Multiple sequence alignment - TraesCS5A01G219000

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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 TraesCS5A01G219000 chr5A 100.000 2519 0 0 1 2519 436330157 436327639 0.000000e+00 4652.0
1 TraesCS5A01G219000 chr5A 86.806 864 83 23 770 1623 436548644 436549486 0.000000e+00 935.0
2 TraesCS5A01G219000 chr5A 90.848 448 38 1 1164 1608 436337453 436337900 4.640000e-167 597.0
3 TraesCS5A01G219000 chr5A 94.706 170 6 1 2301 2470 436304153 436303987 6.910000e-66 261.0
4 TraesCS5A01G219000 chr5A 81.416 226 38 4 2030 2253 576282001 576282224 5.540000e-42 182.0
5 TraesCS5A01G219000 chr5B 85.704 1378 121 37 298 1623 391827197 391825844 0.000000e+00 1384.0
6 TraesCS5A01G219000 chr5B 86.541 899 72 24 741 1623 392118611 392119476 0.000000e+00 944.0
7 TraesCS5A01G219000 chr5B 86.826 835 82 16 741 1566 391866580 391867395 0.000000e+00 907.0
8 TraesCS5A01G219000 chr5B 91.529 543 39 3 1722 2257 407621441 407621983 0.000000e+00 741.0
9 TraesCS5A01G219000 chr5B 94.245 278 16 0 1 278 391827639 391827362 2.320000e-115 425.0
10 TraesCS5A01G219000 chr5B 88.255 298 25 4 1968 2255 691953807 691954104 5.160000e-92 348.0
11 TraesCS5A01G219000 chr5B 91.667 180 9 4 2301 2480 391771788 391771615 6.960000e-61 244.0
12 TraesCS5A01G219000 chr5B 86.364 220 29 1 2035 2254 407621014 407620796 3.240000e-59 239.0
13 TraesCS5A01G219000 chr5B 92.105 152 5 1 2336 2480 391824685 391824534 9.130000e-50 207.0
14 TraesCS5A01G219000 chr5D 85.841 1130 110 34 511 1609 334970253 334969143 0.000000e+00 1155.0
15 TraesCS5A01G219000 chr5D 85.956 1125 85 38 543 1623 334991236 334990141 0.000000e+00 1134.0
16 TraesCS5A01G219000 chr5D 89.663 890 75 15 741 1623 335121197 335122076 0.000000e+00 1118.0
17 TraesCS5A01G219000 chr5D 86.136 880 94 22 740 1614 335087076 335087932 0.000000e+00 924.0
18 TraesCS5A01G219000 chr5D 92.527 281 20 1 1 281 335049595 335049316 3.900000e-108 401.0
19 TraesCS5A01G219000 chr5D 82.366 448 51 14 741 1166 335060610 335061051 5.120000e-97 364.0
20 TraesCS5A01G219000 chr5D 95.210 167 6 2 2305 2470 334907842 334907677 1.920000e-66 263.0
21 TraesCS5A01G219000 chr5D 94.340 159 9 0 1789 1947 490497713 490497871 6.960000e-61 244.0
22 TraesCS5A01G219000 chr5D 90.608 181 9 3 2303 2479 334952597 334952421 1.510000e-57 233.0
23 TraesCS5A01G219000 chr5D 83.256 215 15 11 291 501 335049141 335048944 7.160000e-41 178.0
24 TraesCS5A01G219000 chr2B 90.958 553 38 8 1722 2267 384088188 384087641 0.000000e+00 734.0
25 TraesCS5A01G219000 chr3B 86.422 545 58 8 1723 2254 28120066 28119525 1.300000e-162 582.0
26 TraesCS5A01G219000 chr7B 85.845 438 45 9 741 1166 141009018 141008586 1.370000e-122 449.0
27 TraesCS5A01G219000 chr7D 85.383 431 49 10 741 1166 175662168 175661747 3.850000e-118 435.0
28 TraesCS5A01G219000 chr7A 83.893 447 46 12 741 1166 177344732 177344291 1.090000e-108 403.0
29 TraesCS5A01G219000 chr7A 84.038 213 33 1 2044 2255 488473630 488473418 1.180000e-48 204.0
30 TraesCS5A01G219000 chr7A 82.805 221 38 0 2040 2260 17930433 17930213 5.500000e-47 198.0
31 TraesCS5A01G219000 chr7A 83.645 214 32 3 2044 2255 488112507 488112295 5.500000e-47 198.0
32 TraesCS5A01G219000 chr1B 90.708 226 20 1 1722 1947 59461129 59460905 1.460000e-77 300.0
33 TraesCS5A01G219000 chr6B 91.981 212 17 0 2014 2225 655750792 655751003 5.270000e-77 298.0
34 TraesCS5A01G219000 chr1A 97.297 37 1 0 1097 1133 506489257 506489221 2.090000e-06 63.9


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 TraesCS5A01G219000 chr5A 436327639 436330157 2518 True 4652.0 4652 100.000000 1 2519 1 chr5A.!!$R2 2518
