Multiple sequence alignment - TraesCS4B01G065500

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 TraesCS4B01G065500 chr4B 100.000 4026 0 0 1 4026 58248403 58252428 0.000000e+00 7435.0
1 TraesCS4B01G065500 chr4A 86.229 2026 146 66 839 2792 560319694 560317730 0.000000e+00 2073.0
2 TraesCS4B01G065500 chr4A 89.713 593 43 12 2834 3415 560317516 560316931 0.000000e+00 741.0
3 TraesCS4B01G065500 chr4A 89.083 458 32 9 3509 3963 560316930 560316488 1.640000e-153 553.0
4 TraesCS4B01G065500 chr4A 84.637 358 27 15 306 654 560320044 560319706 8.340000e-87 331.0
5 TraesCS4B01G065500 chr4A 86.392 316 26 9 2 304 560320456 560320145 3.000000e-86 329.0
6 TraesCS4B01G065500 chr4D 86.477 1686 113 63 295 1921 39979060 39980689 0.000000e+00 1744.0
7 TraesCS4B01G065500 chr4D 90.828 1123 66 16 2873 3963 39981570 39982687 0.000000e+00 1469.0
8 TraesCS4B01G065500 chr4D 86.143 700 45 17 2120 2789 39980756 39981433 0.000000e+00 708.0
9 TraesCS4B01G065500 chr4D 87.761 335 25 7 5 324 39978662 39978995 1.060000e-100 377.0
10 TraesCS4B01G065500 chr4D 97.561 41 1 0 3983 4023 39982674 39982714 2.010000e-08 71.3


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 TraesCS4B01G065500 chr4B 58248403 58252428 4025 False 7435.00 7435 100.0000 1 4026 1 chr4B.!!$F1 4025
1 TraesCS4B01G065500 chr4A 560316488 560320456 3968 True 805.40 2073 87.2108 2 3963 5 chr4A.!!$R1 3961
2 TraesCS4B01G065500 chr4D 39978662 39982714 4052 False 873.86 1744 89.7540 5 4023 5 chr4D.!!$F1 4018

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
844 1010 0.178932 ACCAGACCAGAGTAGGCACA 60.179 55.0 0.0 0.0 0.00 4.57 F
1132 1339 0.108567 GACGGGGAGACTGCTTCTTC 60.109 60.0 0.0 0.0 33.22 2.87 F
2649 2956 0.182061 AAGATCCACAGCATCGGCAT 59.818 50.0 0.0 0.0 44.61 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1673 1930 1.003839 GCCACCTGACGATCACCAA 60.004 57.895 0.0 0.0 0.0 3.67 R
2871 3366 1.007502 CACCCACAAACACATGCCG 60.008 57.895 0.0 0.0 0.0 5.69 R
3650 4168 1.089920 CCTCCAGGTTTTGCATCTCG 58.910 55.000 0.0 0.0 0.0 4.04 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
23 25 2.253452 GAGCACGCAAGGCAACAG 59.747 61.111 0.00 0.00 46.39 3.16
55 57 5.790495 CGATCGACCAAAGAAAAGAAATCAC 59.210 40.000 10.26 0.00 0.00 3.06
100 106 1.011131 GATCGGCGGCGAAATGAAC 60.011 57.895 37.73 19.40 0.00 3.18
103 109 2.097728 GGCGGCGAAATGAACGAC 59.902 61.111 12.98 0.00 35.25 4.34
130 136 0.467384 ACTCTGGGCTTCATGATCCG 59.533 55.000 0.00 0.00 0.00 4.18
133 139 1.442526 CTGGGCTTCATGATCCGCAC 61.443 60.000 12.37 9.94 0.00 5.34
136 142 0.882042 GGCTTCATGATCCGCACGAT 60.882 55.000 12.37 0.00 0.00 3.73
140 146 2.307934 TCATGATCCGCACGATTGAA 57.692 45.000 0.00 0.00 0.00 2.69
142 148 2.545106 TCATGATCCGCACGATTGAATG 59.455 45.455 0.00 0.00 0.00 2.67
148 154 4.073169 TCCGCACGATTGAATGTTTTAC 57.927 40.909 0.00 0.00 0.00 2.01
183 211 1.227380 GCGCCGTCCTGATCTGATT 60.227 57.895 0.00 0.00 0.00 2.57
250 278 1.268625 GGACCGATCAACAAACCAACC 59.731 52.381 0.00 0.00 0.00 3.77
251 279 1.950909 GACCGATCAACAAACCAACCA 59.049 47.619 0.00 0.00 0.00 3.67
252 280 2.556622 GACCGATCAACAAACCAACCAT 59.443 45.455 0.00 0.00 0.00 3.55
253 281 2.295909 ACCGATCAACAAACCAACCATG 59.704 45.455 0.00 0.00 0.00 3.66
254 282 2.327568 CGATCAACAAACCAACCATGC 58.672 47.619 0.00 0.00 0.00 4.06
255 283 2.327568 GATCAACAAACCAACCATGCG 58.672 47.619 0.00 0.00 0.00 4.73
304 332 4.442403 CGTCGGTCAAACTGATGAGATATG 59.558 45.833 2.57 0.00 41.83 1.78
314 352 6.608539 ACTGATGAGATATGATTCAGAGGG 57.391 41.667 5.33 0.00 37.75 4.30
455 599 2.124122 CCTGTAACAAAAAGCAACGCC 58.876 47.619 0.00 0.00 0.00 5.68
469 613 5.591643 AGCAACGCCGTTGATAATTATAG 57.408 39.130 32.12 3.20 45.28 1.31
471 615 6.218019 AGCAACGCCGTTGATAATTATAGTA 58.782 36.000 32.12 0.00 45.28 1.82
606 751 1.270839 CCTCTCAGCTCCGGAAACAAA 60.271 52.381 5.23 0.00 0.00 2.83
607 752 2.616510 CCTCTCAGCTCCGGAAACAAAT 60.617 50.000 5.23 0.00 0.00 2.32
608 753 3.369471 CCTCTCAGCTCCGGAAACAAATA 60.369 47.826 5.23 0.00 0.00 1.40
609 754 3.861840 TCTCAGCTCCGGAAACAAATAG 58.138 45.455 5.23 0.00 0.00 1.73
623 768 7.464710 CGGAAACAAATAGCTCTTCAGTCATAC 60.465 40.741 0.00 0.00 0.00 2.39
624 769 7.550906 GGAAACAAATAGCTCTTCAGTCATACT 59.449 37.037 0.00 0.00 0.00 2.12
625 770 8.485976 AAACAAATAGCTCTTCAGTCATACTC 57.514 34.615 0.00 0.00 0.00 2.59
