Multiple sequence alignment - TraesCS3B01G031800

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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 TraesCS3B01G031800 chr3B 100.000 2929 0 0 1 2929 14382205 14379277 0.000000e+00 5409
1 TraesCS3B01G031800 chr3B 87.158 1643 153 23 1308 2928 15026175 15027781 0.000000e+00 1812
2 TraesCS3B01G031800 chr3B 86.957 184 21 2 1130 1312 15025971 15026152 1.380000e-48 204
3 TraesCS3B01G031800 chr7A 97.853 652 14 0 1 652 205498062 205498713 0.000000e+00 1127
4 TraesCS3B01G031800 chr4B 97.699 652 15 0 1 652 584942410 584941759 0.000000e+00 1122
5 TraesCS3B01G031800 chr4B 91.277 642 48 6 3 640 581534299 581534936 0.000000e+00 869
6 TraesCS3B01G031800 chr4B 92.857 70 4 1 2510 2579 520916006 520916074 1.860000e-17 100
7 TraesCS3B01G031800 chr2A 97.699 652 15 0 1 652 181016769 181017420 0.000000e+00 1122
8 TraesCS3B01G031800 chr2A 95.775 71 3 0 2509 2579 605619477 605619547 6.630000e-22 115
9 TraesCS3B01G031800 chr3D 85.868 651 43 15 694 1312 10292428 10291795 0.000000e+00 647
10 TraesCS3B01G031800 chr3D 88.858 359 40 0 2176 2534 10291754 10291396 2.680000e-120 442
11 TraesCS3B01G031800 chr3D 78.860 421 37 21 2509 2929 10291361 10290993 1.360000e-58 237
12 TraesCS3B01G031800 chr3A 85.656 244 25 3 2686 2929 16672154 16672387 6.270000e-62 248
13 TraesCS3B01G031800 chr5B 95.775 71 3 0 2509 2579 243850764 243850834 6.630000e-22 115
14 TraesCS3B01G031800 chr4A 95.714 70 3 0 2510 2579 133053216 133053285 2.390000e-21 113
15 TraesCS3B01G031800 chr5D 95.455 66 3 0 2514 2579 449278032 449277967 3.990000e-19 106
16 TraesCS3B01G031800 chr1A 94.286 70 1 1 2510 2579 468594274 468594340 1.440000e-18 104
17 TraesCS3B01G031800 chr1B 91.549 71 6 0 2509 2579 607950645 607950575 6.680000e-17 99


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 TraesCS3B01G031800 chr3B 14379277 14382205 2928 True 5409 5409 100.000000 1 2929 1 chr3B.!!$R1 2928
1 TraesCS3B01G031800 chr3B 15025971 15027781 1810 False 1008 1812 87.057500 1130 2928 2 chr3B.!!$F1 1798
2 TraesCS3B01G031800 chr7A 205498062 205498713 651 False 1127 1127 97.853000 1 652 1 chr7A.!!$F1 651
3 TraesCS3B01G031800 chr4B 584941759 584942410 651 True 1122 1122 97.699000 1 652 1 chr4B.!!$R1 651
4 TraesCS3B01G031800 chr4B 581534299 581534936 637 False 869 869 91.277000 3 640 1 chr4B.!!$F2 637
5 TraesCS3B01G031800 chr2A 181016769 181017420 651 False 1122 1122 97.699000 1 652 1 chr2A.!!$F1 651
6 TraesCS3B01G031800 chr3D 10290993 10292428 1435 True 442 647 84.528667 694 2929 3 chr3D.!!$R1 2235

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
892 909 0.115349 ACTCCACTCTAGTGCCCAGT 59.885 55.0 4.53 3.72 44.34 4.00 F
1301 1337 0.041839 GTTCATATCGCTTGCCGCAG 60.042 55.0 0.00 0.00 39.08 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1750 1852 0.243907 CGATCTCACACTCAACCGGT 59.756 55.0 0.0 0.0 0.00 5.28 R
2484 2588 0.533085 TGATCAACGGTTTGCGGTCA 60.533 50.0 0.0 0.0 32.17 4.02 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
230 231 2.280308 AGTTTGCCCTACTATCCCCA 57.720 50.000 0.00 0.00 0.00 4.96
459 462 2.486504 GTGTACGACCGCGATCCA 59.513 61.111 8.23 0.00 41.64 3.41
500 503 1.834822 GGATGGGACGGAGAGAGGG 60.835 68.421 0.00 0.00 0.00 4.30
642 646 0.671163 TTACGCTAACCGCCACCAAG 60.671 55.000 0.00 0.00 41.76 3.61
643 647 3.799755 CGCTAACCGCCACCAAGC 61.800 66.667 0.00 0.00 34.21 4.01
660 664 2.884207 CGGGCGGACGCTCTAAAC 60.884 66.667 15.11 0.00 39.97 2.01
661 665 2.263540 GGGCGGACGCTCTAAACA 59.736 61.111 16.72 0.00 38.85 2.83
662 666 1.153429 GGGCGGACGCTCTAAACAT 60.153 57.895 16.72 0.00 38.85 2.71
663 667 1.429148 GGGCGGACGCTCTAAACATG 61.429 60.000 16.72 0.00 38.85 3.21
664 668 0.459585 GGCGGACGCTCTAAACATGA 60.460 55.000 16.72 0.00 41.60 3.07
665 669 0.924090 GCGGACGCTCTAAACATGAG 59.076 55.000 9.76 0.00 38.26 2.90
666 670 1.469251 GCGGACGCTCTAAACATGAGA 60.469 52.381 9.76 0.00 38.26 3.27
667 671 2.876091 CGGACGCTCTAAACATGAGAA 58.124 47.619 0.00 0.00 33.68 2.87
668 672 3.448686 CGGACGCTCTAAACATGAGAAT 58.551 45.455 0.00 0.00 33.68 2.40