1 TraesCS5A01G219000 chr5A 436548644 436549486 842 False 935.0 935 86.806000 770 1623 1 chr5A.!!$F2 853
2 TraesCS5A01G219000 chr5B 392118611 392119476 865 False 944.0 944 86.541000 741 1623 1 chr5B.!!$F2 882
3 TraesCS5A01G219000 chr5B 391866580 391867395 815 False 907.0 907 86.826000 741 1566 1 chr5B.!!$F1 825
4 TraesCS5A01G219000 chr5B 407621441 407621983 542 False 741.0 741 91.529000 1722 2257 1 chr5B.!!$F3 535
5 TraesCS5A01G219000 chr5B 391824534 391827639 3105 True 672.0 1384 90.684667 1 2480 3 chr5B.!!$R3 2479
6 TraesCS5A01G219000 chr5D 334969143 334970253 1110 True 1155.0 1155 85.841000 511 1609 1 chr5D.!!$R3 1098
7 TraesCS5A01G219000 chr5D 334990141 334991236 1095 True 1134.0 1134 85.956000 543 1623 1 chr5D.!!$R4 1080
8 TraesCS5A01G219000 chr5D 335121197 335122076 879 False 1118.0 1118 89.663000 741 1623 1 chr5D.!!$F3 882
9 TraesCS5A01G219000 chr5D 335087076 335087932 856 False 924.0 924 86.136000 740 1614 1 chr5D.!!$F2 874
10 TraesCS5A01G219000 chr5D 335048944 335049595 651 True 289.5 401 87.891500 1 501 2 chr5D.!!$R5 500
11 TraesCS5A01G219000 chr2B 384087641 384088188 547 True 734.0 734 90.958000 1722 2267 1 chr2B.!!$R1 545
12 TraesCS5A01G219000 chr3B 28119525 28120066 541 True 582.0 582 86.422000 1723 2254 1 chr3B.!!$R1 531

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
573 760 0.721155 CGCGTATGCACACACAACAC 60.721 55.0 7.86 0.0 42.97 3.32 F
870 1101 0.818040 CGGCCTATAAACTGTGCCCC 60.818 60.0 0.00 0.0 38.92 5.80 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1408 1672 0.109781 GCGTTTGCGTTCATGATGGT 60.110 50.0 0.00 0.0 40.81 3.55 R
2487 3870 0.179009 TTTGCAGAACTGAGCAGGCT 60.179 50.0 5.97 0.0 42.39 4.58 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
133 134 0.889186 CCTGGACGGGTTCAAGGTTG 60.889 60.000 0.00 0.00 40.43 3.77
139 140 0.817634 CGGGTTCAAGGTTGTGAGCA 60.818 55.000 0.00 0.00 30.89 4.26
181 182 2.946762 GTTGACGAGCCACCTTGC 59.053 61.111 0.00 0.00 0.00 4.01
185 186 2.970974 GACGAGCCACCTTGCTTGC 61.971 63.158 0.00 0.00 45.08 4.01
198 199 3.062504 CCTTGCTTGCTTGTTTGTTTGTC 59.937 43.478 0.00 0.00 0.00 3.18
200 201 3.924144 TGCTTGCTTGTTTGTTTGTCTT 58.076 36.364 0.00 0.00 0.00 3.01
222 223 6.440965 TCTTTTTAGTTAGAGAAGAGAGGGGG 59.559 42.308 0.00 0.00 0.00 5.40
254 255 4.105486 GGTGTTTTTGTGCTCTTCAACTC 58.895 43.478 0.00 0.00 0.00 3.01
278 279 5.890424 TCTTTTTAACCGGAATAAGCCTG 57.110 39.130 9.46 0.12 0.00 4.85
281 282 6.372381 TCTTTTTAACCGGAATAAGCCTGTAC 59.628 38.462 9.46 0.00 0.00 2.90
282 283 4.822685 TTAACCGGAATAAGCCTGTACA 57.177 40.909 9.46 0.00 0.00 2.90
283 284 3.926058 AACCGGAATAAGCCTGTACAT 57.074 42.857 9.46 0.00 0.00 2.29
285 286 4.230745 ACCGGAATAAGCCTGTACATTT 57.769 40.909 9.46 0.00 0.00 2.32
286 287 3.945285 ACCGGAATAAGCCTGTACATTTG 59.055 43.478 9.46 0.00 0.00 2.32
288 289 3.376859 CGGAATAAGCCTGTACATTTGCA 59.623 43.478 12.81 0.00 0.00 4.08
289 290 4.142491 CGGAATAAGCCTGTACATTTGCAA 60.142 41.667 12.81 0.00 0.00 4.08
294 460 5.410355 AAGCCTGTACATTTGCAATGAAT 57.590 34.783 0.00 0.00 0.00 2.57
299 465 5.975344 CCTGTACATTTGCAATGAATAGCTG 59.025 40.000 0.00 0.00 0.00 4.24
303 469 2.547913 TTGCAATGAATAGCTGTGCG 57.452 45.000 0.00 0.00 38.05 5.34
371 537 2.181975 CAATCCCTGGGTTTCAGCATT 58.818 47.619 13.56 0.00 42.05 3.56
374 540 0.890683 CCCTGGGTTTCAGCATTCAC 59.109 55.000 3.97 0.00 42.05 3.18
413 579 4.591321 TGGAGCCAGGAATTGAGTTTAT 57.409 40.909 0.00 0.00 0.00 1.40
468 638 5.733620 TCTGAACACGGTAAGGTCTTAAT 57.266 39.130 0.00 0.00 0.00 1.40
