00 39.56 2.66
4147 9644 2.286772 CGTTTTCCGAGGTCCAACTTTG 60.287 50.000 0.00 0.00 39.56 2.77
4148 9645 2.946990 GTTTTCCGAGGTCCAACTTTGA 59.053 45.455 0.00 0.00 0.00 2.69
4149 9646 2.249844 TTCCGAGGTCCAACTTTGAC 57.750 50.000 0.00 0.00 0.00 3.18
4150 9647 0.395312 TCCGAGGTCCAACTTTGACC 59.605 55.000 4.16 4.16 39.18 4.02
4151 9648 0.107831 CCGAGGTCCAACTTTGACCA 59.892 55.000 13.24 0.00 41.22 4.02
4152 9649 1.271379 CCGAGGTCCAACTTTGACCAT 60.271 52.381 13.24 0.72 41.22 3.55
4153 9650 2.027561 CCGAGGTCCAACTTTGACCATA 60.028 50.000 13.24 0.00 41.22 2.74
4154 9651 3.558321 CCGAGGTCCAACTTTGACCATAA 60.558 47.826 13.24 0.00 41.22 1.90
4155 9652 4.069304 CGAGGTCCAACTTTGACCATAAA 58.931 43.478 13.24 0.00 41.22 1.40
4156 9653 4.700213 CGAGGTCCAACTTTGACCATAAAT 59.300 41.667 13.24 0.00 41.22 1.40
4157 9654 5.183140 CGAGGTCCAACTTTGACCATAAATT 59.817 40.000 13.24 0.00 41.22 1.82
4158 9655 6.294508 CGAGGTCCAACTTTGACCATAAATTT 60.295 38.462 13.24 0.00 41.22 1.82
4159 9656 7.094549 CGAGGTCCAACTTTGACCATAAATTTA 60.095 37.037 13.24 0.00 41.22 1.40
4160 9657 8.485578 AGGTCCAACTTTGACCATAAATTTAA 57.514 30.769 13.24 0.00 41.22 1.52
4161 9658 8.364894 AGGTCCAACTTTGACCATAAATTTAAC 58.635 33.333 13.24 0.00 41.22 2.01
4162 9659 7.601130 GGTCCAACTTTGACCATAAATTTAACC 59.399 37.037 1.21 0.00 38.76 2.85
4163 9660 8.145122 GTCCAACTTTGACCATAAATTTAACCA 58.855 33.333 1.21 0.00 0.00 3.67
4164 9661 8.705594 TCCAACTTTGACCATAAATTTAACCAA 58.294 29.630 1.21 2.19 0.00 3.67
4165 9662 8.769891 CCAACTTTGACCATAAATTTAACCAAC 58.230 33.333 1.21 0.00 0.00 3.77
4166 9663 8.484008 CAACTTTGACCATAAATTTAACCAACG 58.516 33.333 1.21 5.06 0.00 4.10
4167 9664 7.942990 ACTTTGACCATAAATTTAACCAACGA 58.057 30.769 1.21 0.00 0.00 3.85
4168 9665 8.079809 ACTTTGACCATAAATTTAACCAACGAG 58.920 33.333 1.21 3.35 0.00 4.18
4169 9666 7.747155 TTGACCATAAATTTAACCAACGAGA 57.253 32.000 1.21 0.00 0.00 4.04
4170 9667 7.136289 TGACCATAAATTTAACCAACGAGAC 57.864 36.000 1.21 0.00 0.00 3.36
4171 9668 6.149807 TGACCATAAATTTAACCAACGAGACC 59.850 38.462 1.21 0.00 0.00 3.85
4172 9669 6.005198 ACCATAAATTTAACCAACGAGACCA 58.995 36.000 1.21 0.00 0.00 4.02
4173 9670 6.490721 ACCATAAATTTAACCAACGAGACCAA 59.509 34.615 1.21 0.00 0.00 3.67