669 673 4.607955 CGGACGCTCTAAACATGAGAATA 58.392 43.478 0.00 0.00 33.68 1.75
670 674 5.041287 CGGACGCTCTAAACATGAGAATAA 58.959 41.667 0.00 0.00 33.68 1.40
671 675 5.518847 CGGACGCTCTAAACATGAGAATAAA 59.481 40.000 0.00 0.00 33.68 1.40
672 676 6.201044 CGGACGCTCTAAACATGAGAATAAAT 59.799 38.462 0.00 0.00 33.68 1.40
673 677 7.348201 GGACGCTCTAAACATGAGAATAAATG 58.652 38.462 0.00 0.00 33.68 2.32
674 678 7.011482 GGACGCTCTAAACATGAGAATAAATGT 59.989 37.037 0.00 0.00 38.66 2.71
675 679 7.688372 ACGCTCTAAACATGAGAATAAATGTG 58.312 34.615 0.00 0.00 37.11 3.21
676 680 7.549134 ACGCTCTAAACATGAGAATAAATGTGA 59.451 33.333 0.00 0.00 37.11 3.58
677 681 8.554528 CGCTCTAAACATGAGAATAAATGTGAT 58.445 33.333 0.00 0.00 37.11 3.06
683 687 8.922058 AACATGAGAATAAATGTGATTTGCTC 57.078 30.769 0.00 0.00 37.11 4.26
684 688 7.191551 ACATGAGAATAAATGTGATTTGCTCG 58.808 34.615 0.00 0.00 35.71 5.03
685 689 6.122850 TGAGAATAAATGTGATTTGCTCGG 57.877 37.500 0.00 0.00 33.18 4.63
686 690 5.066375 TGAGAATAAATGTGATTTGCTCGGG 59.934 40.000 0.00 0.00 33.18 5.14
687 691 5.192927 AGAATAAATGTGATTTGCTCGGGA 58.807 37.500 0.00 0.00 33.82 5.14
688 692 5.652014 AGAATAAATGTGATTTGCTCGGGAA 59.348 36.000 0.00 0.00 33.82 3.97
689 693 3.855689 AAATGTGATTTGCTCGGGAAG 57.144 42.857 0.00 0.00 0.00 3.46
690 694 1.755179 ATGTGATTTGCTCGGGAAGG 58.245 50.000 0.00 0.00 0.00 3.46
691 695 0.690192 TGTGATTTGCTCGGGAAGGA 59.310 50.000 0.00 0.00 0.00 3.36
692 696 1.339055 TGTGATTTGCTCGGGAAGGAG 60.339 52.381 0.00 0.00 37.11 3.69
745 749 0.459078 GGCCTCCTCGGTACAAGTAC 59.541 60.000 0.00 1.77 35.40 2.73
764 778 0.316442 CCTGCGATTAACTGCATGCG 60.316 55.000 14.09 10.50 40.89 4.73
773 787 4.857871 TTAACTGCATGCGATTACTCAC 57.142 40.909 14.09 0.00 0.00 3.51
788 802 2.438411 ACTCACGTTTGTCAAACCCAA 58.562 42.857 20.20 6.92 38.14 4.12
791 805 2.820787 TCACGTTTGTCAAACCCAAGTT 59.179 40.909 20.20 0.00 38.14 2.66
818 832 0.362512 GACTGAAGCGCTTAACGTCG 59.637 55.000 25.11 6.26 46.11 5.12
852 866 7.062749 TCCACAACCACATCCTTATATACTC 57.937 40.000 0.00 0.00 0.00 2.59
853 867 6.042781 TCCACAACCACATCCTTATATACTCC 59.957 42.308 0.00 0.00 0.00 3.85
866 883 6.951198 CCTTATATACTCCACTCCAGAGACAT 59.049 42.308 0.70 0.00 35.27 3.06
871 888 5.194473 ACTCCACTCCAGAGACATAGTTA 57.806 43.478 0.70 0.00 35.27 2.24
882 899 7.001674 CCAGAGACATAGTTATACTCCACTCT 58.998 42.308 0.00 0.00 30.78 3.24
883 900 8.158132 CCAGAGACATAGTTATACTCCACTCTA 58.842 40.741 0.00 0.00 30.16 2.43
887 904 7.446013 AGACATAGTTATACTCCACTCTAGTGC 59.554 40.741 4.53 0.00 44.34 4.40
892 909 0.115349 ACTCCACTCTAGTGCCCAGT 59.885 55.000 4.53 3.72 44.34 4.00
900 917 1.123077 CTAGTGCCCAGTCCAGCATA 58.877 55.000 0.00 0.00 41.86 3.14
966 983 4.736896 GTCGGACGCCACCCACTC 62.737 72.222 0.00 0.00 0.00 3.51
1012 1038 1.590932 CTCTCAAATGCCTCCATCCG 58.409 55.000 0.00 0.00 0.00 4.18
1050 1083 2.084546 CCAGGTACAAGGCTACTTTGC 58.915 52.381 0.00 0.00 33.81 3.68
1074 1107 4.036734 TGAAGTGGATTGAACTTGCAAGAC 59.963 41.667 32.50 23.32 37.98 3.01
1076 1109 4.147321 AGTGGATTGAACTTGCAAGACAT 58.853 39.130 32.50 17.43 0.00 3.06
1077 1110 4.022589 AGTGGATTGAACTTGCAAGACATG 60.023 41.667 32.50 7.31 0.00 3.21
1078 1111 3.890756 TGGATTGAACTTGCAAGACATGT 59.109 39.130 32.50 19.89 38.23 3.21
1079 1112 5.048782 GTGGATTGAACTTGCAAGACATGTA 60.049 40.000 32.50 15.99 35.71 2.29
1080 1113 5.711506 TGGATTGAACTTGCAAGACATGTAT 59.288 36.000 32.50 19.28 35.71 2.29
1081 1114 6.127925 TGGATTGAACTTGCAAGACATGTATC 60.128 38.462 32.50 24.28 35.71 2.24
1082 1115 6.127925 GGATTGAACTTGCAAGACATGTATCA 60.128 38.462 32.50 18.64 35.71 2.15
1083 1116 5.611796 TGAACTTGCAAGACATGTATCAC 57.388 39.130 32.50 10.58 35.71 3.06
1084 1117 5.308014 TGAACTTGCAAGACATGTATCACT 58.692 37.500 32.50 2.52 35.71 3.41
1085 1118 5.764686 TGAACTTGCAAGACATGTATCACTT 59.235 36.000 32.50 11.56 35.71 3.16
1087 1120 4.389992 ACTTGCAAGACATGTATCACTTCG 59.610 41.667 32.50 0.97 35.04 3.79
1091 1124 5.107104 TGCAAGACATGTATCACTTCGTTTC 60.107 40.000 0.00 0.00 0.00 2.78
1097 1130 6.888430 ACATGTATCACTTCGTTTCAACTTC 58.112 36.000 0.00 0.00 0.00 3.01
1105 1138 8.301730 TCACTTCGTTTCAACTTCGTATAATT 57.698 30.769 0.00 0.00 0.00 1.40