653 798 8.012957 ACAACTGTAGAAGAAGAAGAAGAAGA 57.987 34.615 0.00 0.00 0.00 2.87
656 801 8.472007 ACTGTAGAAGAAGAAGAAGAAGAAGA 57.528 34.615 0.00 0.00 0.00 2.87
657 802 8.919145 ACTGTAGAAGAAGAAGAAGAAGAAGAA 58.081 33.333 0.00 0.00 0.00 2.52
678 823 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
679 824 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
711 857 4.405358 AGTTGAGAAGGGAAAACAATTGCA 59.595 37.500 5.05 0.00 0.00 4.08
829 995 4.974721 GCACCCCACCACCACCAG 62.975 72.222 0.00 0.00 0.00 4.00
830 996 3.174987 CACCCCACCACCACCAGA 61.175 66.667 0.00 0.00 0.00 3.86
831 997 3.175710 ACCCCACCACCACCAGAC 61.176 66.667 0.00 0.00 0.00 3.51
832 998 3.966543 CCCCACCACCACCAGACC 61.967 72.222 0.00 0.00 0.00 3.85
835 1001 2.146724 CCACCACCACCAGACCAGA 61.147 63.158 0.00 0.00 0.00 3.86
836 1002 1.372683 CACCACCACCAGACCAGAG 59.627 63.158 0.00 0.00 0.00 3.35
837 1003 1.074471 ACCACCACCAGACCAGAGT 60.074 57.895 0.00 0.00 0.00 3.24
844 1010 0.178932 ACCAGACCAGAGTAGGCACA 60.179 55.000 0.00 0.00 0.00 4.57
845 1011 0.534412 CCAGACCAGAGTAGGCACAG 59.466 60.000 0.00 0.00 0.00 3.66
851 1017 2.225041 ACCAGAGTAGGCACAGTAGACA 60.225 50.000 0.00 0.00 0.00 3.41
856 1022 0.532573 TAGGCACAGTAGACAGCAGC 59.467 55.000 0.00 0.00 0.00 5.25
888 1059 0.927767 TACTCTCCTCACCCTCCTCC 59.072 60.000 0.00 0.00 0.00 4.30
901 1072 3.212682 CCTCCTAGCGAGCGAGCA 61.213 66.667 9.01 0.00 40.15 4.26
994 1192 0.804989 CCGGACAAGAACAGCAATCC 59.195 55.000 0.00 0.00 0.00 3.01
1005 1209 1.754234 AGCAATCCCGCCAATGGAC 60.754 57.895 2.05 0.00 33.94 4.02
1055 1259 1.000896 CCAAGATGGGCTTCGGGTT 60.001 57.895 0.00 0.00 33.60 4.11
1060 1264 3.659089 ATGGGCTTCGGGTTCGTCG 62.659 63.158 0.00 0.00 37.69 5.12
1075 1282 4.779733 TCGGCCTCCCCTCTGTCC 62.780 72.222 0.00 0.00 0.00 4.02
1093 1300 4.074259 TGTCCGCTACTTGTCTGTACTAA 58.926 43.478 0.00 0.00 0.00 2.24
1096 1303 3.192001 CCGCTACTTGTCTGTACTAACCA 59.808 47.826 0.00 0.00 0.00 3.67
1097 1304 4.321452 CCGCTACTTGTCTGTACTAACCAA 60.321 45.833 0.00 0.00 0.00 3.67
1098 1305 4.620184 CGCTACTTGTCTGTACTAACCAAC 59.380 45.833 0.00 0.00 0.00 3.77
1099 1306 5.564259 CGCTACTTGTCTGTACTAACCAACT 60.564 44.000 0.00 0.00 0.00 3.16
1100 1307 6.348786 CGCTACTTGTCTGTACTAACCAACTA 60.349 42.308 0.00 0.00 0.00 2.24
1101 1308 7.028361 GCTACTTGTCTGTACTAACCAACTAG 58.972 42.308 0.00 0.00 0.00 2.57
1114 1321 1.906574 CCAACTAGTACCCTTGGCTGA 59.093 52.381 0.00 0.00 0.00 4.26
1115 1322 2.354805 CCAACTAGTACCCTTGGCTGAC 60.355 54.545 0.00 0.00 0.00 3.51
1117 1324 0.460311 CTAGTACCCTTGGCTGACGG 59.540 60.000 0.00 0.00 0.00 4.79
1118 1325 0.974010 TAGTACCCTTGGCTGACGGG 60.974 60.000 0.00 0.00 43.79 5.28
1120 1327 3.549433 TACCCTTGGCTGACGGGGA 62.549 63.158 16.72 0.00 42.44 4.81
1121 1328 4.101448 CCCTTGGCTGACGGGGAG 62.101 72.222 5.54 0.00 41.25 4.30
1122 1329 3.003173 CCTTGGCTGACGGGGAGA 61.003 66.667 0.00 0.00 0.00 3.71
1126 1333 4.459089 GGCTGACGGGGAGACTGC 62.459 72.222 0.00 0.00 38.33 4.40
1127 1334 3.386237 GCTGACGGGGAGACTGCT 61.386 66.667 0.00 0.00 36.78 4.24
1128 1335 2.948720 GCTGACGGGGAGACTGCTT 61.949 63.158 0.00 0.00 36.78 3.91
1129 1336 1.216710 CTGACGGGGAGACTGCTTC 59.783 63.158 0.00 0.00 0.00 3.86
1130 1337 1.228894 TGACGGGGAGACTGCTTCT 60.229 57.895 0.00 0.00 37.23 2.85
1131 1338 0.832135 TGACGGGGAGACTGCTTCTT 60.832 55.000 0.00 0.00 33.22 2.52
1132 1339 0.108567 GACGGGGAGACTGCTTCTTC 60.109 60.000 0.00 0.00 33.22 2.87
1133 1340 1.153745 CGGGGAGACTGCTTCTTCG 60.154 63.158 0.00 0.00 33.22 3.79
1134 1341 1.878656 CGGGGAGACTGCTTCTTCGT 61.879 60.000 0.00 0.00 33.22 3.85
1141 1348 1.980156 GACTGCTTCTTCGTCTTCGTC 59.020 52.381 0.00 0.00 38.33 4.20
1150 1357 2.837280 GTCTTCGTCGTGTGTGCG 59.163 61.111 0.00 0.00 0.00 5.34
1252 1459 2.574399 GACTCCACGGTCTCTGCC 59.426 66.667 0.00 0.00 33.81 4.85
1265 1472 2.125065 CTGCCCTGCTCTGCTCTG 60.125 66.667 0.00 0.00 0.00 3.35
1287 1494 3.429410 GCCTCTCTTCTCTTTGCTCTCTC 60.429 52.174 0.00 0.00 0.00 3.20
1298 1505 0.324183 TGCTCTCTCCTCTGGTCTGG 60.324 60.000 0.00 0.00 0.00 3.86
1470 1693 7.126421 ACTGCTTCCTCCTCTTCATTTCTTATA 59.874 37.037 0.00 0.00 0.00 0.98
1471 1694 7.275920 TGCTTCCTCCTCTTCATTTCTTATAC 58.724 38.462 0.00 0.00 0.00 1.47
1488 1722 9.449719 TTTCTTATACTCCCATCTTGTTTCTTC 57.550 33.333 0.00 0.00 0.00 2.87
1508 1743 5.586243 TCTTCACTTCACCTTCTTCAACTTG 59.414 40.000 0.00 0.00 0.00 3.16