469 639 6.105397 TCTGAACACGGTAAGGTCTTAATT 57.895 37.500 0.00 0.00 0.00 1.40
470 640 6.527423 TCTGAACACGGTAAGGTCTTAATTT 58.473 36.000 0.00 0.00 0.00 1.82
501 671 5.237344 AGGCATTAGATCAAGAAACGTATGC 59.763 40.000 0.00 3.53 36.14 3.14
504 674 7.134815 GCATTAGATCAAGAAACGTATGCATT 58.865 34.615 3.54 0.00 36.70 3.56
506 676 9.803130 CATTAGATCAAGAAACGTATGCATTAG 57.197 33.333 3.54 1.52 0.00 1.73
507 677 9.764363 ATTAGATCAAGAAACGTATGCATTAGA 57.236 29.630 3.54 0.00 0.00 2.10
508 678 9.764363 TTAGATCAAGAAACGTATGCATTAGAT 57.236 29.630 3.54 0.00 0.00 1.98
509 679 8.304202 AGATCAAGAAACGTATGCATTAGATC 57.696 34.615 3.54 5.40 0.00 2.75
569 756 1.288419 CTTCCGCGTATGCACACACA 61.288 55.000 4.92 0.00 42.97 3.72
570 757 0.880718 TTCCGCGTATGCACACACAA 60.881 50.000 4.92 0.00 42.97 3.33
571 758 1.154488 CCGCGTATGCACACACAAC 60.154 57.895 4.92 0.00 42.97 3.32
572 759 1.567050 CGCGTATGCACACACAACA 59.433 52.632 7.86 0.00 42.97 3.33
573 760 0.721155 CGCGTATGCACACACAACAC 60.721 55.000 7.86 0.00 42.97 3.32
589 781 5.670097 CACAACACGTGTTTCTCTAAGATG 58.330 41.667 30.49 18.15 38.92 2.90
627 819 4.142773 CGCTAGAAACAAAGCCCGAATTTA 60.143 41.667 0.00 0.00 35.22 1.40
628 820 5.618195 CGCTAGAAACAAAGCCCGAATTTAA 60.618 40.000 0.00 0.00 35.22 1.52
653 845 2.571757 CTGCGCTTCTGGTCCGTA 59.428 61.111 9.73 0.00 0.00 4.02
654 846 1.805945 CTGCGCTTCTGGTCCGTAC 60.806 63.158 9.73 0.00 0.00 3.67
655 847 2.508663 GCGCTTCTGGTCCGTACC 60.509 66.667 0.00 0.00 46.98 3.34
672 864 2.490217 CGTAGGTGCTGGAGTCCG 59.510 66.667 4.30 0.44 0.00 4.79
683 876 2.586357 GAGTCCGCGGATGCTTCC 60.586 66.667 33.58 17.51 39.65 3.46
690 883 1.586154 CGCGGATGCTTCCCAACTTT 61.586 55.000 12.77 0.00 39.01 2.66
692 885 1.402852 GCGGATGCTTCCCAACTTTTC 60.403 52.381 12.77 0.00 39.01 2.29
693 886 2.162681 CGGATGCTTCCCAACTTTTCT 58.837 47.619 12.77 0.00 39.01 2.52
694 887 3.343617 CGGATGCTTCCCAACTTTTCTA 58.656 45.455 12.77 0.00 39.01 2.10
695 888 3.375299 CGGATGCTTCCCAACTTTTCTAG 59.625 47.826 12.77 0.00 39.01 2.43
696 889 4.589908 GGATGCTTCCCAACTTTTCTAGA 58.410 43.478 7.41 0.00 35.84 2.43
699 892 5.818678 TGCTTCCCAACTTTTCTAGAGTA 57.181 39.130 0.00 0.00 0.00 2.59
719 912 4.943705 AGTATCTGTTTGGCGTTTCATGAT 59.056 37.500 0.00 0.00 0.00 2.45
721 914 3.145286 TCTGTTTGGCGTTTCATGATGA 58.855 40.909 0.00 0.00 0.00 2.92
722 915 3.567585 TCTGTTTGGCGTTTCATGATGAA 59.432 39.130 3.29 3.29 34.03 2.57
723 916 3.899734 TGTTTGGCGTTTCATGATGAAG 58.100 40.909 8.01 0.00 37.70 3.02
724 917 2.634982 TTGGCGTTTCATGATGAAGC 57.365 45.000 11.39 11.39 37.70 3.86
728 921 1.474077 GCGTTTCATGATGAAGCCCTT 59.526 47.619 14.94 0.00 37.70 3.95
735 949 1.377202 GATGAAGCCCTTGTCCGCA 60.377 57.895 0.00 0.00 0.00 5.69
736 950 1.648467 GATGAAGCCCTTGTCCGCAC 61.648 60.000 0.00 0.00 0.00 5.34
738 952 4.250305 AAGCCCTTGTCCGCACGT 62.250 61.111 0.00 0.00 0.00 4.49
744 958 3.620300 CTTGTCCGCACGTCCGCTA 62.620 63.158 0.00 0.00 0.00 4.26
761 975 1.595466 CTACCTCGCTCCACGTAGAT 58.405 55.000 0.00 0.00 44.19 1.98
767 981 1.402968 TCGCTCCACGTAGATGGTAAC 59.597 52.381 0.00 0.00 44.19 2.50
870 1101 0.818040 CGGCCTATAAACTGTGCCCC 60.818 60.000 0.00 0.00 38.92 5.80
953 1187 3.051081 AGCAATCATCTAGCCGATTCC 57.949 47.619 4.09 0.00 29.38 3.01
961 1195 1.153168 TAGCCGATTCCTTGCCTGC 60.153 57.895 0.00 0.00 0.00 4.85
984 1241 2.679059 GCAGCATCTGTAGCTTCCTTCA 60.679 50.000 0.00 0.00 41.14 3.02
1086 1350 2.829003 CTCGGCGCCAGGTCTCTA 60.829 66.667 28.98 1.21 0.00 2.43
1191 1455 3.815569 CTCGATCTGGGACGCGCTC 62.816 68.421 5.73 2.64 0.00 5.03