1107 1140 7.686938 CACTTCGTTTCAACTTCGTATAATTCC 59.313 37.037 0.00 0.00 0.00 3.01
1108 1141 7.385752 ACTTCGTTTCAACTTCGTATAATTCCA 59.614 33.333 0.00 0.00 0.00 3.53
1110 1143 8.259049 TCGTTTCAACTTCGTATAATTCCATT 57.741 30.769 0.00 0.00 0.00 3.16
1113 1146 9.620660 GTTTCAACTTCGTATAATTCCATTGTT 57.379 29.630 0.00 0.00 0.00 2.83
1115 1148 9.619316 TTCAACTTCGTATAATTCCATTGTTTG 57.381 29.630 0.00 0.00 0.00 2.93
1117 1150 9.619316 CAACTTCGTATAATTCCATTGTTTGAA 57.381 29.630 0.00 0.00 0.00 2.69
1127 1162 8.868522 AATTCCATTGTTTGAATCTCTGTAGA 57.131 30.769 0.00 0.00 35.80 2.59
1132 1167 4.237724 TGTTTGAATCTCTGTAGAGTGCG 58.762 43.478 8.63 0.00 42.60 5.34
1188 1223 0.179067 ACCTCGCGGACAAGAACAAA 60.179 50.000 6.13 0.00 0.00 2.83
1286 1322 1.360931 CGCATGCTGTCATCCGTTCA 61.361 55.000 17.13 0.00 29.62 3.18
1288 1324 2.212652 GCATGCTGTCATCCGTTCATA 58.787 47.619 11.37 0.00 0.00 2.15
1301 1337 0.041839 GTTCATATCGCTTGCCGCAG 60.042 55.000 0.00 0.00 39.08 5.18
1329 1419 0.548682 ACCAGGAGAAGGTGGAGCAT 60.549 55.000 0.00 0.00 38.13 3.79
1345 1435 1.078759 GCATGAGAAGACGTGTCCCG 61.079 60.000 0.00 0.00 44.03 5.14
1363 1453 2.437180 TCAGAGCCGGCATGCAAG 60.437 61.111 31.54 12.70 0.00 4.01
1364 1454 4.189188 CAGAGCCGGCATGCAAGC 62.189 66.667 31.54 20.71 0.00 4.01
1377 1467 1.212751 GCAAGCCATGGTTTCGGTC 59.787 57.895 11.40 0.00 0.00 4.79
1380 1470 0.953960 AAGCCATGGTTTCGGTCGTC 60.954 55.000 14.67 0.00 0.00 4.20
1419 1509 2.358737 GGTGACGGCAAGGAGTGG 60.359 66.667 0.00 0.00 0.00 4.00
1429 1519 1.541233 GCAAGGAGTGGGATATGGACG 60.541 57.143 0.00 0.00 0.00 4.79
1433 1523 0.597637 GAGTGGGATATGGACGTGCG 60.598 60.000 1.60 0.00 0.00 5.34
1435 1525 3.036084 GGGATATGGACGTGCGCG 61.036 66.667 19.78 19.78 44.93 6.86
1463 1554 5.071250 TCAACTGTATCACTAAGGTGGTTGT 59.929 40.000 0.00 0.00 43.17 3.32
1478 1569 2.186160 TTGTCTGGCACCGCAGTTG 61.186 57.895 0.00 0.00 0.00 3.16
1481 1572 2.901840 CTGGCACCGCAGTTGTGT 60.902 61.111 0.00 0.00 36.11 3.72
1496 1587 1.155889 TGTGTGTTCGATGCCATGTC 58.844 50.000 0.00 0.00 0.00 3.06
1501 1592 2.106074 TTCGATGCCATGTCGGTGC 61.106 57.895 4.59 0.00 39.45 5.01
1537 1628 2.985456 GGGTGGAGCAGACTGAGG 59.015 66.667 6.65 0.00 0.00 3.86
1550 1641 0.771755 ACTGAGGAGTGGGGAAAACC 59.228 55.000 0.00 0.00 39.11 3.27
1552 1643 0.771127 TGAGGAGTGGGGAAAACCTG 59.229 55.000 0.00 0.00 40.03 4.00
1553 1644 0.609406 GAGGAGTGGGGAAAACCTGC 60.609 60.000 0.00 0.00 40.03 4.85
1554 1645 1.068352 AGGAGTGGGGAAAACCTGCT 61.068 55.000 0.00 0.00 40.03 4.24
1555 1646 0.895559 GGAGTGGGGAAAACCTGCTG 60.896 60.000 0.00 0.00 40.03 4.41
1556 1647 1.527433 GAGTGGGGAAAACCTGCTGC 61.527 60.000 0.00 0.00 40.03 5.25
1557 1648 1.832167 GTGGGGAAAACCTGCTGCA 60.832 57.895 0.88 0.88 40.03 4.41
1558 1649 1.155859 TGGGGAAAACCTGCTGCAT 59.844 52.632 1.31 0.00 40.03 3.96
1559 1650 0.899717 TGGGGAAAACCTGCTGCATC 60.900 55.000 1.31 0.00 40.03 3.91
1560 1651 0.899717 GGGGAAAACCTGCTGCATCA 60.900 55.000 1.31 0.00 40.03 3.07
1561 1652 0.529378 GGGAAAACCTGCTGCATCAG 59.471 55.000 10.65 10.65 35.85 2.90
1572 1663 0.540454 CTGCATCAGCTGGAGGAGAA 59.460 55.000 15.13 0.00 39.51 2.87
1612 1707 5.579384 TCGTTACATTTGTTTGTAGTCCG 57.421 39.130 0.00 0.00 33.81 4.79
1615 1710 5.842327 CGTTACATTTGTTTGTAGTCCGTTC 59.158 40.000 0.00 0.00 33.81 3.95
1638 1739 7.672983 TCCTCTTGAATGTACTTCATGAAAC 57.327 36.000 9.88 6.47 43.50 2.78
1639 1740 7.223584 TCCTCTTGAATGTACTTCATGAAACA 58.776 34.615 13.84 13.84 43.50 2.83
1645 1746 6.481976 TGAATGTACTTCATGAAACAACTCGT 59.518 34.615 15.11 7.97 38.97 4.18
1646 1747 5.651172 TGTACTTCATGAAACAACTCGTG 57.349 39.130 9.88 0.00 34.23 4.35
1655 1757 1.567504 AACAACTCGTGGACGTGAAG 58.432 50.000 8.14 0.00 40.80 3.02
1668 1770 3.120511 GGACGTGAAGCTTCATCAGTTTC 60.121 47.826 30.65 20.21 41.87 2.78
1670 1772 4.130118 ACGTGAAGCTTCATCAGTTTCTT 58.870 39.130 30.65 8.16 42.00 2.52
1671 1773 4.576463 ACGTGAAGCTTCATCAGTTTCTTT 59.424 37.500 30.65 7.21 42.00 2.52
1672 1774 5.066505 ACGTGAAGCTTCATCAGTTTCTTTT 59.933 36.000 30.65 6.59 42.00 2.27
1706 1808 5.105310 TGCCTAGATTTGTCTAGAGTTGGAC 60.105 44.000 12.74 0.00 41.56 4.02