1537 1772 5.516090 TCGCTAACAAAACAACATTTCCTC 58.484 37.500 0.00 0.00 0.00 3.71
1539 1774 5.625311 CGCTAACAAAACAACATTTCCTCTC 59.375 40.000 0.00 0.00 0.00 3.20
1540 1775 5.920840 GCTAACAAAACAACATTTCCTCTCC 59.079 40.000 0.00 0.00 0.00 3.71
1593 1843 0.533755 GCAGCCGGTTAGCATCTGAT 60.534 55.000 1.90 0.00 34.23 2.90
1606 1856 1.347050 CATCTGATGGCGATTCCCTCT 59.653 52.381 9.82 0.00 31.53 3.69
1633 1883 5.008118 AGTTTCTTCTTTCTTGTGCTGCTAC 59.992 40.000 0.00 0.00 0.00 3.58
1640 1890 5.696724 TCTTTCTTGTGCTGCTACTAGTTTC 59.303 40.000 0.00 0.00 0.00 2.78
1641 1891 4.600692 TCTTGTGCTGCTACTAGTTTCA 57.399 40.909 0.00 0.00 0.00 2.69
1642 1892 4.560128 TCTTGTGCTGCTACTAGTTTCAG 58.440 43.478 15.68 15.68 0.00 3.02
1643 1893 4.280929 TCTTGTGCTGCTACTAGTTTCAGA 59.719 41.667 21.27 8.96 0.00 3.27
1644 1894 4.179926 TGTGCTGCTACTAGTTTCAGAG 57.820 45.455 21.27 6.72 0.00 3.35
1645 1895 3.574396 TGTGCTGCTACTAGTTTCAGAGT 59.426 43.478 21.27 0.00 0.00 3.24
1646 1896 4.039245 TGTGCTGCTACTAGTTTCAGAGTT 59.961 41.667 21.27 0.00 0.00 3.01
1663 1913 6.464222 TCAGAGTTGAGTTTGGGTATAACAG 58.536 40.000 0.00 0.00 0.00 3.16
1664 1914 6.269077 TCAGAGTTGAGTTTGGGTATAACAGA 59.731 38.462 0.00 0.00 0.00 3.41
1665 1915 7.038302 TCAGAGTTGAGTTTGGGTATAACAGAT 60.038 37.037 0.00 0.00 0.00 2.90
1666 1916 7.607991 CAGAGTTGAGTTTGGGTATAACAGATT 59.392 37.037 0.00 0.00 0.00 2.40
1673 1930 7.182060 AGTTTGGGTATAACAGATTGATTGGT 58.818 34.615 0.00 0.00 0.00 3.67
1682 1939 3.691118 ACAGATTGATTGGTTGGTGATCG 59.309 43.478 0.00 0.00 0.00 3.69
1785 2042 4.743057 TGTGAGAATGAGATCCATCGTT 57.257 40.909 0.00 0.00 33.53 3.85
1811 2074 3.249189 TGTCCCTGTCCCTGTGCC 61.249 66.667 0.00 0.00 0.00 5.01
1812 2075 4.035102 GTCCCTGTCCCTGTGCCC 62.035 72.222 0.00 0.00 0.00 5.36
1818 2081 0.251916 CTGTCCCTGTGCCCGATTTA 59.748 55.000 0.00 0.00 0.00 1.40
1954 2227 7.658982 TCATATCCTCACAACTGATGCTTAATC 59.341 37.037 0.00 0.00 35.67 1.75
1956 2229 3.310774 CCTCACAACTGATGCTTAATCGG 59.689 47.826 0.00 0.00 45.87 4.18
1972 2245 2.961526 TCGGGAGACTGAAAGCATAC 57.038 50.000 0.00 0.00 44.59 2.39
1973 2246 2.176045 TCGGGAGACTGAAAGCATACA 58.824 47.619 0.00 0.00 44.59 2.29
1995 2268 3.615224 AACCAGGCCAAATTATGCAAG 57.385 42.857 5.01 0.00 0.00 4.01
1999 2272 4.961730 ACCAGGCCAAATTATGCAAGATTA 59.038 37.500 5.01 0.00 0.00 1.75
2001 2274 6.782000 ACCAGGCCAAATTATGCAAGATTATA 59.218 34.615 5.01 0.00 0.00 0.98
2002 2275 7.092716 CCAGGCCAAATTATGCAAGATTATAC 58.907 38.462 5.01 0.00 0.00 1.47
2030 2303 8.330302 CAAAATTCACAAATGAGTTTCCACTTC 58.670 33.333 0.00 0.00 42.22 3.01
2040 2313 4.821805 TGAGTTTCCACTTCCATTCAGTTC 59.178 41.667 0.00 0.00 31.22 3.01
2042 2315 6.183361 TGAGTTTCCACTTCCATTCAGTTCTA 60.183 38.462 0.00 0.00 31.22 2.10
2043 2316 5.998363 AGTTTCCACTTCCATTCAGTTCTAC 59.002 40.000 0.00 0.00 0.00 2.59
2100 2375 4.372656 AGCTGACTAACTGAAACTGTGAC 58.627 43.478 0.00 0.00 0.00 3.67
2109 2384 4.388485 ACTGAAACTGTGACACATGCATA 58.612 39.130 9.11 0.00 0.00 3.14
2111 2386 5.122869 ACTGAAACTGTGACACATGCATATC 59.877 40.000 9.11 0.00 0.00 1.63
2112 2387 5.247862 TGAAACTGTGACACATGCATATCT 58.752 37.500 9.11 0.00 0.00 1.98
2113 2388 6.405538 TGAAACTGTGACACATGCATATCTA 58.594 36.000 9.11 0.00 0.00 1.98
2114 2389 7.049754 TGAAACTGTGACACATGCATATCTAT 58.950 34.615 9.11 0.00 0.00 1.98
2115 2390 7.225341 TGAAACTGTGACACATGCATATCTATC 59.775 37.037 9.11 0.00 0.00 2.08
2213 2488 6.430925 CCTTTCATGACACAGTCCTAATTTCA 59.569 38.462 0.00 0.00 0.00 2.69
2226 2512 6.149474 AGTCCTAATTTCAACGATTCCAACTG 59.851 38.462 0.00 0.00 0.00 3.16
2421 2707 1.160329 ACTTGCAGTGCTTCCACGAC 61.160 55.000 17.60 0.00 46.62 4.34
2536 2842 2.223611 AGATAACGCTATCCTCGACGTG 59.776 50.000 0.00 0.00 39.00 4.49
2615 2922 1.227674 GGCCTTAGATGCCGAGGTG 60.228 63.158 0.00 0.00 39.48 4.00
2643 2950 5.426689 TTTCTCAGTAAGATCCACAGCAT 57.573 39.130 0.00 0.00 32.82 3.79
2645 2952 3.067320 TCTCAGTAAGATCCACAGCATCG 59.933 47.826 0.00 0.00 0.00 3.84
2646 2953 2.101415 TCAGTAAGATCCACAGCATCGG 59.899 50.000 0.00 0.00 0.00 4.18
2647 2954 1.202580 AGTAAGATCCACAGCATCGGC 60.203 52.381 0.00 0.00 41.61 5.54
2648 2955 0.829990 TAAGATCCACAGCATCGGCA 59.170 50.000 0.00 0.00 44.61 5.69
2649 2956 0.182061 AAGATCCACAGCATCGGCAT 59.818 50.000 0.00 0.00 44.61 4.40
2690 2997 5.621228 CCTTTTCGTGTGAATTTTCTCTTCG 59.379 40.000 0.00 0.00 33.20 3.79