4174 9671 6.804783 CCATAAATTTAACCAACGAGACCAAC 59.195 38.462 1.21 0.00 0.00 3.77
4175 9672 7.308951 CCATAAATTTAACCAACGAGACCAACT 60.309 37.037 1.21 0.00 0.00 3.16
4176 9673 5.432885 AATTTAACCAACGAGACCAACTG 57.567 39.130 0.00 0.00 0.00 3.16
4177 9674 1.873698 TAACCAACGAGACCAACTGC 58.126 50.000 0.00 0.00 0.00 4.40
4178 9675 1.157870 AACCAACGAGACCAACTGCG 61.158 55.000 0.00 0.00 0.00 5.18
4179 9676 2.317609 CCAACGAGACCAACTGCGG 61.318 63.158 0.00 0.00 0.00 5.69
4180 9677 2.665185 AACGAGACCAACTGCGGC 60.665 61.111 0.00 0.00 0.00 6.53
4183 9680 4.681978 GAGACCAACTGCGGCGGT 62.682 66.667 9.04 9.04 35.12 5.68
4184 9681 3.291101 GAGACCAACTGCGGCGGTA 62.291 63.158 15.95 0.00 31.63 4.02
4185 9682 2.813908 GACCAACTGCGGCGGTAG 60.814 66.667 15.95 12.26 31.63 3.18
4186 9683 3.291101 GACCAACTGCGGCGGTAGA 62.291 63.158 15.95 0.00 31.63 2.59
4187 9684 2.047655 CCAACTGCGGCGGTAGAA 60.048 61.111 15.95 0.00 0.00 2.10
4188 9685 1.669760 CCAACTGCGGCGGTAGAAA 60.670 57.895 15.95 0.00 0.00 2.52
4189 9686 1.231958 CCAACTGCGGCGGTAGAAAA 61.232 55.000 15.95 0.00 0.00 2.29
4190 9687 0.589223 CAACTGCGGCGGTAGAAAAA 59.411 50.000 15.95 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
249 250 2.126888 CATGTTTGCACGACGGGC 60.127 61.111 16.93 16.93 0.00 6.13
383 399 2.791927 GACCGCGGCCTTCAATTC 59.208 61.111 28.58 8.97 0.00 2.17
458 479 1.227497 GAGGCTTGGAGGAGATGCG 60.227 63.158 0.00 0.00 0.00 4.73
460 481 1.227497 GCGAGGCTTGGAGGAGATG 60.227 63.158 3.44 0.00 0.00 2.90
461 482 2.790791 CGCGAGGCTTGGAGGAGAT 61.791 63.158 0.00 0.00 0.00 2.75
462 483 3.452786 CGCGAGGCTTGGAGGAGA 61.453 66.667 0.00 0.00 0.00 3.71
477 498 3.567797 GGGAGATTCTGCGTGCGC 61.568 66.667 9.85 9.85 42.35 6.09
579 619 2.352715 CCGTTTGATGCTTCCCTTTTCC 60.353 50.000 0.00 0.00 0.00 3.13
669 4414 1.212935 CAAAGTATCCTCCCACCCCTG 59.787 57.143 0.00 0.00 0.00 4.45
675 4432 1.559682 GAGCACCAAAGTATCCTCCCA 59.440 52.381 0.00 0.00 0.00 4.37
699 4456 2.014010 ATTTTCAGCACCACCACCAT 57.986 45.000 0.00 0.00 0.00 3.55
700 4457 1.786937 AATTTTCAGCACCACCACCA 58.213 45.000 0.00 0.00 0.00 4.17
716 4476 1.550072 ACAGCAAAGCGGCCATTAATT 59.450 42.857 2.24 0.00 0.00 1.40
717 4477 1.134946 GACAGCAAAGCGGCCATTAAT 59.865 47.619 2.24 0.00 0.00 1.40
724 4484 4.090057 GACGGACAGCAAAGCGGC 62.090 66.667 0.00 0.00 0.00 6.53