1707 1809 5.583495 CCTAGATTTGTCTAGAGTTGGACG 58.417 45.833 12.74 0.00 41.56 4.79
1717 1819 3.088789 AGAGTTGGACGAGTACCTCAT 57.911 47.619 0.00 0.00 0.00 2.90
1718 1820 3.018149 AGAGTTGGACGAGTACCTCATC 58.982 50.000 0.00 0.00 0.00 2.92
1737 1839 3.126001 TCAGTGTGAAAGGGCACTTAG 57.874 47.619 0.00 0.00 43.27 2.18
1738 1840 2.154462 CAGTGTGAAAGGGCACTTAGG 58.846 52.381 0.00 0.00 43.27 2.69
1741 1843 0.881796 GTGAAAGGGCACTTAGGCAC 59.118 55.000 0.00 7.59 46.44 5.01
1750 1852 3.578716 GGGCACTTAGGCACTATCTATGA 59.421 47.826 0.00 0.00 42.38 2.15
1753 1855 4.799678 CACTTAGGCACTATCTATGACCG 58.200 47.826 0.00 0.00 42.38 4.79
1765 1867 2.492088 TCTATGACCGGTTGAGTGTGAG 59.508 50.000 9.42 0.00 0.00 3.51
1808 1910 2.531376 GCGCACTTACGGGCCATAC 61.531 63.158 4.39 0.00 38.82 2.39
1887 1989 1.598962 CATGGGCGCTCCGATTCAT 60.599 57.895 3.94 0.00 38.76 2.57
1892 1994 0.946221 GGCGCTCCGATTCATACCTG 60.946 60.000 7.64 0.00 0.00 4.00
1938 2040 3.492421 TGGACGCCTAAACTACGTTAG 57.508 47.619 0.00 0.00 40.69 2.34
1959 2061 1.264749 ATGGAGTCGCTTGGCACCTA 61.265 55.000 0.00 0.00 0.00 3.08
1966 2068 0.447801 CGCTTGGCACCTACATCAAC 59.552 55.000 0.00 0.00 0.00 3.18
1969 2071 3.278574 GCTTGGCACCTACATCAACATA 58.721 45.455 0.00 0.00 0.00 2.29
1974 2076 3.990469 GGCACCTACATCAACATAGATCG 59.010 47.826 0.00 0.00 0.00 3.69
1981 2083 4.122776 ACATCAACATAGATCGTCAAGGC 58.877 43.478 0.00 0.00 0.00 4.35
1987 2089 1.687563 TAGATCGTCAAGGCCATCGA 58.312 50.000 5.01 9.80 36.77 3.59
1988 2090 1.043816 AGATCGTCAAGGCCATCGAT 58.956 50.000 18.80 18.80 43.95 3.59
1989 2091 1.423395 GATCGTCAAGGCCATCGATC 58.577 55.000 24.26 24.26 46.78 3.69
1990 2092 0.034059 ATCGTCAAGGCCATCGATCC 59.966 55.000 5.01 0.00 38.38 3.36
1991 2093 1.043116 TCGTCAAGGCCATCGATCCT 61.043 55.000 5.01 0.00 0.00 3.24
1992 2094 0.673985 CGTCAAGGCCATCGATCCTA 59.326 55.000 5.01 0.00 31.24 2.94
2018 2120 4.685169 ACTGCATGAACAAATTAGGACG 57.315 40.909 0.00 0.00 0.00 4.79
2019 2121 3.119849 ACTGCATGAACAAATTAGGACGC 60.120 43.478 0.00 0.00 0.00 5.19
2049 2151 1.148310 GACTGCACATTGTACGCACT 58.852 50.000 0.00 0.00 0.00 4.40
2051 2153 0.453282 CTGCACATTGTACGCACTGC 60.453 55.000 0.00 0.00 0.00 4.40
2052 2154 0.884259 TGCACATTGTACGCACTGCT 60.884 50.000 0.00 0.00 0.00 4.24
2057 2159 3.059257 CACATTGTACGCACTGCTGTTAA 60.059 43.478 0.00 0.21 0.00 2.01
2058 2160 3.059188 ACATTGTACGCACTGCTGTTAAC 60.059 43.478 0.00 0.00 0.00 2.01
2070 2172 4.516698 ACTGCTGTTAACTTGAACCATCTG 59.483 41.667 7.22 0.00 0.00 2.90
2101 2205 4.257536 TGAATGTTGCGACATGTATTCG 57.742 40.909 20.40 0.00 45.58 3.34
2104 2208 3.447752 TGTTGCGACATGTATTCGTTG 57.552 42.857 1.50 0.00 38.77 4.10
2105 2209 2.166007 GTTGCGACATGTATTCGTTGC 58.834 47.619 0.00 0.00 41.97 4.17
2107 2211 2.006169 TGCGACATGTATTCGTTGCAT 58.994 42.857 0.00 0.00 45.41 3.96
2109 2213 2.777845 GCGACATGTATTCGTTGCATTG 59.222 45.455 0.00 0.00 41.38 2.82
2110 2214 3.353524 CGACATGTATTCGTTGCATTGG 58.646 45.455 0.00 0.00 0.00 3.16
2127 2231 2.057137 TGGTGATTTGGCCATCTAGC 57.943 50.000 6.09 4.07 0.00 3.42
2140 2244 6.841601 TGGCCATCTAGCTTAAATTCAGTAT 58.158 36.000 0.00 0.00 0.00 2.12
2142 2246 7.164803 GGCCATCTAGCTTAAATTCAGTATCT 58.835 38.462 0.00 0.00 0.00 1.98
2145 2249 8.997323 CCATCTAGCTTAAATTCAGTATCTTGG 58.003 37.037 0.00 0.00 0.00 3.61
2166 2270 5.266788 TGGGCTCAAATTTGATGATCTCTT 58.733 37.500 20.76 0.00 36.46 2.85
2224 2328 0.678048 GCAGGCCTAGAAACCCTGTG 60.678 60.000 3.98 0.00 46.15 3.66
2241 2345 3.084786 CTGTGGTGGAAGAAAAGATCCC 58.915 50.000 0.00 0.00 34.68 3.85
2243 2347 3.084786 GTGGTGGAAGAAAAGATCCCAG 58.915 50.000 0.00 0.00 34.68 4.45
2251 2355 4.566426 AGAAAAGATCCCAGGAGACTTG 57.434 45.455 8.88 0.00 40.21 3.16
2272 2376 7.925993 ACTTGAAATTTGTTGAACGTATCTCA 58.074 30.769 0.00 0.00 0.00 3.27
2276 2380 8.783093 TGAAATTTGTTGAACGTATCTCAGAAT 58.217 29.630 0.00 0.00 0.00 2.40
2281 2385 5.989168 TGTTGAACGTATCTCAGAATGTTGT 59.011 36.000 0.00 0.00 37.40 3.32
2295 2399 7.203218 TCAGAATGTTGTAGACCTCATAATCG 58.797 38.462 0.00 0.00 37.40 3.34
2300 2404 1.269998 GTAGACCTCATAATCGGCGCT 59.730 52.381 7.64 0.00 0.00 5.92
2301 2405 0.032678 AGACCTCATAATCGGCGCTG 59.967 55.000 10.86 10.86 0.00 5.18