2749 3062 2.839486 TTTGTCAGATTGAGGCGAGT 57.161 45.000 0.00 0.00 0.00 4.18
2775 3088 1.202927 ACACATGGGAAAGGTCAGTGG 60.203 52.381 0.00 0.00 0.00 4.00
2778 3091 0.482446 ATGGGAAAGGTCAGTGGCAA 59.518 50.000 0.00 0.00 0.00 4.52
2797 3292 4.261578 CAAATTTGCAACTGACCCAGAT 57.738 40.909 5.01 0.00 35.18 2.90
2806 3301 4.702131 GCAACTGACCCAGATTCATTTACT 59.298 41.667 0.45 0.00 35.18 2.24
2810 3305 7.923414 ACTGACCCAGATTCATTTACTAAAC 57.077 36.000 0.45 0.00 35.18 2.01
2814 3309 9.042450 TGACCCAGATTCATTTACTAAACTCTA 57.958 33.333 0.00 0.00 0.00 2.43
2832 3327 4.459685 ACTCTATAAATCCGATGAGACCCG 59.540 45.833 0.00 0.00 0.00 5.28
2869 3364 5.357878 TGATGGTTTTCTGATGCCATTACTC 59.642 40.000 8.75 0.86 41.33 2.59
2870 3365 4.016444 TGGTTTTCTGATGCCATTACTCC 58.984 43.478 0.00 0.00 0.00 3.85
2871 3366 3.381590 GGTTTTCTGATGCCATTACTCCC 59.618 47.826 0.00 0.00 0.00 4.30
3013 3508 1.904771 CAGGGTTGCTCCATCGGTA 59.095 57.895 1.43 0.00 38.11 4.02
3014 3509 0.469917 CAGGGTTGCTCCATCGGTAT 59.530 55.000 1.43 0.00 38.11 2.73
3031 3535 0.398806 TATTGCCGGCCTAGTACCCA 60.399 55.000 26.77 0.00 0.00 4.51
3136 3640 7.762615 GCAGAAGCATTATTATATACGGTACCA 59.237 37.037 13.54 0.00 41.58 3.25
3180 3684 4.860907 CCAATTTGCGAGAAAGAAAGATGG 59.139 41.667 0.00 0.00 0.00 3.51
3184 3688 4.206477 TGCGAGAAAGAAAGATGGATGA 57.794 40.909 0.00 0.00 0.00 2.92
3313 3822 5.799213 TGGAAACTGGTTTGTGAAAAATGT 58.201 33.333 3.30 0.00 32.11 2.71
3333 3842 8.761575 AAATGTTTGGTTTCATATCACACATC 57.238 30.769 0.00 0.00 32.68 3.06
3356 3865 5.247337 TCCGTCCCTATGCATGAATGTATTA 59.753 40.000 10.16 0.00 34.85 0.98
3416 3928 4.569719 AATAGTTTGTCCTTCCCGTCAT 57.430 40.909 0.00 0.00 0.00 3.06
3423 3935 4.837093 TGTCCTTCCCGTCATAAATCTT 57.163 40.909 0.00 0.00 0.00 2.40
3476 3988 5.415221 TGGGTTGTTTTTAGTTGCAAAGAG 58.585 37.500 0.00 0.00 0.00 2.85
3513 4026 7.028962 GCACACATAGCTCACAATTATGAAAA 58.971 34.615 0.00 0.00 0.00 2.29
3539 4052 6.688073 TGAACCAAGGATAAGAGAAAGAGT 57.312 37.500 0.00 0.00 0.00 3.24
3541 4054 5.428184 ACCAAGGATAAGAGAAAGAGTGG 57.572 43.478 0.00 0.00 0.00 4.00
3542 4055 4.226168 ACCAAGGATAAGAGAAAGAGTGGG 59.774 45.833 0.00 0.00 0.00 4.61
3543 4056 4.384647 CCAAGGATAAGAGAAAGAGTGGGG 60.385 50.000 0.00 0.00 0.00 4.96
3544 4057 4.354208 AGGATAAGAGAAAGAGTGGGGA 57.646 45.455 0.00 0.00 0.00 4.81
3545 4058 4.699994 AGGATAAGAGAAAGAGTGGGGAA 58.300 43.478 0.00 0.00 0.00 3.97
3638 4156 4.153117 CACATCCTTCTCAAAAGACTTCCG 59.847 45.833 0.00 0.00 0.00 4.30
3650 4168 6.312918 TCAAAAGACTTCCGCAATATCACTAC 59.687 38.462 0.00 0.00 0.00 2.73
3664 4182 3.678056 TCACTACGAGATGCAAAACCT 57.322 42.857 0.00 0.00 0.00 3.50
3732 4250 7.069569 ACTTGTCAAAGATAATGAAAACGACG 58.930 34.615 0.00 0.00 36.84 5.12
3737 4255 6.866770 TCAAAGATAATGAAAACGACGAGTCT 59.133 34.615 0.00 0.00 0.00 3.24
3748 4266 1.261097 GACGAGTCTCGCACTTTAGC 58.739 55.000 22.00 0.00 45.12 3.09
3760 4278 2.669924 GCACTTTAGCGTACCAACTACC 59.330 50.000 0.00 0.00 0.00 3.18
3767 4285 2.094182 AGCGTACCAACTACCATGACAG 60.094 50.000 0.00 0.00 0.00 3.51
3807 4333 3.061369 GGGTAGAATCCCCCTTATGGTT 58.939 50.000 0.00 0.00 41.54 3.67
3808 4334 3.074094 GGGTAGAATCCCCCTTATGGTTC 59.926 52.174 0.00 0.00 41.54 3.62
3822 4349 7.124147 CCCCTTATGGTTCATCAAATTTGTACT 59.876 37.037 17.47 1.93 0.00 2.73
3829 4356 8.946085 TGGTTCATCAAATTTGTACTTAGCTAG 58.054 33.333 17.47 0.00 0.00 3.42
3830 4357 8.947115 GGTTCATCAAATTTGTACTTAGCTAGT 58.053 33.333 17.47 0.00 41.04 2.57
3896 4425 6.405538 TGTTTCTTGCTTGAGAATTTGGTTT 58.594 32.000 0.00 0.00 35.70 3.27
3931 4467 7.581213 AAGTGTTTGTCTCAACCATGAATAA 57.419 32.000 0.00 0.00 34.49 1.40
3963 4499 5.248477 TCCACTCTGAAGTAATAGGCTGTTT 59.752 40.000 0.65 0.00 33.25 2.83
3964 4500 5.582665 CCACTCTGAAGTAATAGGCTGTTTC 59.417 44.000 0.65 0.00 33.25 2.78
3965 4501 5.582665 CACTCTGAAGTAATAGGCTGTTTCC 59.417 44.000 0.65 0.00 33.25 3.13
3966 4502 5.099042 TCTGAAGTAATAGGCTGTTTCCC 57.901 43.478 0.65 0.00 0.00 3.97
3967 4503 4.080526 TCTGAAGTAATAGGCTGTTTCCCC 60.081 45.833 0.65 0.00 0.00 4.81
3968 4504 3.203716 GAAGTAATAGGCTGTTTCCCCG 58.796 50.000 0.65 0.00 0.00 5.73
3969 4505 1.134189 AGTAATAGGCTGTTTCCCCGC 60.134 52.381 0.65 0.00 0.00 6.13
3970 4506 0.913205 TAATAGGCTGTTTCCCCGCA 59.087 50.000 0.65 0.00 0.00 5.69
3971 4507 0.039035 AATAGGCTGTTTCCCCGCAA 59.961 50.000 0.00 0.00 0.00 4.85
3972 4508 0.039035 ATAGGCTGTTTCCCCGCAAA 59.961 50.000 0.00 0.00 0.00 3.68