1303 1567 2.418910 GGGCTACTCTCGCAGCTCA 61.419 63.158 0.00 0.00 38.21 4.26
1353 1617 3.231889 CTCTGTGGCGGTGCTGTCT 62.232 63.158 0.00 0.00 0.00 3.41
1422 1686 2.397754 CGGCACCATCATGAACGCA 61.398 57.895 0.00 0.00 0.00 5.24
1551 1821 1.614903 TGTCGACCGGATAACACAACT 59.385 47.619 9.46 0.00 0.00 3.16
1553 1825 3.255395 TGTCGACCGGATAACACAACTTA 59.745 43.478 9.46 0.00 0.00 2.24
1557 1829 5.125257 TCGACCGGATAACACAACTTATACA 59.875 40.000 9.46 0.00 0.00 2.29
1658 1938 4.904253 TTTTGTCCTTCAACTTTACCGG 57.096 40.909 0.00 0.00 35.61 5.28
1659 1939 3.564053 TTGTCCTTCAACTTTACCGGT 57.436 42.857 13.98 13.98 0.00 5.28
1660 1940 4.686191 TTGTCCTTCAACTTTACCGGTA 57.314 40.909 11.16 11.16 0.00 4.02
1661 1941 4.261578 TGTCCTTCAACTTTACCGGTAG 57.738 45.455 15.20 8.76 0.00 3.18
1662 1942 3.642848 TGTCCTTCAACTTTACCGGTAGT 59.357 43.478 15.20 9.50 0.00 2.73
1663 1943 4.101430 TGTCCTTCAACTTTACCGGTAGTT 59.899 41.667 15.61 15.61 35.06 2.24
1664 1944 5.059161 GTCCTTCAACTTTACCGGTAGTTT 58.941 41.667 18.19 8.91 32.50 2.66
1665 1945 6.183360 TGTCCTTCAACTTTACCGGTAGTTTA 60.183 38.462 18.19 9.58 32.50 2.01
1666 1946 6.367149 GTCCTTCAACTTTACCGGTAGTTTAG 59.633 42.308 18.19 16.81 32.50 1.85
1667 1947 6.267471 TCCTTCAACTTTACCGGTAGTTTAGA 59.733 38.462 18.19 11.75 32.50 2.10
1668 1948 6.930722 CCTTCAACTTTACCGGTAGTTTAGAA 59.069 38.462 18.19 17.09 32.50 2.10
1669 1949 7.442062 CCTTCAACTTTACCGGTAGTTTAGAAA 59.558 37.037 18.19 7.97 32.50 2.52
1670 1950 8.907222 TTCAACTTTACCGGTAGTTTAGAAAT 57.093 30.769 18.19 0.00 32.50 2.17
1671 1951 8.314143 TCAACTTTACCGGTAGTTTAGAAATG 57.686 34.615 18.19 8.07 32.50 2.32
1672 1952 7.388500 TCAACTTTACCGGTAGTTTAGAAATGG 59.612 37.037 18.19 6.77 32.50 3.16
1673 1953 6.772605 ACTTTACCGGTAGTTTAGAAATGGT 58.227 36.000 15.20 0.00 0.00 3.55
1674 1954 6.875726 ACTTTACCGGTAGTTTAGAAATGGTC 59.124 38.462 15.20 0.00 0.00 4.02
1675 1955 6.610075 TTACCGGTAGTTTAGAAATGGTCT 57.390 37.500 15.20 0.00 40.71 3.85
1676 1956 5.082251 ACCGGTAGTTTAGAAATGGTCTC 57.918 43.478 4.49 0.00 37.84 3.36
1677 1957 4.529377 ACCGGTAGTTTAGAAATGGTCTCA 59.471 41.667 4.49 0.00 37.84 3.27
1678 1958 5.012354 ACCGGTAGTTTAGAAATGGTCTCAA 59.988 40.000 4.49 0.00 37.84 3.02
1679 1959 5.935789 CCGGTAGTTTAGAAATGGTCTCAAA 59.064 40.000 0.00 0.00 37.84 2.69
1680 1960 6.428771 CCGGTAGTTTAGAAATGGTCTCAAAA 59.571 38.462 0.00 0.00 37.84 2.44
1681 1961 7.295930 CGGTAGTTTAGAAATGGTCTCAAAAC 58.704 38.462 0.00 0.00 35.99 2.43
1682 1962 7.172703 CGGTAGTTTAGAAATGGTCTCAAAACT 59.827 37.037 8.52 8.52 43.20 2.66
1683 1963 9.498176 GGTAGTTTAGAAATGGTCTCAAAACTA 57.502 33.333 7.11 7.11 40.80 2.24
1685 1965 8.974060 AGTTTAGAAATGGTCTCAAAACTACA 57.026 30.769 3.53 0.00 40.80 2.74
1686 1966 9.403583 AGTTTAGAAATGGTCTCAAAACTACAA 57.596 29.630 3.53 0.00 40.80 2.41
1690 1970 7.489160 AGAAATGGTCTCAAAACTACAAAACC 58.511 34.615 0.00 0.00 0.00 3.27
1691 1971 6.783708 AATGGTCTCAAAACTACAAAACCA 57.216 33.333 0.00 0.00 39.66 3.67
1692 1972 5.828299 TGGTCTCAAAACTACAAAACCAG 57.172 39.130 0.00 0.00 32.12 4.00
1693 1973 5.502079 TGGTCTCAAAACTACAAAACCAGA 58.498 37.500 0.00 0.00 32.12 3.86
1694 1974 5.946972 TGGTCTCAAAACTACAAAACCAGAA 59.053 36.000 0.00 0.00 32.12 3.02
1695 1975 6.434652 TGGTCTCAAAACTACAAAACCAGAAA 59.565 34.615 0.00 0.00 32.12 2.52
1696 1976 7.039644 TGGTCTCAAAACTACAAAACCAGAAAA 60.040 33.333 0.00 0.00 32.12 2.29
1697 1977 7.815549 GGTCTCAAAACTACAAAACCAGAAAAA 59.184 33.333 0.00 0.00 0.00 1.94
1698 1978 8.644619 GTCTCAAAACTACAAAACCAGAAAAAC 58.355 33.333 0.00 0.00 0.00 2.43
1699 1979 7.815549 TCTCAAAACTACAAAACCAGAAAAACC 59.184 33.333 0.00 0.00 0.00 3.27