874 4634 0.597637 ATCGATCGGTGTTGATCCGC 60.598 55.000 16.41 0.00 46.49 5.54
881 4641 4.444388 CGTGAATGAATATCGATCGGTGTT 59.556 41.667 16.41 13.32 0.00 3.32
883 4643 3.364920 CCGTGAATGAATATCGATCGGTG 59.635 47.826 16.41 0.00 0.00 4.94
890 4650 1.125021 GCTCGCCGTGAATGAATATCG 59.875 52.381 0.00 0.00 0.00 2.92
906 4666 1.807573 GAAGCGGACAGAAGGCTCG 60.808 63.158 0.00 0.00 35.64 5.03
911 4671 1.407258 CTAGGGAGAAGCGGACAGAAG 59.593 57.143 0.00 0.00 0.00 2.85
912 4672 1.272536 ACTAGGGAGAAGCGGACAGAA 60.273 52.381 0.00 0.00 0.00 3.02
914 4674 1.135333 GAACTAGGGAGAAGCGGACAG 59.865 57.143 0.00 0.00 0.00 3.51
915 4675 1.183549 GAACTAGGGAGAAGCGGACA 58.816 55.000 0.00 0.00 0.00 4.02
917 4677 1.272536 ACTGAACTAGGGAGAAGCGGA 60.273 52.381 0.00 0.00 0.00 5.54
918 4678 1.135333 GACTGAACTAGGGAGAAGCGG 59.865 57.143 0.00 0.00 0.00 5.52
919 4679 1.202200 CGACTGAACTAGGGAGAAGCG 60.202 57.143 0.00 0.00 0.00 4.68
922 4682 0.809385 CGCGACTGAACTAGGGAGAA 59.191 55.000 0.00 0.00 0.00 2.87
925 4685 1.654954 GCTCGCGACTGAACTAGGGA 61.655 60.000 3.71 0.00 0.00 4.20
926 4686 1.226717 GCTCGCGACTGAACTAGGG 60.227 63.158 3.71 0.00 0.00 3.53
928 4688 1.424240 TCGCTCGCGACTGAACTAG 59.576 57.895 3.71 0.00 44.01 2.57
929 4689 3.569902 TCGCTCGCGACTGAACTA 58.430 55.556 3.71 0.00 44.01 2.24
937 4697 3.200593 GAGGTAGGTCGCTCGCGA 61.201 66.667 9.26 9.26 46.87 5.87
938 4698 3.506096 TGAGGTAGGTCGCTCGCG 61.506 66.667 0.00 0.00 41.35 5.87
939 4699 2.102553 GTGAGGTAGGTCGCTCGC 59.897 66.667 0.00 0.00 0.00 5.03
940 4700 2.403987 CGTGAGGTAGGTCGCTCG 59.596 66.667 0.00 0.00 0.00 5.03
966 4740 3.827784 CGTGAAGGAAGCGACGCG 61.828 66.667 15.18 3.53 0.00 6.01
967 4741 3.479269 CCGTGAAGGAAGCGACGC 61.479 66.667 13.03 13.03 45.00 5.19
968 4742 3.479269 GCCGTGAAGGAAGCGACG 61.479 66.667 0.00 0.00 45.00 5.12
3020 8058 4.796231 GCTCGATGACGGTGGCGT 62.796 66.667 0.00 0.00 40.21 5.68
3021 8059 4.498520 AGCTCGATGACGGTGGCG 62.499 66.667 0.00 0.00 40.21 5.69
3219 8706 0.890090 GACGGGGAGTAGAGGATCCG 60.890 65.000 5.98 0.00 42.69 4.18
3402 8889 6.207810 AGAGTTCATCTCGTTGTCTTCTTACT 59.792 38.462 0.00 0.00 46.86 2.24
3405 8892 5.461032 AGAGTTCATCTCGTTGTCTTCTT 57.539 39.130 0.00 0.00 46.86 2.52
3406 8893 5.392595 GCTAGAGTTCATCTCGTTGTCTTCT 60.393 44.000 0.00 0.00 46.86 2.85