2380 2484 3.408020 GCACGTACGCTTCGCCAA 61.408 61.111 16.72 0.00 0.00 4.52
2416 2520 0.253044 GGCACCCTAGCACAATCTCA 59.747 55.000 0.00 0.00 35.83 3.27
2463 2567 2.762472 CGAAGCGTTAACTGCAGATTG 58.238 47.619 23.35 6.28 33.85 2.67
2472 2576 0.689055 ACTGCAGATTGACTGGCTCA 59.311 50.000 23.35 0.00 45.82 4.26
2484 2588 3.262660 TGACTGGCTCACTCAGATTTCAT 59.737 43.478 0.00 0.00 36.22 2.57
2507 2611 2.418628 ACCGCAAACCGTTGATCATTAG 59.581 45.455 0.00 0.00 36.83 1.73
2534 2698 5.649602 ACAACAACAACAACAACAACAAG 57.350 34.783 0.00 0.00 0.00 3.16
2535 2699 4.509600 ACAACAACAACAACAACAACAAGG 59.490 37.500 0.00 0.00 0.00 3.61
2553 2717 4.089361 CAAGGAAGCCTTTAGTCCCAAAT 58.911 43.478 0.00 0.00 41.69 2.32
2641 2806 7.300556 TGTTCATGGATTGAGGAAAAATTCA 57.699 32.000 0.00 0.00 35.27 2.57
2865 3035 8.502161 AAAAAGTTCACGAATTGTAGTAATGC 57.498 30.769 0.00 0.00 0.00 3.56
2903 3073 9.860898 AAGAAGTTCATGAATTTTAGTAATGCC 57.139 29.630 16.30 2.25 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
230 231 6.059484 TGTTCTCGGAAAAACCTAAGATTGT 58.941 36.000 0.00 0.00 36.31 2.71
459 462 0.969894 ATAAGCCTTCCGCGAGCTAT 59.030 50.000 8.23 4.34 44.76 2.97
500 503 1.817099 CCTCTGCAACCCATCTCGC 60.817 63.158 0.00 0.00 0.00 5.03
594 598 2.730733 GCGATCTCAGGGCGATCA 59.269 61.111 0.00 0.00 37.68 2.92
643 647 2.884207 GTTTAGAGCGTCCGCCCG 60.884 66.667 8.23 0.00 43.17 6.13
657 661 9.362539 GAGCAAATCACATTTATTCTCATGTTT 57.637 29.630 0.00 0.00 30.90 2.83
658 662 7.699391 CGAGCAAATCACATTTATTCTCATGTT 59.301 33.333 0.00 0.00 30.90 2.71
659 663 7.191551 CGAGCAAATCACATTTATTCTCATGT 58.808 34.615 0.00 0.00 33.72 3.21
660 664 6.635641 CCGAGCAAATCACATTTATTCTCATG 59.364 38.462 0.00 0.00 0.00 3.07
661 665 6.238842 CCCGAGCAAATCACATTTATTCTCAT 60.239 38.462 0.00 0.00 0.00 2.90
662 666 5.066375 CCCGAGCAAATCACATTTATTCTCA 59.934 40.000 0.00 0.00 0.00 3.27
663 667 5.296780 TCCCGAGCAAATCACATTTATTCTC 59.703 40.000 0.00 0.00 0.00 2.87
664 668 5.192927 TCCCGAGCAAATCACATTTATTCT 58.807 37.500 0.00 0.00 0.00 2.40
665 669 5.499139 TCCCGAGCAAATCACATTTATTC 57.501 39.130 0.00 0.00 0.00 1.75
666 670 5.163519 CCTTCCCGAGCAAATCACATTTATT 60.164 40.000 0.00 0.00 0.00 1.40
667 671 4.339247 CCTTCCCGAGCAAATCACATTTAT 59.661 41.667 0.00 0.00 0.00 1.40
668 672 3.694072 CCTTCCCGAGCAAATCACATTTA 59.306 43.478 0.00 0.00 0.00 1.40
669 673 2.493278 CCTTCCCGAGCAAATCACATTT 59.507 45.455 0.00 0.00 0.00 2.32
670 674 2.094675 CCTTCCCGAGCAAATCACATT 58.905 47.619 0.00 0.00 0.00 2.71
671 675 1.281867 TCCTTCCCGAGCAAATCACAT 59.718 47.619 0.00 0.00 0.00 3.21
672 676 0.690192 TCCTTCCCGAGCAAATCACA 59.310 50.000 0.00 0.00 0.00 3.58
673 677 1.373570 CTCCTTCCCGAGCAAATCAC 58.626 55.000 0.00 0.00 0.00 3.06
674 678 0.253044 CCTCCTTCCCGAGCAAATCA 59.747 55.000 0.00 0.00 0.00 2.57
675 679 0.541863 TCCTCCTTCCCGAGCAAATC 59.458 55.000 0.00 0.00 0.00 2.17
676 680 0.991920 TTCCTCCTTCCCGAGCAAAT 59.008 50.000 0.00 0.00 0.00 2.32
677 681 0.768622 TTTCCTCCTTCCCGAGCAAA 59.231 50.000 0.00 0.00 0.00 3.68
678 682 0.324943 CTTTCCTCCTTCCCGAGCAA 59.675 55.000 0.00 0.00 0.00 3.91
679 683 1.983224 CTTTCCTCCTTCCCGAGCA 59.017 57.895 0.00 0.00 0.00 4.26
680 684 1.450491 GCTTTCCTCCTTCCCGAGC 60.450 63.158 0.00 0.00 0.00 5.03
681 685 0.324943 TTGCTTTCCTCCTTCCCGAG 59.675 55.000 0.00 0.00 0.00 4.63
682 686 0.768622 TTTGCTTTCCTCCTTCCCGA 59.231 50.000 0.00 0.00 0.00 5.14
683 687 1.839424 ATTTGCTTTCCTCCTTCCCG 58.161 50.000 0.00 0.00 0.00 5.14
684 688 4.956075 TGATTATTTGCTTTCCTCCTTCCC 59.044 41.667 0.00 0.00 0.00 3.97
685 689 5.418840 TGTGATTATTTGCTTTCCTCCTTCC 59.581 40.000 0.00 0.00 0.00 3.46
686 690 6.515272 TGTGATTATTTGCTTTCCTCCTTC 57.485 37.500 0.00 0.00 0.00 3.46
687 691 5.105595 GCTGTGATTATTTGCTTTCCTCCTT 60.106 40.000 0.00 0.00 0.00 3.36
688 692 4.400567 GCTGTGATTATTTGCTTTCCTCCT 59.599 41.667 0.00 0.00 0.00 3.69
689 693 4.400567 AGCTGTGATTATTTGCTTTCCTCC 59.599 41.667 0.00 0.00 0.00 4.30
690 694 5.338365 CAGCTGTGATTATTTGCTTTCCTC 58.662 41.667 5.25 0.00 0.00 3.71
691 695 4.381292 GCAGCTGTGATTATTTGCTTTCCT 60.381 41.667 16.64 0.00 0.00 3.36