1700 1980 7.672240 TCAAAACTACAAAACCAGAAAAACCT 58.328 30.769 0.00 0.00 0.00 3.50
1701 1981 7.600752 TCAAAACTACAAAACCAGAAAAACCTG 59.399 33.333 0.00 0.00 0.00 4.00
1708 1988 1.911057 CCAGAAAAACCTGGTCCCTC 58.089 55.000 0.00 0.00 46.62 4.30
1709 1989 1.144913 CCAGAAAAACCTGGTCCCTCA 59.855 52.381 0.00 0.00 46.62 3.86
1710 1990 2.424234 CCAGAAAAACCTGGTCCCTCAA 60.424 50.000 0.00 0.00 46.62 3.02
1711 1991 3.500343 CAGAAAAACCTGGTCCCTCAAT 58.500 45.455 0.00 0.00 0.00 2.57
1712 1992 3.897505 CAGAAAAACCTGGTCCCTCAATT 59.102 43.478 0.00 0.00 0.00 2.32
1713 1993 3.897505 AGAAAAACCTGGTCCCTCAATTG 59.102 43.478 0.00 0.00 0.00 2.32
1714 1994 3.328535 AAAACCTGGTCCCTCAATTGT 57.671 42.857 5.13 0.00 0.00 2.71
1715 1995 2.586648 AACCTGGTCCCTCAATTGTC 57.413 50.000 5.13 0.00 0.00 3.18
1716 1996 0.324943 ACCTGGTCCCTCAATTGTCG 59.675 55.000 5.13 0.00 0.00 4.35
1717 1997 0.613260 CCTGGTCCCTCAATTGTCGA 59.387 55.000 5.13 0.00 0.00 4.20
1718 1998 1.003118 CCTGGTCCCTCAATTGTCGAA 59.997 52.381 5.13 0.00 0.00 3.71
1719 1999 2.552155 CCTGGTCCCTCAATTGTCGAAA 60.552 50.000 5.13 0.00 0.00 3.46
1720 2000 2.484264 CTGGTCCCTCAATTGTCGAAAC 59.516 50.000 5.13 0.00 0.00 2.78
1728 2008 2.158740 TCAATTGTCGAAACCAGGTCCA 60.159 45.455 5.13 0.00 0.00 4.02
1838 2118 0.537143 TGTTTCCCTGTGAATGCGCT 60.537 50.000 9.73 0.00 31.67 5.92
1865 2146 4.736896 GTCCGAGGACGTGGGCAC 62.737 72.222 6.51 0.00 37.88 5.01
1900 2181 1.937223 CGTGCACTACTTTGACAACCA 59.063 47.619 16.19 0.00 0.00 3.67
2082 2373 0.324614 AGTTGGACGATGATGTGGCA 59.675 50.000 0.00 0.00 0.00 4.92
2085 2376 0.612744 TGGACGATGATGTGGCAAGA 59.387 50.000 0.00 0.00 0.00 3.02
2123 2414 0.667993 CCACGTCAGCACAAAACCAT 59.332 50.000 0.00 0.00 0.00 3.55
2159 2450 4.338012 AGGGACGAAAAATATCCGGTTTT 58.662 39.130 0.00 0.00 32.90 2.43
2162 2453 6.604396 AGGGACGAAAAATATCCGGTTTTAAT 59.396 34.615 0.00 0.00 32.90 1.40
2233 2524 7.294584 TCTATACCATTGGTAAAATTGAGGGG 58.705 38.462 19.13 0.00 41.85 4.79
2257 2548 8.509690 GGGCGAAAAATATACTTTTCCCTATAC 58.490 37.037 18.20 6.25 40.64 1.47
2271 2562 8.667076 TTTTCCCTATACTAATTAAAGACGGC 57.333 34.615 0.00 0.00 0.00 5.68
2273 2564 6.080009 TCCCTATACTAATTAAAGACGGCCT 58.920 40.000 0.00 0.00 0.00 5.19
2323 3683 2.513065 ATTTTCCTGTTCGCGCGCAG 62.513 55.000 32.61 25.99 0.00 5.18
2386 3762 3.753434 CAGCGACTCTCCGGCTGT 61.753 66.667 0.00 0.00 46.82 4.40
2390 3766 2.183046 GACTCTCCGGCTGTGCTC 59.817 66.667 0.00 0.00 0.00 4.26
2404 3780 3.640407 GCTCTGCTCCACCACCCA 61.640 66.667 0.00 0.00 0.00 4.51
2490 3873 4.814294 CCCGTGCAGGTACGAGCC 62.814 72.222 11.46 0.00 46.46 4.70
2491 3874 3.760035 CCGTGCAGGTACGAGCCT 61.760 66.667 11.46 0.00 46.46 4.58
2497 3880 3.609703 AGGTACGAGCCTGCTCAG 58.390 61.111 18.45 13.07 42.86 3.35
2498 3881 1.304547 AGGTACGAGCCTGCTCAGT 60.305 57.895 18.45 17.34 42.86 3.41
2499 3882 0.900647 AGGTACGAGCCTGCTCAGTT 60.901 55.000 18.45 5.26 42.86 3.16
2500 3883 0.458716 GGTACGAGCCTGCTCAGTTC 60.459 60.000 18.45 13.53 42.86 3.01
2501 3884 0.528470 GTACGAGCCTGCTCAGTTCT 59.472 55.000 18.45 0.00 42.86 3.01
2502 3885 0.528017 TACGAGCCTGCTCAGTTCTG 59.472 55.000 18.45 4.25 42.86 3.02
2503 3886 2.099431 CGAGCCTGCTCAGTTCTGC 61.099 63.158 18.45 0.00 42.86 4.26
2504 3887 1.004080 GAGCCTGCTCAGTTCTGCA 60.004 57.895 14.07 0.00 42.31 4.41
2505 3888 0.604780 GAGCCTGCTCAGTTCTGCAA 60.605 55.000 14.07 0.00 42.31 4.08
2506 3889 0.179009 AGCCTGCTCAGTTCTGCAAA 60.179 50.000 0.00 0.00 38.81 3.68
2507 3890 0.886563 GCCTGCTCAGTTCTGCAAAT 59.113 50.000 0.00 0.00 38.81 2.32
2508 3891 1.135460 GCCTGCTCAGTTCTGCAAATC 60.135 52.381 0.00 0.00 38.81 2.17