3426 8918 2.444140 ACACCCCCGCTAGGCTAG 60.444 66.667 17.33 17.33 35.76 3.42
3427 8919 2.443390 GACACCCCCGCTAGGCTA 60.443 66.667 0.00 0.00 35.76 3.93
3430 8922 4.143333 CACGACACCCCCGCTAGG 62.143 72.222 0.00 0.00 37.24 3.02
3492 8984 2.821991 ACTCAACACAGCTGGAGTAC 57.178 50.000 19.93 0.00 38.74 2.73
3560 9056 1.234821 TAAACAAGTGGGCGAGCAAG 58.765 50.000 0.00 0.00 0.00 4.01
3566 9062 3.428534 GCAAGATTTTAAACAAGTGGGCG 59.571 43.478 0.00 0.00 0.00 6.13
3602 9098 0.655733 AAGCAAAGAACGTCACACCG 59.344 50.000 0.00 0.00 0.00 4.94
3619 9115 3.438781 TCACTAGTTAATTTGGCGCCAAG 59.561 43.478 37.88 27.04 37.24 3.61
3627 9123 7.931578 TGTGGGGTAATCACTAGTTAATTTG 57.068 36.000 0.00 0.00 36.21 2.32
3695 9191 4.762251 GGCACTTGAATATGTTATCTCCCC 59.238 45.833 0.00 0.00 0.00 4.81
3729 9226 1.920532 GTCCCCCTCCATTACCCAC 59.079 63.158 0.00 0.00 0.00 4.61
3784 9281 1.264141 CGCATTTCGATCATTGCCGC 61.264 55.000 0.00 0.00 41.67 6.53
3841 9338 2.537792 CTTGCTTGCCATCCACAGCG 62.538 60.000 0.00 0.00 33.26 5.18
3848 9345 0.899717 TCCAACCCTTGCTTGCCATC 60.900 55.000 0.00 0.00 0.00 3.51
3852 9349 0.609131 TAGCTCCAACCCTTGCTTGC 60.609 55.000 0.00 0.00 37.02 4.01
3853 9350 1.457346 CTAGCTCCAACCCTTGCTTG 58.543 55.000 0.00 0.00 37.02 4.01
3854 9351 0.322906 GCTAGCTCCAACCCTTGCTT 60.323 55.000 7.70 0.00 37.02 3.91
3855 9352 1.301293 GCTAGCTCCAACCCTTGCT 59.699 57.895 7.70 0.00 39.30 3.91
3868 9365 1.620819 TCCTATGCTAGGCTTGCTAGC 59.379 52.381 20.97 12.01 45.82 3.42
3886 9383 4.762251 GCCTCAATATTGGTTCCATACTCC 59.238 45.833 15.36 0.00 0.00 3.85
3887 9384 4.762251 GGCCTCAATATTGGTTCCATACTC 59.238 45.833 15.36 0.00 0.00 2.59
3911 9408 5.179368 TCGACAAGTTTCATTCAGTTCATCC 59.821 40.000 0.00 0.00 0.00 3.51
3934 9431 5.795972 AGGTGCTACTCTAAGAAAGGTTTC 58.204 41.667 0.00 0.00 37.45 2.78
3937 9434 3.770388 GGAGGTGCTACTCTAAGAAAGGT 59.230 47.826 7.89 0.00 37.63 3.50
3945 9442 5.084519 TCAGAAAAAGGAGGTGCTACTCTA 58.915 41.667 7.89 0.00 37.63 2.43
3982 9479 7.355101 TCATCTAGGAGTACCACTAATGAAGT 58.645 38.462 11.96 0.00 39.81 3.01
4010 9507 5.585047 GGGACTACAAATAGTTGGCTTACAG 59.415 44.000 7.93 0.00 41.98 2.74
4011 9508 5.493809 GGGACTACAAATAGTTGGCTTACA 58.506 41.667 7.93 0.00 41.98 2.41