3973 4509 0.178987 TAGGCTGTTTCCCCGCAAAA 60.179 50.000 0.00 0.00 0.00 2.44
3974 4510 1.045911 AGGCTGTTTCCCCGCAAAAA 61.046 50.000 0.00 0.00 0.00 1.94
4011 4547 3.189287 GGCTGTTGTTCGAACTCATGATT 59.811 43.478 27.32 0.00 0.00 2.57
4023 4559 9.653287 TTCGAACTCATGATTTGTAAGTATCTT 57.347 29.630 2.61 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 71 0.390866 ATCGCTCCATCATCATCGGC 60.391 55.000 0.00 0.00 0.00 5.54
100 106 3.252974 AGCCCAGAGTTTTCATAGTCG 57.747 47.619 0.00 0.00 0.00 4.18
103 109 5.188434 TCATGAAGCCCAGAGTTTTCATAG 58.812 41.667 0.00 0.00 37.98 2.23
130 136 3.608073 GGCAGTAAAACATTCAATCGTGC 59.392 43.478 0.00 0.00 0.00 5.34
133 139 4.414852 CAGGGCAGTAAAACATTCAATCG 58.585 43.478 0.00 0.00 0.00 3.34
136 142 2.298729 GGCAGGGCAGTAAAACATTCAA 59.701 45.455 0.00 0.00 0.00 2.69
140 146 1.549203 CAGGCAGGGCAGTAAAACAT 58.451 50.000 0.00 0.00 0.00 2.71
142 148 1.178534 TGCAGGCAGGGCAGTAAAAC 61.179 55.000 0.00 0.00 36.11 2.43
170 188 5.129485 TCTTTACCAGGAATCAGATCAGGAC 59.871 44.000 0.00 0.00 0.00 3.85
174 192 6.655003 GTGTTTCTTTACCAGGAATCAGATCA 59.345 38.462 0.00 0.00 0.00 2.92
183 211 5.026038 TCTTTCGTGTTTCTTTACCAGGA 57.974 39.130 0.00 0.00 0.00 3.86
250 278 0.813610 TCCCCGAGCATAAACGCATG 60.814 55.000 0.00 0.00 0.00 4.06
251 279 0.108585 ATCCCCGAGCATAAACGCAT 59.891 50.000 0.00 0.00 0.00 4.73
252 280 0.531974 GATCCCCGAGCATAAACGCA 60.532 55.000 0.00 0.00 0.00 5.24
253 281 0.249911 AGATCCCCGAGCATAAACGC 60.250 55.000 0.00 0.00 0.00 4.84
254 282 1.502231 CAGATCCCCGAGCATAAACG 58.498 55.000 0.00 0.00 0.00 3.60
255 283 1.230324 GCAGATCCCCGAGCATAAAC 58.770 55.000 0.00 0.00 0.00 2.01
285 313 7.930325 TCTGAATCATATCTCATCAGTTTGACC 59.070 37.037 0.00 0.00 38.83 4.02
304 332 1.153147 GCCCCGAACCCTCTGAATC 60.153 63.158 0.00 0.00 0.00 2.52
314 352 4.424566 TACGCGTCAGCCCCGAAC 62.425 66.667 18.63 0.00 41.18 3.95
498 642 2.405892 TGCGCTTCTTGCTTTCTTTC 57.594 45.000 9.73 0.00 40.11 2.62
499 643 2.869233 TTGCGCTTCTTGCTTTCTTT 57.131 40.000 9.73 0.00 40.11 2.52
507 651 2.251600 AGAGCCTTTGCGCTTCTTG 58.748 52.632 9.73 0.00 46.15 3.02
565 709 7.190335 GAGGATCTAGATGCTAGACCTACTA 57.810 44.000 24.90 0.00 39.68 1.82
606 751 6.606069 TGTAGGAGTATGACTGAAGAGCTAT 58.394 40.000 0.00 0.00 0.00 2.97
607 752 6.002653 TGTAGGAGTATGACTGAAGAGCTA 57.997 41.667 0.00 0.00 0.00 3.32
608 753 4.861196 TGTAGGAGTATGACTGAAGAGCT 58.139 43.478 0.00 0.00 0.00 4.09
609 754 5.126384 AGTTGTAGGAGTATGACTGAAGAGC 59.874 44.000 0.00 0.00 0.00 4.09
624 769 7.724506 TCTTCTTCTTCTTCTACAGTTGTAGGA 59.275 37.037 16.86 9.33 46.01 2.94
625 770 7.887381 TCTTCTTCTTCTTCTACAGTTGTAGG 58.113 38.462 16.86 4.79 46.01 3.18
639 784 8.923270 TCTTCTTCTTCTTCTTCTTCTTCTTCT 58.077 33.333 0.00 0.00 0.00 2.85
648 793 8.923270 TCTTCTTCTTCTTCTTCTTCTTCTTCT 58.077 33.333 0.00 0.00 0.00 2.85
649 794 9.541143 TTCTTCTTCTTCTTCTTCTTCTTCTTC 57.459 33.333 0.00 0.00 0.00 2.87
651 796 8.923270 TCTTCTTCTTCTTCTTCTTCTTCTTCT 58.077 33.333 0.00 0.00 0.00 2.85
652 797 9.541143 TTCTTCTTCTTCTTCTTCTTCTTCTTC 57.459 33.333 0.00 0.00 0.00 2.87
653 798 9.546428 CTTCTTCTTCTTCTTCTTCTTCTTCTT 57.454 33.333 0.00 0.00 0.00 2.52
656 801 8.923270 TCTCTTCTTCTTCTTCTTCTTCTTCTT 58.077 33.333 0.00 0.00 0.00 2.52
657 802 8.477419 TCTCTTCTTCTTCTTCTTCTTCTTCT 57.523 34.615 0.00 0.00 0.00 2.85
678 823 3.076785 TCCCTTCTCAACTTCCTCTCTCT 59.923 47.826 0.00 0.00 0.00 3.10
679 824 3.436243 TCCCTTCTCAACTTCCTCTCTC 58.564 50.000 0.00 0.00 0.00 3.20
711 857 2.048127 GAGCCTTCGTTGCTCGGT 60.048 61.111 7.58 0.00 45.05 4.69
729 875 0.321653 ACAGGCGCTGTAAAAGGAGG 60.322 55.000 7.64 0.00 43.46 4.30
730 876 1.079503 GACAGGCGCTGTAAAAGGAG 58.920 55.000 7.64 0.00 45.44 3.69
731 877 0.685097 AGACAGGCGCTGTAAAAGGA 59.315 50.000 7.64 0.00 45.44 3.36
816 982 3.174987 TGGTCTGGTGGTGGTGGG 61.175 66.667 0.00 0.00 0.00 4.61
829 995 2.424246 GTCTACTGTGCCTACTCTGGTC 59.576 54.545 0.00 0.00 0.00 4.02
830 996 2.225041 TGTCTACTGTGCCTACTCTGGT 60.225 50.000 0.00 0.00 0.00 4.00
831 997 2.425312 CTGTCTACTGTGCCTACTCTGG 59.575 54.545 0.00 0.00 0.00 3.86
832 998 2.159310 GCTGTCTACTGTGCCTACTCTG 60.159 54.545 0.00 0.00 0.00 3.35
835 1001 1.821753 CTGCTGTCTACTGTGCCTACT 59.178 52.381 0.00 0.00 0.00 2.57
836 1002 1.737363 GCTGCTGTCTACTGTGCCTAC 60.737 57.143 0.00 0.00 0.00 3.18