2509 3892 1.471684 CCTGCTCAGTTCTGCAAATCC 59.528 52.381 0.00 0.00 38.81 3.01
2510 3893 1.471684 CTGCTCAGTTCTGCAAATCCC 59.528 52.381 0.00 0.00 38.81 3.85
2511 3894 0.449388 GCTCAGTTCTGCAAATCCCG 59.551 55.000 0.00 0.00 0.00 5.14
2512 3895 1.089920 CTCAGTTCTGCAAATCCCGG 58.910 55.000 0.00 0.00 0.00 5.73
2513 3896 0.690192 TCAGTTCTGCAAATCCCGGA 59.310 50.000 0.73 0.00 0.00 5.14
2514 3897 1.073125 TCAGTTCTGCAAATCCCGGAA 59.927 47.619 0.73 0.00 0.00 4.30
2515 3898 1.200020 CAGTTCTGCAAATCCCGGAAC 59.800 52.381 0.73 4.96 44.86 3.62
2516 3899 1.534729 GTTCTGCAAATCCCGGAACT 58.465 50.000 0.73 0.00 42.51 3.01
2517 3900 1.468914 GTTCTGCAAATCCCGGAACTC 59.531 52.381 0.73 0.00 42.51 3.01
2518 3901 0.984230 TCTGCAAATCCCGGAACTCT 59.016 50.000 0.73 0.00 0.00 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
133 134 0.376152 CGCAAGTCCATGATGCTCAC 59.624 55.000 0.00 0.00 37.92 3.51
181 182 8.017587 ACTAAAAAGACAAACAAACAAGCAAG 57.982 30.769 0.00 0.00 0.00 4.01
198 199 6.213802 ACCCCCTCTCTTCTCTAACTAAAAAG 59.786 42.308 0.00 0.00 0.00 2.27
200 201 5.662597 ACCCCCTCTCTTCTCTAACTAAAA 58.337 41.667 0.00 0.00 0.00 1.52
222 223 5.515184 AGCACAAAAACACCAAAACAAAAC 58.485 33.333 0.00 0.00 0.00 2.43
254 255 6.072119 ACAGGCTTATTCCGGTTAAAAAGAAG 60.072 38.462 0.00 1.83 30.25 2.85
278 279 5.230726 GCACAGCTATTCATTGCAAATGTAC 59.769 40.000 1.71 0.00 33.24 2.90
281 282 3.242016 CGCACAGCTATTCATTGCAAATG 59.758 43.478 1.71 2.77 32.51 2.32
282 283 3.119388 ACGCACAGCTATTCATTGCAAAT 60.119 39.130 1.71 0.00 32.51 2.32
283 284 2.228582 ACGCACAGCTATTCATTGCAAA 59.771 40.909 1.71 0.00 32.51 3.68
285 286 1.398041 GACGCACAGCTATTCATTGCA 59.602 47.619 0.00 0.00 32.51 4.08
286 287 1.398041 TGACGCACAGCTATTCATTGC 59.602 47.619 0.00 0.00 0.00 3.56
288 289 3.599343 TCTTGACGCACAGCTATTCATT 58.401 40.909 0.00 0.00 0.00 2.57
289 290 3.193263 CTCTTGACGCACAGCTATTCAT 58.807 45.455 0.00 0.00 0.00 2.57
294 460 0.033366 TTGCTCTTGACGCACAGCTA 59.967 50.000 0.00 2.73 37.07 3.32
299 465 1.063174 GATCCATTGCTCTTGACGCAC 59.937 52.381 0.00 0.00 37.07 5.34
303 469 2.029838 ACCGATCCATTGCTCTTGAC 57.970 50.000 0.00 0.00 0.00 3.18
413 579 3.857052 AGACTTGCGTATTCATTTCGGA 58.143 40.909 0.00 0.00 0.00 4.55
437 603 7.844009 ACCTTACCGTGTTCAGAAAGATATAA 58.156 34.615 0.00 0.00 0.00 0.98
443 609 3.991367 AGACCTTACCGTGTTCAGAAAG 58.009 45.455 0.00 0.00 0.00 2.62
447 617 6.796705 AAATTAAGACCTTACCGTGTTCAG 57.203 37.500 0.00 0.00 0.00 3.02
469 639 9.691362 GTTTCTTGATCTAATGCCTTACAAAAA 57.309 29.630 0.00 0.00 0.00 1.94
470 640 8.020819 CGTTTCTTGATCTAATGCCTTACAAAA 58.979 33.333 0.00 0.00 0.00 2.44
501 671 7.464358 CACCGGTAAACTTTCTTGATCTAATG 58.536 38.462 6.87 0.00 0.00 1.90
504 674 4.933400 GCACCGGTAAACTTTCTTGATCTA 59.067 41.667 6.87 0.00 0.00 1.98
506 676 3.751698 AGCACCGGTAAACTTTCTTGATC 59.248 43.478 6.87 0.00 0.00 2.92
507 677 3.751518 AGCACCGGTAAACTTTCTTGAT 58.248 40.909 6.87 0.00 0.00 2.57
508 678 3.202829 AGCACCGGTAAACTTTCTTGA 57.797 42.857 6.87 0.00 0.00 3.02
509 679 3.982576 AAGCACCGGTAAACTTTCTTG 57.017 42.857 6.87 0.00 0.00 3.02
569 756 6.018180 GGAAACATCTTAGAGAAACACGTGTT 60.018 38.462 27.70 27.70 40.50 3.32
570 757 5.465724 GGAAACATCTTAGAGAAACACGTGT 59.534 40.000 17.22 17.22 0.00 4.49
571 758 5.465390 TGGAAACATCTTAGAGAAACACGTG 59.535 40.000 15.48 15.48 33.40 4.49
572 759 5.607477 TGGAAACATCTTAGAGAAACACGT 58.393 37.500 0.00 0.00 33.40 4.49
652 844 0.682209 GGACTCCAGCACCTACGGTA 60.682 60.000 0.00 0.00 32.11 4.02
653 845 1.982938 GGACTCCAGCACCTACGGT 60.983 63.158 0.00 0.00 35.62 4.83