4012 9509 4.880120 GGGGACTACAAATAGTTGGCTTAC 59.120 45.833 7.93 0.00 41.98 2.34
4013 9510 4.080186 GGGGGACTACAAATAGTTGGCTTA 60.080 45.833 7.93 0.00 41.98 3.09
4014 9511 3.308904 GGGGGACTACAAATAGTTGGCTT 60.309 47.826 7.93 0.00 41.98 4.35
4015 9512 2.241430 GGGGGACTACAAATAGTTGGCT 59.759 50.000 7.93 0.00 41.98 4.75
4016 9513 2.651455 GGGGGACTACAAATAGTTGGC 58.349 52.381 7.93 0.00 41.98 4.52
4033 9530 3.214328 CTCTATTTCACATTTCCGGGGG 58.786 50.000 0.00 0.00 0.00 5.40
4034 9531 3.886123 ACTCTATTTCACATTTCCGGGG 58.114 45.455 0.00 0.00 0.00 5.73
4035 9532 5.671493 ACTACTCTATTTCACATTTCCGGG 58.329 41.667 0.00 0.00 0.00 5.73
4036 9533 8.712285 TTAACTACTCTATTTCACATTTCCGG 57.288 34.615 0.00 0.00 0.00 5.14
4084 9581 8.950007 TGGAATGAAGGGAGTAGTAAAAATTT 57.050 30.769 0.00 0.00 0.00 1.82
4085 9582 8.950007 TTGGAATGAAGGGAGTAGTAAAAATT 57.050 30.769 0.00 0.00 0.00 1.82
4086 9583 8.950007 TTTGGAATGAAGGGAGTAGTAAAAAT 57.050 30.769 0.00 0.00 0.00 1.82
4087 9584 8.770010 TTTTGGAATGAAGGGAGTAGTAAAAA 57.230 30.769 0.00 0.00 0.00 1.94
4088 9585 8.950007 ATTTTGGAATGAAGGGAGTAGTAAAA 57.050 30.769 0.00 0.00 0.00 1.52
4092 9589 9.004231 ACTATATTTTGGAATGAAGGGAGTAGT 57.996 33.333 0.00 0.00 0.00 2.73
4093 9590 9.277783 CACTATATTTTGGAATGAAGGGAGTAG 57.722 37.037 0.00 0.00 0.00 2.57
4094 9591 7.719633 GCACTATATTTTGGAATGAAGGGAGTA 59.280 37.037 0.00 0.00 0.00 2.59
4095 9592 6.547510 GCACTATATTTTGGAATGAAGGGAGT 59.452 38.462 0.00 0.00 0.00 3.85
4096 9593 6.547141 TGCACTATATTTTGGAATGAAGGGAG 59.453 38.462 0.00 0.00 0.00 4.30
4097 9594 6.321181 GTGCACTATATTTTGGAATGAAGGGA 59.679 38.462 10.32 0.00 0.00 4.20
4098 9595 6.461509 GGTGCACTATATTTTGGAATGAAGGG 60.462 42.308 17.98 0.00 0.00 3.95
4099 9596 6.461509 GGGTGCACTATATTTTGGAATGAAGG 60.462 42.308 17.98 0.00 0.00 3.46
4100 9597 6.507023 GGGTGCACTATATTTTGGAATGAAG 58.493 40.000 17.98 0.00 0.00 3.02
4101 9598 5.067153 CGGGTGCACTATATTTTGGAATGAA 59.933 40.000 17.98 0.00 0.00 2.57
4102 9599 4.578516 CGGGTGCACTATATTTTGGAATGA 59.421 41.667 17.98 0.00 0.00 2.57
4103 9600 4.792704 GCGGGTGCACTATATTTTGGAATG 60.793 45.833 17.98 0.00 42.15 2.67
4104 9601 3.317993 GCGGGTGCACTATATTTTGGAAT 59.682 43.478 17.98 0.00 42.15 3.01
4105 9602 2.685897 GCGGGTGCACTATATTTTGGAA 59.314 45.455 17.98 0.00 42.15 3.53