692 696 3.861689 GCAGCTGTGATTATTTGCTTTCC 59.138 43.478 16.64 0.00 0.00 3.13
745 749 0.316442 CGCATGCAGTTAATCGCAGG 60.316 55.000 19.57 8.77 42.37 4.85
773 787 2.446282 CGAACTTGGGTTTGACAAACG 58.554 47.619 21.61 12.15 42.29 3.60
788 802 1.068194 CGCTTCAGTCTTCTCCGAACT 60.068 52.381 0.00 0.00 0.00 3.01
791 805 1.213013 GCGCTTCAGTCTTCTCCGA 59.787 57.895 0.00 0.00 0.00 4.55
818 832 0.038166 TGGTTGTGGAAGATGGAGGC 59.962 55.000 0.00 0.00 0.00 4.70
852 866 6.207810 GGAGTATAACTATGTCTCTGGAGTGG 59.792 46.154 0.00 0.00 0.00 4.00
853 867 6.773200 TGGAGTATAACTATGTCTCTGGAGTG 59.227 42.308 0.00 0.00 0.00 3.51
866 883 5.103813 TGGGCACTAGAGTGGAGTATAACTA 60.104 44.000 11.51 0.00 45.72 2.24
871 888 2.023888 ACTGGGCACTAGAGTGGAGTAT 60.024 50.000 11.51 0.00 45.72 2.12
882 899 1.123077 CTATGCTGGACTGGGCACTA 58.877 55.000 0.00 0.00 41.39 2.74
883 900 0.911525 ACTATGCTGGACTGGGCACT 60.912 55.000 0.00 0.00 41.39 4.40
887 904 1.134280 CCTTGACTATGCTGGACTGGG 60.134 57.143 0.00 0.00 0.00 4.45
892 909 2.625314 CGATCTCCTTGACTATGCTGGA 59.375 50.000 0.00 0.00 0.00 3.86
900 917 1.398692 GCCTCTCGATCTCCTTGACT 58.601 55.000 0.00 0.00 0.00 3.41
999 1016 1.153086 GTGAGCGGATGGAGGCATT 60.153 57.895 0.00 0.00 0.00 3.56
1000 1017 2.369633 TGTGAGCGGATGGAGGCAT 61.370 57.895 0.00 0.00 0.00 4.40
1050 1083 4.276678 TCTTGCAAGTTCAATCCACTTCAG 59.723 41.667 25.19 0.00 31.83 3.02
1074 1107 6.009474 CGAAGTTGAAACGAAGTGATACATG 58.991 40.000 0.00 0.00 45.00 3.21
1076 1109 5.045215 ACGAAGTTGAAACGAAGTGATACA 58.955 37.500 0.00 0.00 37.18 2.29
1077 1110 5.571778 ACGAAGTTGAAACGAAGTGATAC 57.428 39.130 0.00 0.00 37.18 2.24
1078 1111 8.969121 TTATACGAAGTTGAAACGAAGTGATA 57.031 30.769 0.00 0.00 37.18 2.15
1079 1112 7.878477 TTATACGAAGTTGAAACGAAGTGAT 57.122 32.000 0.00 0.00 37.18 3.06
1080 1113 7.878477 ATTATACGAAGTTGAAACGAAGTGA 57.122 32.000 0.00 0.00 37.18 3.41
1081 1114 7.686938 GGAATTATACGAAGTTGAAACGAAGTG 59.313 37.037 0.00 0.00 37.18 3.16
1082 1115 7.385752 TGGAATTATACGAAGTTGAAACGAAGT 59.614 33.333 0.00 0.00 42.08 3.01
1083 1116 7.735500 TGGAATTATACGAAGTTGAAACGAAG 58.264 34.615 0.00 0.00 37.78 3.79
1084 1117 7.655236 TGGAATTATACGAAGTTGAAACGAA 57.345 32.000 0.00 0.00 37.78 3.85
1085 1118 7.837202 ATGGAATTATACGAAGTTGAAACGA 57.163 32.000 0.00 0.00 37.78 3.85
1087 1120 9.620660 AACAATGGAATTATACGAAGTTGAAAC 57.379 29.630 0.00 0.00 36.85 2.78
1091 1124 9.619316 TTCAAACAATGGAATTATACGAAGTTG 57.381 29.630 0.00 0.00 36.85 3.16
1097 1130 9.655769 CAGAGATTCAAACAATGGAATTATACG 57.344 33.333 0.00 0.00 32.46 3.06
1105 1138 6.875726 CACTCTACAGAGATTCAAACAATGGA 59.124 38.462 13.13 0.00 44.74 3.41
1107 1140 6.541086 GCACTCTACAGAGATTCAAACAATG 58.459 40.000 13.13 0.00 44.74 2.82
1108 1141 5.349817 CGCACTCTACAGAGATTCAAACAAT 59.650 40.000 13.13 0.00 44.74 2.71
1110 1143 4.237724 CGCACTCTACAGAGATTCAAACA 58.762 43.478 13.13 0.00 44.74 2.83
1113 1146 2.732282 CGCGCACTCTACAGAGATTCAA 60.732 50.000 13.13 0.00 44.74 2.69
1114 1147 1.202188 CGCGCACTCTACAGAGATTCA 60.202 52.381 13.13 0.00 44.74 2.57
1115 1148 1.471964 CGCGCACTCTACAGAGATTC 58.528 55.000 13.13 1.21 44.74 2.52
1117 1150 1.730487 CCGCGCACTCTACAGAGAT 59.270 57.895 13.13 0.00 44.74 2.75
1118 1151 3.052620 GCCGCGCACTCTACAGAGA 62.053 63.158 13.13 0.00 44.74 3.10
1132 1167 1.675641 AAACCTGATGTCCAGCCGC 60.676 57.895 0.00 0.00 41.57 6.53
1188 1223 2.171448 GGTGATGAAGCAGGAGGTACAT 59.829 50.000 0.00 0.00 0.00 2.29
1301 1337 0.173708 CTTCTCCTGGTAGACGGTGC 59.826 60.000 0.00 0.00 0.00 5.01
1345 1435 2.747460 TTGCATGCCGGCTCTGAC 60.747 61.111 29.70 19.13 34.04 3.51
1357 1447 0.899717 ACCGAAACCATGGCTTGCAT 60.900 50.000 13.04 0.00 0.00 3.96
1363 1453 1.231958 TTGACGACCGAAACCATGGC 61.232 55.000 13.04 0.00 0.00 4.40
1364 1454 0.796312 CTTGACGACCGAAACCATGG 59.204 55.000 11.19 11.19 0.00 3.66
1367 1457 0.460722 TGTCTTGACGACCGAAACCA 59.539 50.000 0.00 0.00 42.13 3.67
1370 1460 0.599204 GCCTGTCTTGACGACCGAAA 60.599 55.000 0.00 0.00 42.13 3.46
1377 1467 2.328099 GCAAGGGCCTGTCTTGACG 61.328 63.158 20.57 0.00 42.94 4.35
1403 1493 2.185310 ATCCCACTCCTTGCCGTCAC 62.185 60.000 0.00 0.00 0.00 3.67