654 846 2.893398 GGACTCCAGCACCTACGG 59.107 66.667 0.00 0.00 0.00 4.02
655 847 2.490217 CGGACTCCAGCACCTACG 59.510 66.667 0.00 0.00 0.00 3.51
656 848 2.184579 GCGGACTCCAGCACCTAC 59.815 66.667 6.94 0.00 0.00 3.18
683 876 7.361286 GCCAAACAGATACTCTAGAAAAGTTGG 60.361 40.741 0.00 0.00 0.00 3.77
690 883 5.401531 AACGCCAAACAGATACTCTAGAA 57.598 39.130 0.00 0.00 0.00 2.10
692 885 5.168569 TGAAACGCCAAACAGATACTCTAG 58.831 41.667 0.00 0.00 0.00 2.43
693 886 5.142061 TGAAACGCCAAACAGATACTCTA 57.858 39.130 0.00 0.00 0.00 2.43
694 887 4.002906 TGAAACGCCAAACAGATACTCT 57.997 40.909 0.00 0.00 0.00 3.24
695 888 4.391830 TCATGAAACGCCAAACAGATACTC 59.608 41.667 0.00 0.00 0.00 2.59
696 889 4.323417 TCATGAAACGCCAAACAGATACT 58.677 39.130 0.00 0.00 0.00 2.12
699 892 3.758023 TCATCATGAAACGCCAAACAGAT 59.242 39.130 0.00 0.00 0.00 2.90
715 908 0.749454 GCGGACAAGGGCTTCATCAT 60.749 55.000 0.00 0.00 0.00 2.45
719 912 2.281484 GTGCGGACAAGGGCTTCA 60.281 61.111 0.63 0.00 0.00 3.02
721 914 4.250305 ACGTGCGGACAAGGGCTT 62.250 61.111 8.11 0.00 0.00 4.35
722 915 4.681978 GACGTGCGGACAAGGGCT 62.682 66.667 8.11 0.00 0.00 5.19
728 921 4.409218 GTAGCGGACGTGCGGACA 62.409 66.667 30.42 3.68 40.67 4.02
735 949 3.507009 GAGCGAGGTAGCGGACGT 61.507 66.667 0.00 0.00 43.00 4.34
736 950 4.253257 GGAGCGAGGTAGCGGACG 62.253 72.222 0.00 5.24 43.00 4.79
738 952 3.138798 GTGGAGCGAGGTAGCGGA 61.139 66.667 0.00 0.00 43.00 5.54
744 958 1.384989 CCATCTACGTGGAGCGAGGT 61.385 60.000 7.91 0.00 44.77 3.85
849 1079 1.014352 GGCACAGTTTATAGGCCGTG 58.986 55.000 0.00 0.00 34.56 4.94
850 1080 0.107361 GGGCACAGTTTATAGGCCGT 60.107 55.000 0.00 0.00 45.52 5.68
870 1101 4.655762 TGATGTATTGTTCCGAGAGAGG 57.344 45.455 0.00 0.00 0.00 3.69
961 1195 1.134461 AGGAAGCTACAGATGCTGCAG 60.134 52.381 10.11 10.11 41.03 4.41
984 1241 0.532862 CCATTAATCAGCCGCGGACT 60.533 55.000 33.48 22.91 0.00 3.85
1290 1554 2.572812 CTGCTGAGCTGCGAGAGT 59.427 61.111 5.83 0.00 35.36 3.24
1408 1672 0.109781 GCGTTTGCGTTCATGATGGT 60.110 50.000 0.00 0.00 40.81 3.55
1422 1686 1.668151 GTTCCAGAGCTCCGCGTTT 60.668 57.895 10.93 0.00 0.00 3.60
1479 1743 0.596083 CGCCAGTGATGATCTCGGTC 60.596 60.000 0.00 0.00 0.00 4.79
1557 1829 9.314133 TCATCATTTACATGTCCTACTAGCTAT 57.686 33.333 0.00 0.00 0.00 2.97
1636 1916 4.705991 ACCGGTAAAGTTGAAGGACAAAAA 59.294 37.500 4.49 0.00 40.36 1.94
1637 1917 4.271661 ACCGGTAAAGTTGAAGGACAAAA 58.728 39.130 4.49 0.00 40.36 2.44
1638 1918 3.888583 ACCGGTAAAGTTGAAGGACAAA 58.111 40.909 4.49 0.00 40.36 2.83
1639 1919 3.564053 ACCGGTAAAGTTGAAGGACAA 57.436 42.857 4.49 0.00 36.02 3.18
1640 1920 3.642848 ACTACCGGTAAAGTTGAAGGACA 59.357 43.478 16.65 0.00 0.00 4.02
1641 1921 4.263018 ACTACCGGTAAAGTTGAAGGAC 57.737 45.455 16.65 0.00 0.00 3.85
1642 1922 4.961438 AACTACCGGTAAAGTTGAAGGA 57.039 40.909 19.64 0.00 34.70 3.36
1643 1923 6.458210 TCTAAACTACCGGTAAAGTTGAAGG 58.542 40.000 20.74 12.23 36.12 3.46
1644 1924 7.951530 TTCTAAACTACCGGTAAAGTTGAAG 57.048 36.000 20.74 19.39 36.12 3.02
1645 1925 8.776470 CATTTCTAAACTACCGGTAAAGTTGAA 58.224 33.333 20.74 17.21 36.12 2.69
1646 1926 7.388500 CCATTTCTAAACTACCGGTAAAGTTGA 59.612 37.037 20.74 13.90 36.12 3.18
1647 1927 7.173735 ACCATTTCTAAACTACCGGTAAAGTTG 59.826 37.037 20.74 11.19 36.12 3.16
1648 1928 7.226441 ACCATTTCTAAACTACCGGTAAAGTT 58.774 34.615 16.65 16.07 37.54 2.66
1649 1929 6.772605 ACCATTTCTAAACTACCGGTAAAGT 58.227 36.000 16.65 10.22 0.00 2.66
1650 1930 7.101700 AGACCATTTCTAAACTACCGGTAAAG 58.898 38.462 16.65 9.48 30.17 1.85
1651 1931 7.008021 AGACCATTTCTAAACTACCGGTAAA 57.992 36.000 16.65 7.35 30.17 2.01