837 1003 0.532573 GCTGCTGTCTACTGTGCCTA 59.467 55.000 0.00 0.00 0.00 3.93
844 1010 1.822506 TACTGTCGCTGCTGTCTACT 58.177 50.000 0.00 0.00 0.00 2.57
845 1011 2.853731 ATACTGTCGCTGCTGTCTAC 57.146 50.000 0.00 0.00 0.00 2.59
851 1017 6.150396 AGAGTATTTTATACTGTCGCTGCT 57.850 37.500 4.19 0.00 0.00 4.24
856 1022 7.140048 GGTGAGGAGAGTATTTTATACTGTCG 58.860 42.308 14.19 0.00 38.33 4.35
888 1059 3.318555 CGCTTGCTCGCTCGCTAG 61.319 66.667 2.21 2.21 36.14 3.42
994 1192 2.484062 GCTCCATGTCCATTGGCGG 61.484 63.158 0.00 0.00 0.00 6.13
1066 1270 0.173708 GACAAGTAGCGGACAGAGGG 59.826 60.000 0.00 0.00 0.00 4.30
1075 1282 4.430137 TGGTTAGTACAGACAAGTAGCG 57.570 45.455 0.00 0.00 0.00 4.26
1093 1300 1.628846 CAGCCAAGGGTACTAGTTGGT 59.371 52.381 17.30 6.85 42.44 3.67
1096 1303 1.549170 CGTCAGCCAAGGGTACTAGTT 59.451 52.381 0.00 0.00 0.00 2.24
1097 1304 1.183549 CGTCAGCCAAGGGTACTAGT 58.816 55.000 0.00 0.00 0.00 2.57
1098 1305 0.460311 CCGTCAGCCAAGGGTACTAG 59.540 60.000 0.00 0.00 0.00 2.57
1099 1306 0.974010 CCCGTCAGCCAAGGGTACTA 60.974 60.000 0.00 0.00 40.27 1.82
1100 1307 2.291043 CCCGTCAGCCAAGGGTACT 61.291 63.158 0.00 0.00 40.27 2.73
1101 1308 2.267961 CCCGTCAGCCAAGGGTAC 59.732 66.667 0.00 0.00 40.27 3.34
1114 1321 1.878656 CGAAGAAGCAGTCTCCCCGT 61.879 60.000 0.00 0.00 34.56 5.28
1115 1322 1.153745 CGAAGAAGCAGTCTCCCCG 60.154 63.158 0.00 0.00 34.56 5.73
1117 1324 0.892063 AGACGAAGAAGCAGTCTCCC 59.108 55.000 0.00 0.00 40.85 4.30
1118 1325 2.601804 GAAGACGAAGAAGCAGTCTCC 58.398 52.381 0.00 0.00 43.60 3.71
1120 1327 1.609555 ACGAAGACGAAGAAGCAGTCT 59.390 47.619 0.00 0.00 46.01 3.24
1121 1328 1.980156 GACGAAGACGAAGAAGCAGTC 59.020 52.381 0.00 0.00 42.66 3.51
1122 1329 2.053282 GACGAAGACGAAGAAGCAGT 57.947 50.000 0.00 0.00 42.66 4.40
1133 1340 2.837280 CGCACACACGACGAAGAC 59.163 61.111 0.00 0.00 34.06 3.01
1134 1341 3.028019 GCGCACACACGACGAAGA 61.028 61.111 0.30 0.00 34.06 2.87
1150 1357 3.049674 TAGTGCTTGCACCTGCGC 61.050 61.111 20.39 0.00 45.83 6.09
1252 1459 2.187424 GAGGCAGAGCAGAGCAGG 59.813 66.667 0.00 0.00 0.00 4.85
1265 1472 2.497273 AGAGAGCAAAGAGAAGAGAGGC 59.503 50.000 0.00 0.00 0.00 4.70
1287 1494 0.250901 CAACCCAACCAGACCAGAGG 60.251 60.000 0.00 0.00 0.00 3.69
1298 1505 0.822121 GTGAGGACCACCAACCCAAC 60.822 60.000 0.00 0.00 39.86 3.77
1319 1526 8.887717 CAGAGATTATCCAAAGAACGAAAGAAT 58.112 33.333 0.00 0.00 0.00 2.40
1422 1629 2.014093 GAGAAGTGCGCACCGATTCG 62.014 60.000 35.51 0.00 0.00 3.34
1470 1693 4.713792 AGTGAAGAAACAAGATGGGAGT 57.286 40.909 0.00 0.00 0.00 3.85
1471 1694 5.049129 GTGAAGTGAAGAAACAAGATGGGAG 60.049 44.000 0.00 0.00 0.00 4.30
1488 1722 6.382869 AATCAAGTTGAAGAAGGTGAAGTG 57.617 37.500 10.14 0.00 0.00 3.16
1508 1743 7.623268 AATGTTGTTTTGTTAGCGAGAAATC 57.377 32.000 0.00 0.00 0.00 2.17
1540 1775 3.139850 ACGAGACATATGACCTACGGAG 58.860 50.000 10.38 0.00 0.00 4.63
1550 1800 3.439293 GGTGTCACAGACGAGACATATG 58.561 50.000 5.12 0.00 43.32 1.78
1593 1843 2.160721 AACTAGAGAGGGAATCGCCA 57.839 50.000 0.00 0.00 38.95 5.69
1606 1856 5.237344 GCAGCACAAGAAAGAAGAAACTAGA 59.763 40.000 0.00 0.00 0.00 2.43
1633 1883 5.368989 ACCCAAACTCAACTCTGAAACTAG 58.631 41.667 0.00 0.00 0.00 2.57
1640 1890 6.464222 TCTGTTATACCCAAACTCAACTCTG 58.536 40.000 0.00 0.00 0.00 3.35
1641 1891 6.681729 TCTGTTATACCCAAACTCAACTCT 57.318 37.500 0.00 0.00 0.00 3.24
1642 1892 7.606456 TCAATCTGTTATACCCAAACTCAACTC 59.394 37.037 0.00 0.00 0.00 3.01
1643 1893 7.458397 TCAATCTGTTATACCCAAACTCAACT 58.542 34.615 0.00 0.00 0.00 3.16
1644 1894 7.681939 TCAATCTGTTATACCCAAACTCAAC 57.318 36.000 0.00 0.00 0.00 3.18
1645 1895 8.739039 CAATCAATCTGTTATACCCAAACTCAA 58.261 33.333 0.00 0.00 0.00 3.02
1646 1896 7.339212 CCAATCAATCTGTTATACCCAAACTCA 59.661 37.037 0.00 0.00 0.00 3.41
1663 1913 3.689161 TGACGATCACCAACCAATCAATC 59.311 43.478 0.00 0.00 0.00 2.67
1664 1914 3.684908 TGACGATCACCAACCAATCAAT 58.315 40.909 0.00 0.00 0.00 2.57
1665 1915 3.073678 CTGACGATCACCAACCAATCAA 58.926 45.455 0.00 0.00 0.00 2.57
1666 1916 2.615240 CCTGACGATCACCAACCAATCA 60.615 50.000 0.00 0.00 0.00 2.57
1673 1930 1.003839 GCCACCTGACGATCACCAA 60.004 57.895 0.00 0.00 0.00 3.67
1682 1939 2.591715 ACACTTGCGCCACCTGAC 60.592 61.111 4.18 0.00 0.00 3.51
1785 2042 1.229209 GACAGGGACAGGGACAGGA 60.229 63.158 0.00 0.00 0.00 3.86
1811 2074 5.450412 CCAATCACCACCAAATCTAAATCGG 60.450 44.000 0.00 0.00 0.00 4.18