4106 9603 2.294074 GCGGGTGCACTATATTTTGGA 58.706 47.619 17.98 0.00 42.15 3.53
4107 9604 1.002900 CGCGGGTGCACTATATTTTGG 60.003 52.381 17.98 0.00 42.97 3.28
4108 9605 1.668751 ACGCGGGTGCACTATATTTTG 59.331 47.619 17.98 1.69 42.97 2.44
4109 9606 2.032680 ACGCGGGTGCACTATATTTT 57.967 45.000 17.98 0.00 42.97 1.82
4110 9607 2.032680 AACGCGGGTGCACTATATTT 57.967 45.000 17.98 2.31 42.97 1.40
4111 9608 2.032680 AAACGCGGGTGCACTATATT 57.967 45.000 17.98 2.54 42.97 1.28
4112 9609 1.937899 GAAAACGCGGGTGCACTATAT 59.062 47.619 17.98 0.00 42.97 0.86
4113 9610 1.361793 GAAAACGCGGGTGCACTATA 58.638 50.000 17.98 0.00 42.97 1.31
4114 9611 1.303091 GGAAAACGCGGGTGCACTAT 61.303 55.000 17.98 0.00 42.97 2.12
4115 9612 1.962306 GGAAAACGCGGGTGCACTA 60.962 57.895 17.98 0.00 42.97 2.74
4116 9613 3.284449 GGAAAACGCGGGTGCACT 61.284 61.111 17.98 0.00 42.97 4.40
4117 9614 4.676586 CGGAAAACGCGGGTGCAC 62.677 66.667 12.47 8.80 42.97 4.57
4118 9615 4.912485 TCGGAAAACGCGGGTGCA 62.912 61.111 12.47 0.00 43.86 4.57
4119 9616 4.084888 CTCGGAAAACGCGGGTGC 62.085 66.667 12.47 0.00 43.86 5.01
4120 9617 3.419759 CCTCGGAAAACGCGGGTG 61.420 66.667 12.47 0.00 43.58 4.61
4124 9621 1.957186 TTGGACCTCGGAAAACGCG 60.957 57.895 3.53 3.53 43.86 6.01
4125 9622 0.883370 AGTTGGACCTCGGAAAACGC 60.883 55.000 0.00 0.00 43.86 4.84
4126 9623 1.589803 AAGTTGGACCTCGGAAAACG 58.410 50.000 0.00 0.00 46.11 3.60
4127 9624 2.946990 TCAAAGTTGGACCTCGGAAAAC 59.053 45.455 0.00 0.00 0.00 2.43
4128 9625 2.946990 GTCAAAGTTGGACCTCGGAAAA 59.053 45.455 0.00 0.00 0.00 2.29
4129 9626 2.567985 GTCAAAGTTGGACCTCGGAAA 58.432 47.619 0.00 0.00 0.00 3.13
4130 9627 2.249844 GTCAAAGTTGGACCTCGGAA 57.750 50.000 0.00 0.00 0.00 4.30
4137 9634 8.145122 TGGTTAAATTTATGGTCAAAGTTGGAC 58.855 33.333 1.31 1.31 29.44 4.02
4138 9635 8.251383 TGGTTAAATTTATGGTCAAAGTTGGA 57.749 30.769 0.00 0.00 29.44 3.53
4139 9636 8.769891 GTTGGTTAAATTTATGGTCAAAGTTGG 58.230 33.333 0.00 0.00 29.44 3.77
4140 9637 8.484008 CGTTGGTTAAATTTATGGTCAAAGTTG 58.516 33.333 0.00 0.00 29.44 3.16
4141 9638 8.414778 TCGTTGGTTAAATTTATGGTCAAAGTT 58.585 29.630 0.00 0.00 31.36 2.66
4142 9639 7.942990 TCGTTGGTTAAATTTATGGTCAAAGT 58.057 30.769 0.00 0.00 0.00 2.66
4143 9640 8.293867 TCTCGTTGGTTAAATTTATGGTCAAAG 58.706 33.333 0.00 4.88 0.00 2.77