1416 1506 2.244651 GCGCACGTCCATATCCCAC 61.245 63.158 0.30 0.00 0.00 4.61
1419 1509 3.036084 CCGCGCACGTCCATATCC 61.036 66.667 8.75 0.00 37.70 2.59
1433 1523 0.736325 AGTGATACAGTTGACGCCGC 60.736 55.000 0.00 0.00 0.00 6.53
1435 1525 3.187700 CCTTAGTGATACAGTTGACGCC 58.812 50.000 0.00 0.00 0.00 5.68
1463 1554 2.591429 CACAACTGCGGTGCCAGA 60.591 61.111 0.00 0.00 36.67 3.86
1478 1569 0.095245 CGACATGGCATCGAACACAC 59.905 55.000 4.54 0.00 42.25 3.82
1481 1572 1.018752 CACCGACATGGCATCGAACA 61.019 55.000 11.81 0.00 43.94 3.18
1501 1592 4.849329 GCCGTCCCGCTCGTACAG 62.849 72.222 0.00 0.00 0.00 2.74
1521 1612 0.902516 ACTCCTCAGTCTGCTCCACC 60.903 60.000 0.00 0.00 0.00 4.61
1523 1614 0.902048 CCACTCCTCAGTCTGCTCCA 60.902 60.000 0.00 0.00 0.00 3.86
1525 1616 1.612395 CCCCACTCCTCAGTCTGCTC 61.612 65.000 0.00 0.00 0.00 4.26
1533 1624 0.771127 CAGGTTTTCCCCACTCCTCA 59.229 55.000 0.00 0.00 41.86 3.86
1537 1628 1.527433 GCAGCAGGTTTTCCCCACTC 61.527 60.000 0.00 0.00 41.86 3.51
1553 1644 0.540454 TTCTCCTCCAGCTGATGCAG 59.460 55.000 17.39 5.83 42.74 4.41
1554 1645 0.251354 GTTCTCCTCCAGCTGATGCA 59.749 55.000 17.39 0.00 42.74 3.96
1555 1646 0.809241 CGTTCTCCTCCAGCTGATGC 60.809 60.000 17.39 0.00 40.05 3.91
1556 1647 0.809241 GCGTTCTCCTCCAGCTGATG 60.809 60.000 17.39 7.13 0.00 3.07
1557 1648 0.975040 AGCGTTCTCCTCCAGCTGAT 60.975 55.000 17.39 0.00 36.73 2.90
1558 1649 1.599606 GAGCGTTCTCCTCCAGCTGA 61.600 60.000 17.39 0.00 38.39 4.26
1559 1650 1.153667 GAGCGTTCTCCTCCAGCTG 60.154 63.158 6.78 6.78 38.39 4.24
1560 1651 1.603236 CTGAGCGTTCTCCTCCAGCT 61.603 60.000 0.00 0.00 41.29 4.24
1561 1652 1.153667 CTGAGCGTTCTCCTCCAGC 60.154 63.158 0.00 0.00 38.58 4.85
1562 1653 0.455410 CTCTGAGCGTTCTCCTCCAG 59.545 60.000 0.00 0.00 38.58 3.86
1572 1663 4.650754 ACGAATATTTACCTCTGAGCGT 57.349 40.909 0.00 1.79 0.00 5.07
1638 1739 0.597637 AGCTTCACGTCCACGAGTTG 60.598 55.000 6.03 0.00 43.02 3.16
1639 1740 0.104304 AAGCTTCACGTCCACGAGTT 59.896 50.000 6.03 0.00 43.02 3.01
1645 1746 1.344438 ACTGATGAAGCTTCACGTCCA 59.656 47.619 30.66 22.11 40.49 4.02
1646 1747 2.086054 ACTGATGAAGCTTCACGTCC 57.914 50.000 30.66 19.13 40.49 4.79
1717 1819 2.224523 CCTAAGTGCCCTTTCACACTGA 60.225 50.000 0.00 0.00 46.17 3.41
1718 1820 2.154462 CCTAAGTGCCCTTTCACACTG 58.846 52.381 0.00 0.00 46.17 3.66
1737 1839 2.364324 TCAACCGGTCATAGATAGTGCC 59.636 50.000 8.04 0.00 0.00 5.01
1738 1840 3.068307 ACTCAACCGGTCATAGATAGTGC 59.932 47.826 8.04 0.00 0.00 4.40
1741 1843 4.338400 TCACACTCAACCGGTCATAGATAG 59.662 45.833 8.04 0.23 0.00 2.08
1746 1848 2.521126 TCTCACACTCAACCGGTCATA 58.479 47.619 8.04 0.00 0.00 2.15
1750 1852 0.243907 CGATCTCACACTCAACCGGT 59.756 55.000 0.00 0.00 0.00 5.28
1753 1855 1.067565 TGAGCGATCTCACACTCAACC 60.068 52.381 0.90 0.00 43.95 3.77
1765 1867 4.864916 TTGCTTATGAAAGTGAGCGATC 57.135 40.909 0.00 0.00 37.94 3.69
1781 1883 1.794222 GTAAGTGCGCCGATTGCTT 59.206 52.632 4.18 2.43 38.05 3.91
1792 1894 1.885850 CCGTATGGCCCGTAAGTGC 60.886 63.158 0.00 0.00 0.00 4.40
1793 1895 1.227438 CCCGTATGGCCCGTAAGTG 60.227 63.158 0.00 0.00 0.00 3.16
1805 1907 0.398664 CACCCTCCTCCTTCCCGTAT 60.399 60.000 0.00 0.00 0.00 3.06
1808 1910 3.787001 GCACCCTCCTCCTTCCCG 61.787 72.222 0.00 0.00 0.00 5.14
1887 1989 1.002746 TGCCAAGCGCATTCAGGTA 60.003 52.632 11.47 0.00 44.64 3.08
1938 2040 2.109126 GTGCCAAGCGACTCCATCC 61.109 63.158 0.00 0.00 0.00 3.51
1959 2061 4.122776 GCCTTGACGATCTATGTTGATGT 58.877 43.478 0.00 0.00 0.00 3.06
1966 2068 2.029918 TCGATGGCCTTGACGATCTATG 60.030 50.000 3.32 0.00 0.00 2.23
1969 2071 1.043816 ATCGATGGCCTTGACGATCT 58.956 50.000 16.39 2.85 40.61 2.75
1974 2076 2.354203 GGATAGGATCGATGGCCTTGAC 60.354 54.545 10.67 3.97 35.73 3.18
1981 2083 3.092301 TGCAGTAGGATAGGATCGATGG 58.908 50.000 0.54 0.00 0.00 3.51
1987 2089 5.894298 TTGTTCATGCAGTAGGATAGGAT 57.106 39.130 0.00 0.00 0.00 3.24
1988 2090 5.692115 TTTGTTCATGCAGTAGGATAGGA 57.308 39.130 0.00 0.00 0.00 2.94
1989 2091 6.949352 AATTTGTTCATGCAGTAGGATAGG 57.051 37.500 0.00 0.00 0.00 2.57
1990 2092 7.933577 TCCTAATTTGTTCATGCAGTAGGATAG 59.066 37.037 0.00 0.00 0.00 2.08
1991 2093 7.715249 GTCCTAATTTGTTCATGCAGTAGGATA 59.285 37.037 0.00 0.00 33.29 2.59