1812 2075 5.450412 CCCAATCACCACCAAATCTAAATCG 60.450 44.000 0.00 0.00 0.00 3.34
1818 2081 2.899256 CAACCCAATCACCACCAAATCT 59.101 45.455 0.00 0.00 0.00 2.40
1873 2142 2.875672 GCAGTGGTATTGCTCCTTGTCA 60.876 50.000 0.00 0.00 38.51 3.58
1954 2227 2.672961 TGTATGCTTTCAGTCTCCCG 57.327 50.000 0.00 0.00 0.00 5.14
1956 2229 4.518970 TGGTTTTGTATGCTTTCAGTCTCC 59.481 41.667 0.00 0.00 0.00 3.71
1965 2238 2.008242 TGGCCTGGTTTTGTATGCTT 57.992 45.000 3.32 0.00 0.00 3.91
1970 2243 4.284490 TGCATAATTTGGCCTGGTTTTGTA 59.716 37.500 3.32 0.00 0.00 2.41
1972 2245 3.672808 TGCATAATTTGGCCTGGTTTTG 58.327 40.909 3.32 2.72 0.00 2.44
1973 2246 4.041444 TCTTGCATAATTTGGCCTGGTTTT 59.959 37.500 3.32 0.00 0.00 2.43
1999 2272 9.260002 GGAAACTCATTTGTGAATTTTGTGTAT 57.740 29.630 0.00 0.00 0.00 2.29
2001 2274 7.064490 GTGGAAACTCATTTGTGAATTTTGTGT 59.936 33.333 0.00 0.00 0.00 3.72
2002 2275 7.278424 AGTGGAAACTCATTTGTGAATTTTGTG 59.722 33.333 0.00 0.00 0.00 3.33
2022 2295 5.825593 AGTAGAACTGAATGGAAGTGGAA 57.174 39.130 0.00 0.00 0.00 3.53
2024 2297 6.486657 TCAAAAGTAGAACTGAATGGAAGTGG 59.513 38.462 0.00 0.00 0.00 4.00
2030 2303 6.618287 TGTGTCAAAAGTAGAACTGAATGG 57.382 37.500 0.00 0.00 0.00 3.16
2040 2313 2.416547 CAGGGCGATGTGTCAAAAGTAG 59.583 50.000 0.00 0.00 0.00 2.57
2042 2315 1.202758 TCAGGGCGATGTGTCAAAAGT 60.203 47.619 0.00 0.00 0.00 2.66
2043 2316 1.522668 TCAGGGCGATGTGTCAAAAG 58.477 50.000 0.00 0.00 0.00 2.27
2100 2375 6.932960 TCTGTTGGAAGATAGATATGCATGTG 59.067 38.462 10.16 0.00 0.00 3.21
2109 2384 5.130145 CCTCCAACTCTGTTGGAAGATAGAT 59.870 44.000 25.91 0.00 46.85 1.98
2111 2386 4.764172 CCTCCAACTCTGTTGGAAGATAG 58.236 47.826 25.91 16.71 46.85 2.08
2112 2387 3.055094 GCCTCCAACTCTGTTGGAAGATA 60.055 47.826 25.91 9.66 46.85 1.98
2113 2388 2.290577 GCCTCCAACTCTGTTGGAAGAT 60.291 50.000 25.91 0.00 46.85 2.40
2114 2389 1.072331 GCCTCCAACTCTGTTGGAAGA 59.928 52.381 25.91 10.26 46.85 2.87
2115 2390 1.202806 TGCCTCCAACTCTGTTGGAAG 60.203 52.381 25.91 22.21 46.85 3.46
2213 2488 8.638873 TGAGATACATATACAGTTGGAATCGTT 58.361 33.333 0.00 0.00 0.00 3.85
2226 2512 6.527023 CACCCGACGAATTGAGATACATATAC 59.473 42.308 0.00 0.00 0.00 1.47
2460 2746 4.447342 GGATGTGTGGGCAGGGGG 62.447 72.222 0.00 0.00 0.00 5.40
2466 2768 2.123726 GGGATGGGATGTGTGGGC 60.124 66.667 0.00 0.00 0.00 5.36
2536 2842 1.363807 GGGCAAGTGAACCTGCAAC 59.636 57.895 6.39 0.00 0.00 4.17
2615 2922 7.223777 GCTGTGGATCTTACTGAGAAAATACTC 59.776 40.741 10.19 0.00 38.06 2.59
2643 2950 1.071228 CCCAAGATGAGATCATGCCGA 59.929 52.381 0.00 0.00 36.57 5.54
2645 2952 2.653234 ACCCAAGATGAGATCATGCC 57.347 50.000 0.00 0.00 36.57 4.40
2646 2953 2.883386 GGAACCCAAGATGAGATCATGC 59.117 50.000 0.00 0.00 36.57 4.06
2647 2954 4.434545 AGGAACCCAAGATGAGATCATG 57.565 45.455 0.00 0.00 36.57 3.07
2648 2955 5.463051 AAAGGAACCCAAGATGAGATCAT 57.537 39.130 0.00 0.00 39.70 2.45
2649 2956 4.934797 AAAGGAACCCAAGATGAGATCA 57.065 40.909 0.00 0.00 0.00 2.92
2748 3061 4.825085 TGACCTTTCCCATGTGTAAGAAAC 59.175 41.667 0.00 0.00 0.00 2.78
2749 3062 5.055265 TGACCTTTCCCATGTGTAAGAAA 57.945 39.130 0.00 0.00 0.00 2.52
2775 3088 2.224018 TCTGGGTCAGTTGCAAATTTGC 60.224 45.455 31.67 31.67 42.31 3.68
2778 3091 3.896888 TGAATCTGGGTCAGTTGCAAATT 59.103 39.130 0.00 0.00 32.61 1.82
2806 3301 7.309012 CGGGTCTCATCGGATTTATAGAGTTTA 60.309 40.741 0.00 0.00 0.00 2.01
2810 3305 4.987832 CGGGTCTCATCGGATTTATAGAG 58.012 47.826 0.00 0.00 0.00 2.43
2821 3316 6.752351 CAGATTTATATAACCGGGTCTCATCG 59.248 42.308 6.32 0.00 0.00 3.84
2823 3318 7.792364 TCAGATTTATATAACCGGGTCTCAT 57.208 36.000 6.32 0.00 0.00 2.90
2824 3319 7.310423 CCATCAGATTTATATAACCGGGTCTCA 60.310 40.741 6.32 0.00 0.00 3.27
2826 3321 6.500751 ACCATCAGATTTATATAACCGGGTCT 59.499 38.462 6.32 0.00 0.00 3.85
2827 3322 6.708285 ACCATCAGATTTATATAACCGGGTC 58.292 40.000 6.32 0.00 0.00 4.46
2828 3323 6.697641 ACCATCAGATTTATATAACCGGGT 57.302 37.500 6.32 0.00 0.00 5.28
2829 3324 7.996098 AAACCATCAGATTTATATAACCGGG 57.004 36.000 6.32 0.00 0.00 5.73
2869 3364 2.650196 CCACAAACACATGCCGGG 59.350 61.111 2.18 0.00 0.00 5.73
2870 3365 2.199652 ACCCACAAACACATGCCGG 61.200 57.895 0.00 0.00 0.00 6.13
2871 3366 1.007502 CACCCACAAACACATGCCG 60.008 57.895 0.00 0.00 0.00 5.69
3013 3508 1.691337 TGGGTACTAGGCCGGCAAT 60.691 57.895 30.85 19.07 0.00 3.56
3014 3509 2.284773 TGGGTACTAGGCCGGCAA 60.285 61.111 30.85 15.16 0.00 4.52