4144 9641 8.077386 GTCTCGTTGGTTAAATTTATGGTCAAA 58.923 33.333 0.00 0.00 0.00 2.69
4145 9642 7.308710 GGTCTCGTTGGTTAAATTTATGGTCAA 60.309 37.037 0.00 0.00 0.00 3.18
4146 9643 6.149807 GGTCTCGTTGGTTAAATTTATGGTCA 59.850 38.462 0.00 0.00 0.00 4.02
4147 9644 6.149807 TGGTCTCGTTGGTTAAATTTATGGTC 59.850 38.462 0.00 0.00 0.00 4.02
4148 9645 6.005198 TGGTCTCGTTGGTTAAATTTATGGT 58.995 36.000 0.00 0.00 0.00 3.55
4149 9646 6.503589 TGGTCTCGTTGGTTAAATTTATGG 57.496 37.500 0.00 0.00 0.00 2.74
4150 9647 7.537306 CAGTTGGTCTCGTTGGTTAAATTTATG 59.463 37.037 0.00 0.00 0.00 1.90
4151 9648 7.590279 CAGTTGGTCTCGTTGGTTAAATTTAT 58.410 34.615 0.00 0.00 0.00 1.40
4152 9649 6.513720 GCAGTTGGTCTCGTTGGTTAAATTTA 60.514 38.462 0.00 0.00 0.00 1.40
4153 9650 5.735070 GCAGTTGGTCTCGTTGGTTAAATTT 60.735 40.000 0.00 0.00 0.00 1.82
4154 9651 4.261447 GCAGTTGGTCTCGTTGGTTAAATT 60.261 41.667 0.00 0.00 0.00 1.82
4155 9652 3.252458 GCAGTTGGTCTCGTTGGTTAAAT 59.748 43.478 0.00 0.00 0.00 1.40
4156 9653 2.614983 GCAGTTGGTCTCGTTGGTTAAA 59.385 45.455 0.00 0.00 0.00 1.52
4157 9654 2.215196 GCAGTTGGTCTCGTTGGTTAA 58.785 47.619 0.00 0.00 0.00 2.01
4158 9655 1.870580 CGCAGTTGGTCTCGTTGGTTA 60.871 52.381 0.00 0.00 0.00 2.85
4159 9656 1.157870 CGCAGTTGGTCTCGTTGGTT 61.158 55.000 0.00 0.00 0.00 3.67
4160 9657 1.594293 CGCAGTTGGTCTCGTTGGT 60.594 57.895 0.00 0.00 0.00 3.67
4161 9658 2.317609 CCGCAGTTGGTCTCGTTGG 61.318 63.158 0.00 0.00 0.00 3.77
4162 9659 2.954753 GCCGCAGTTGGTCTCGTTG 61.955 63.158 0.00 0.00 0.00 4.10
4163 9660 2.665185 GCCGCAGTTGGTCTCGTT 60.665 61.111 0.00 0.00 0.00 3.85
4166 9663 3.291101 TACCGCCGCAGTTGGTCTC 62.291 63.158 0.00 0.00 37.20 3.36
4167 9664 3.296709 CTACCGCCGCAGTTGGTCT 62.297 63.158 0.00 0.00 37.20 3.85
4168 9665 2.775032 TTCTACCGCCGCAGTTGGTC 62.775 60.000 0.00 0.00 37.20 4.02
4169 9666 2.386064 TTTCTACCGCCGCAGTTGGT 62.386 55.000 0.00 0.00 39.80 3.67
4170 9667 1.231958 TTTTCTACCGCCGCAGTTGG 61.232 55.000 0.00 0.00 0.00 3.77
4171 9668 0.589223 TTTTTCTACCGCCGCAGTTG 59.411 50.000 0.00 0.00 0.00 3.16
4172 9669 3.009612 TTTTTCTACCGCCGCAGTT 57.990 47.368 0.00 0.00 0.00 3.16
4173 9670 4.783667 TTTTTCTACCGCCGCAGT 57.216 50.000 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.