1992 2094 6.543831 GTCCTAATTTGTTCATGCAGTAGGAT 59.456 38.462 0.00 0.00 33.29 3.24
2018 2120 0.795735 GTGCAGTCACAATCATGCGC 60.796 55.000 0.00 0.00 42.66 6.09
2019 2121 3.301352 GTGCAGTCACAATCATGCG 57.699 52.632 0.00 0.00 42.66 4.73
2041 2143 2.798283 TCAAGTTAACAGCAGTGCGTAC 59.202 45.455 10.00 7.11 0.00 3.67
2049 2151 4.460263 ACAGATGGTTCAAGTTAACAGCA 58.540 39.130 8.61 3.20 0.00 4.41
2051 2153 5.334414 GCAGACAGATGGTTCAAGTTAACAG 60.334 44.000 8.61 0.00 0.00 3.16
2052 2154 4.515191 GCAGACAGATGGTTCAAGTTAACA 59.485 41.667 8.61 0.00 0.00 2.41
2057 2159 2.936919 TGCAGACAGATGGTTCAAGT 57.063 45.000 0.00 0.00 0.00 3.16
2058 2160 2.681848 GGATGCAGACAGATGGTTCAAG 59.318 50.000 0.00 0.00 0.00 3.02
2070 2172 1.202110 CGCAACATTCAGGATGCAGAC 60.202 52.381 0.00 0.00 39.47 3.51
2101 2205 1.270732 TGGCCAAATCACCAATGCAAC 60.271 47.619 0.61 0.00 31.46 4.17
2104 2208 1.483415 AGATGGCCAAATCACCAATGC 59.517 47.619 10.96 0.00 39.96 3.56
2105 2209 3.243636 GCTAGATGGCCAAATCACCAATG 60.244 47.826 10.96 0.00 39.96 2.82
2106 2210 2.961062 GCTAGATGGCCAAATCACCAAT 59.039 45.455 10.96 0.00 39.96 3.16
2107 2211 2.025037 AGCTAGATGGCCAAATCACCAA 60.025 45.455 10.96 0.00 39.96 3.67
2109 2213 2.355010 AGCTAGATGGCCAAATCACC 57.645 50.000 10.96 0.00 0.00 4.02
2110 2214 5.835113 TTTAAGCTAGATGGCCAAATCAC 57.165 39.130 10.96 0.00 0.00 3.06
2127 2231 7.630242 TTGAGCCCAAGATACTGAATTTAAG 57.370 36.000 0.00 0.00 0.00 1.85
2140 2244 5.266788 AGATCATCAAATTTGAGCCCAAGA 58.733 37.500 24.17 14.88 41.08 3.02
2142 2246 5.266788 AGAGATCATCAAATTTGAGCCCAA 58.733 37.500 24.17 9.44 41.08 4.12
2145 2249 7.565323 AGTAAGAGATCATCAAATTTGAGCC 57.435 36.000 24.17 13.37 41.08 4.70
2224 2328 2.308866 TCCTGGGATCTTTTCTTCCACC 59.691 50.000 0.00 0.00 33.43 4.61
2241 2345 5.682862 CGTTCAACAAATTTCAAGTCTCCTG 59.317 40.000 0.00 0.00 0.00 3.86
2243 2347 5.578776 ACGTTCAACAAATTTCAAGTCTCC 58.421 37.500 0.00 0.00 0.00 3.71
2251 2355 9.055248 CATTCTGAGATACGTTCAACAAATTTC 57.945 33.333 0.00 0.00 0.00 2.17
2272 2376 6.516718 CCGATTATGAGGTCTACAACATTCT 58.483 40.000 0.00 0.00 0.00 2.40
2276 2380 3.490249 CGCCGATTATGAGGTCTACAACA 60.490 47.826 0.00 0.00 0.00 3.33
2281 2385 1.269723 CAGCGCCGATTATGAGGTCTA 59.730 52.381 2.29 0.00 0.00 2.59
2345 2449 2.237751 CGCGAGATTTAGCCACGGG 61.238 63.158 0.00 0.00 0.00 5.28
2348 2452 1.348594 GTGCGCGAGATTTAGCCAC 59.651 57.895 12.10 0.17 0.00 5.01
2379 2483 1.903404 CAAAGGGGCCAAGCGAGTT 60.903 57.895 4.39 0.00 0.00 3.01
2380 2484 2.282462 CAAAGGGGCCAAGCGAGT 60.282 61.111 4.39 0.00 0.00 4.18
2416 2520 6.944862 ACTACCAAATCTCTTTCTTCAAGCAT 59.055 34.615 0.00 0.00 31.70 3.79
2421 2525 4.690748 CGCACTACCAAATCTCTTTCTTCA 59.309 41.667 0.00 0.00 0.00 3.02
2423 2527 4.894784 TCGCACTACCAAATCTCTTTCTT 58.105 39.130 0.00 0.00 0.00 2.52
2424 2528 4.537135 TCGCACTACCAAATCTCTTTCT 57.463 40.909 0.00 0.00 0.00 2.52
2463 2567 3.325293 TGAAATCTGAGTGAGCCAGTC 57.675 47.619 3.76 3.76 34.67 3.51
2472 2576 2.768253 TGCGGTCATGAAATCTGAGT 57.232 45.000 0.00 0.00 0.00 3.41
2484 2588 0.533085 TGATCAACGGTTTGCGGTCA 60.533 50.000 0.00 0.00 32.17 4.02
2507 2611 5.643339 TGTTGTTGTTGTTGTTGTTGTTC 57.357 34.783 0.00 0.00 0.00 3.18
2534 2698 5.262009 ACTTATTTGGGACTAAAGGCTTCC 58.738 41.667 0.00 0.00 0.00 3.46
2535 2699 6.621613 CAACTTATTTGGGACTAAAGGCTTC 58.378 40.000 0.00 0.00 0.00 3.86
2553 2717 3.709653 CACCTCTAGCATACCCCAACTTA 59.290 47.826 0.00 0.00 0.00 2.24
2565 2729 8.911918 TTGTAAACTTTATTTCACCTCTAGCA 57.088 30.769 0.00 0.00 0.00 3.49
2611 2775 8.977267 TTTTCCTCAATCCATGAACAATTTTT 57.023 26.923 0.00 0.00 37.67 1.94
2616 2780 7.733969 TGAATTTTTCCTCAATCCATGAACAA 58.266 30.769 0.00 0.00 37.67 2.83
2617 2781 7.300556 TGAATTTTTCCTCAATCCATGAACA 57.699 32.000 0.00 0.00 37.67 3.18
2751 2920 9.443283 CTCAAAGATTATTCGAATTCATGAACC 57.557 33.333 17.19 4.97 0.00 3.62
2839 3009 9.601971 GCATTACTACAATTCGTGAACTTTTTA 57.398 29.630 0.00 0.00 0.00 1.52
2850 3020 8.673626 AAATTTGTGAGCATTACTACAATTCG 57.326 30.769 0.00 0.00 33.56 3.34


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

AutoCloner maintained by Alex Coulton.