3031 3535 1.255667 ATCGTAGTGGCCACCGAAGT 61.256 55.000 31.74 19.01 31.06 3.01
3040 3544 7.537991 CAGCTAGTACTAAATAATCGTAGTGGC 59.462 40.741 3.76 0.00 39.72 5.01
3041 3545 7.537991 GCAGCTAGTACTAAATAATCGTAGTGG 59.462 40.741 3.76 0.00 32.79 4.00
3136 3640 5.599732 TGGCACCGTACGTACATATAAATT 58.400 37.500 24.50 0.00 0.00 1.82
3194 3699 2.611518 CCCTAGAAACTGCAACGAGAG 58.388 52.381 0.00 0.00 0.00 3.20
3238 3747 6.326323 ACTTTGACCAATAACCCAACATCTTT 59.674 34.615 0.00 0.00 0.00 2.52
3252 3761 6.098124 TCAAAAGATGACCAACTTTGACCAAT 59.902 34.615 6.12 0.00 36.62 3.16
3290 3799 5.799213 ACATTTTTCACAAACCAGTTTCCA 58.201 33.333 0.00 0.00 0.00 3.53
3291 3800 6.735678 AACATTTTTCACAAACCAGTTTCC 57.264 33.333 0.00 0.00 0.00 3.13
3313 3822 5.007034 ACGGATGTGTGATATGAAACCAAA 58.993 37.500 0.00 0.00 0.00 3.28
3333 3842 2.260844 ACATTCATGCATAGGGACGG 57.739 50.000 0.00 0.00 0.00 4.79
3356 3865 9.391006 ACGTTCACATCAATATTTACAAGGTAT 57.609 29.630 0.00 0.00 0.00 2.73
3423 3935 6.721208 AGGTTCTTTTGGCTCATAATTCTTGA 59.279 34.615 0.00 0.00 0.00 3.02
3476 3988 6.923508 TGAGCTATGTGTGCAGTATACATAAC 59.076 38.462 5.50 5.43 41.12 1.89
3485 3997 2.549064 TTGTGAGCTATGTGTGCAGT 57.451 45.000 0.00 0.00 0.00 4.40
3513 4026 8.166726 ACTCTTTCTCTTATCCTTGGTTCATTT 58.833 33.333 0.00 0.00 0.00 2.32
3638 4156 5.657470 TTTGCATCTCGTAGTGATATTGC 57.343 39.130 0.00 0.00 38.83 3.56
3650 4168 1.089920 CCTCCAGGTTTTGCATCTCG 58.910 55.000 0.00 0.00 0.00 4.04
3664 4182 6.670464 TGTATACCAAATGTCTAGAACCTCCA 59.330 38.462 0.00 0.00 0.00 3.86
3728 4246 1.525596 CTAAAGTGCGAGACTCGTCG 58.474 55.000 24.80 2.37 42.81 5.12
3748 4266 2.268298 GCTGTCATGGTAGTTGGTACG 58.732 52.381 0.00 0.00 31.59 3.67
3760 4278 7.325694 TCATCCATGTAGTATATGCTGTCATG 58.674 38.462 21.67 21.67 34.84 3.07
3767 4285 5.683876 ACCCTCATCCATGTAGTATATGC 57.316 43.478 1.48 0.00 0.00 3.14
3855 4382 8.025445 GCAAGAAACAGTGATGTTTATTCATCT 58.975 33.333 9.95 0.00 40.02 2.90
3858 4385 7.275888 AGCAAGAAACAGTGATGTTTATTCA 57.724 32.000 9.95 0.00 40.02 2.57
3876 4405 5.596836 ACAAACCAAATTCTCAAGCAAGA 57.403 34.783 0.00 0.00 0.00 3.02
3896 4425 5.883115 TGAGACAAACACTTTGATACCAACA 59.117 36.000 1.75 0.00 43.26 3.33
3931 4467 9.838339 CCTATTACTTCAGAGTGGATATTTTGT 57.162 33.333 0.00 0.00 36.60 2.83
3972 4508 7.454225 ACAACAGCCTATTACTCTCTCTTTTT 58.546 34.615 0.00 0.00 0.00 1.94
3973 4509 7.010339 ACAACAGCCTATTACTCTCTCTTTT 57.990 36.000 0.00 0.00 0.00 2.27
3974 4510 6.613153 ACAACAGCCTATTACTCTCTCTTT 57.387 37.500 0.00 0.00 0.00 2.52
3975 4511 6.613153 AACAACAGCCTATTACTCTCTCTT 57.387 37.500 0.00 0.00 0.00 2.85
3976 4512 5.163602 CGAACAACAGCCTATTACTCTCTCT 60.164 44.000 0.00 0.00 0.00 3.10
3977 4513 5.038033 CGAACAACAGCCTATTACTCTCTC 58.962 45.833 0.00 0.00 0.00 3.20
3978 4514 4.705507 TCGAACAACAGCCTATTACTCTCT 59.294 41.667 0.00 0.00 0.00 3.10
3979 4515 4.995124 TCGAACAACAGCCTATTACTCTC 58.005 43.478 0.00 0.00 0.00 3.20
3980 4516 5.047235 AGTTCGAACAACAGCCTATTACTCT 60.047 40.000 28.78 0.00 0.00 3.24
3981 4517 5.169295 AGTTCGAACAACAGCCTATTACTC 58.831 41.667 28.78 0.00 0.00 2.59
3982 4518 5.148651 AGTTCGAACAACAGCCTATTACT 57.851 39.130 28.78 0.72 0.00 2.24
3983 4519 4.927425 TGAGTTCGAACAACAGCCTATTAC 59.073 41.667 28.78 0.00 0.00 1.89
3984 4520 5.142061 TGAGTTCGAACAACAGCCTATTA 57.858 39.130 28.78 0.07 0.00 0.98
3985 4521 4.002906 TGAGTTCGAACAACAGCCTATT 57.997 40.909 28.78 5.07 0.00 1.73
3986 4522 3.678056 TGAGTTCGAACAACAGCCTAT 57.322 42.857 28.78 5.83 0.00 2.57
3987 4523 3.006430 TCATGAGTTCGAACAACAGCCTA 59.994 43.478 28.78 12.29 0.00 3.93
3988 4524 2.146342 CATGAGTTCGAACAACAGCCT 58.854 47.619 28.78 7.37 0.00 4.58
3989 4525 2.143122 TCATGAGTTCGAACAACAGCC 58.857 47.619 28.78 11.34 0.00 4.85
3990 4526 4.410492 AATCATGAGTTCGAACAACAGC 57.590 40.909 28.78 13.17 0.00 4.40
3991 4527 5.751680 ACAAATCATGAGTTCGAACAACAG 58.248 37.500 28.78 18.98 0.00 3.16
3992 4528 5.749596 ACAAATCATGAGTTCGAACAACA 57.250 34.783 28.78 25.50 0.00 3.33
3993 4529 7.352739 ACTTACAAATCATGAGTTCGAACAAC 58.647 34.615 28.78 21.28 0.00 3.32
3994 4530 7.490962 ACTTACAAATCATGAGTTCGAACAA 57.509 32.000 28.78 17.38 0.00 2.83
3995 4531 8.771920 ATACTTACAAATCATGAGTTCGAACA 57.228 30.769 28.78 10.96 0.00 3.18


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

AutoCloner maintained by Alex Coulton.