1652 1932 6.211184 TGAGACCATTTCTAAACTACCGGTAA 59.789 38.462 16.65 0.00 33.22 2.85
1653 1933 5.716228 TGAGACCATTTCTAAACTACCGGTA 59.284 40.000 14.95 14.95 33.22 4.02
1654 1934 4.529377 TGAGACCATTTCTAAACTACCGGT 59.471 41.667 13.98 13.98 33.22 5.28
1655 1935 5.080969 TGAGACCATTTCTAAACTACCGG 57.919 43.478 0.00 0.00 33.22 5.28
1656 1936 7.172703 AGTTTTGAGACCATTTCTAAACTACCG 59.827 37.037 11.23 0.00 43.60 4.02
1657 1937 8.392372 AGTTTTGAGACCATTTCTAAACTACC 57.608 34.615 11.23 0.00 43.60 3.18
1660 1940 8.974060 TGTAGTTTTGAGACCATTTCTAAACT 57.026 30.769 15.28 15.28 45.59 2.66
1664 1944 8.626526 GGTTTTGTAGTTTTGAGACCATTTCTA 58.373 33.333 0.00 0.00 33.22 2.10
1665 1945 7.123547 TGGTTTTGTAGTTTTGAGACCATTTCT 59.876 33.333 0.00 0.00 37.23 2.52
1666 1946 7.262048 TGGTTTTGTAGTTTTGAGACCATTTC 58.738 34.615 0.00 0.00 31.47 2.17
1667 1947 7.123547 TCTGGTTTTGTAGTTTTGAGACCATTT 59.876 33.333 0.00 0.00 35.58 2.32
1668 1948 6.605594 TCTGGTTTTGTAGTTTTGAGACCATT 59.394 34.615 0.00 0.00 35.58 3.16
1669 1949 6.126409 TCTGGTTTTGTAGTTTTGAGACCAT 58.874 36.000 0.00 0.00 35.58 3.55
1670 1950 5.502079 TCTGGTTTTGTAGTTTTGAGACCA 58.498 37.500 0.00 0.00 34.94 4.02
1671 1951 6.445357 TTCTGGTTTTGTAGTTTTGAGACC 57.555 37.500 0.00 0.00 0.00 3.85
1672 1952 8.644619 GTTTTTCTGGTTTTGTAGTTTTGAGAC 58.355 33.333 0.00 0.00 0.00 3.36
1673 1953 7.815549 GGTTTTTCTGGTTTTGTAGTTTTGAGA 59.184 33.333 0.00 0.00 0.00 3.27
1674 1954 7.817478 AGGTTTTTCTGGTTTTGTAGTTTTGAG 59.183 33.333 0.00 0.00 0.00 3.02
1675 1955 7.600752 CAGGTTTTTCTGGTTTTGTAGTTTTGA 59.399 33.333 0.00 0.00 0.00 2.69
1676 1956 7.148490 CCAGGTTTTTCTGGTTTTGTAGTTTTG 60.148 37.037 2.93 0.00 46.89 2.44
1677 1957 6.876789 CCAGGTTTTTCTGGTTTTGTAGTTTT 59.123 34.615 2.93 0.00 46.89 2.43
1678 1958 6.403049 CCAGGTTTTTCTGGTTTTGTAGTTT 58.597 36.000 2.93 0.00 46.89 2.66
1679 1959 5.972935 CCAGGTTTTTCTGGTTTTGTAGTT 58.027 37.500 2.93 0.00 46.89 2.24
1680 1960 5.592104 CCAGGTTTTTCTGGTTTTGTAGT 57.408 39.130 2.93 0.00 46.89 2.73
1690 1970 2.656947 TGAGGGACCAGGTTTTTCTG 57.343 50.000 0.00 0.00 34.70 3.02
1691 1971 3.897505 CAATTGAGGGACCAGGTTTTTCT 59.102 43.478 0.00 0.00 0.00 2.52
1692 1972 3.641436 ACAATTGAGGGACCAGGTTTTTC 59.359 43.478 13.59 0.00 0.00 2.29
1693 1973 3.641436 GACAATTGAGGGACCAGGTTTTT 59.359 43.478 13.59 0.00 0.00 1.94
1694 1974 3.230976 GACAATTGAGGGACCAGGTTTT 58.769 45.455 13.59 0.00 0.00 2.43
1695 1975 2.814097 CGACAATTGAGGGACCAGGTTT 60.814 50.000 13.59 0.00 0.00 3.27
1696 1976 1.271379 CGACAATTGAGGGACCAGGTT 60.271 52.381 13.59 0.00 0.00 3.50
1697 1977 0.324943 CGACAATTGAGGGACCAGGT 59.675 55.000 13.59 0.00 0.00 4.00
1698 1978 0.613260 TCGACAATTGAGGGACCAGG 59.387 55.000 13.59 0.00 0.00 4.45
1699 1979 2.472695 TTCGACAATTGAGGGACCAG 57.527 50.000 13.59 0.00 0.00 4.00
1700 1980 2.500229 GTTTCGACAATTGAGGGACCA 58.500 47.619 13.59 0.00 0.00 4.02
1701 1981 1.810755 GGTTTCGACAATTGAGGGACC 59.189 52.381 13.59 12.30 0.00 4.46
1702 1982 2.484264 CTGGTTTCGACAATTGAGGGAC 59.516 50.000 13.59 7.81 0.00 4.46
1703 1983 2.552155 CCTGGTTTCGACAATTGAGGGA 60.552 50.000 13.59 3.14 0.00 4.20
1704 1984 1.812571 CCTGGTTTCGACAATTGAGGG 59.187 52.381 13.59 0.57 0.00 4.30
1705 1985 2.484264 GACCTGGTTTCGACAATTGAGG 59.516 50.000 13.59 8.19 0.00 3.86
1706 1986 2.484264 GGACCTGGTTTCGACAATTGAG 59.516 50.000 13.59 5.90 0.00 3.02
1707 1987 2.158740 TGGACCTGGTTTCGACAATTGA 60.159 45.455 13.59 0.00 0.00 2.57
1708 1988 2.226330 TGGACCTGGTTTCGACAATTG 58.774 47.619 3.24 3.24 0.00 2.32
1709 1989 2.504367 CTGGACCTGGTTTCGACAATT 58.496 47.619 0.00 0.00 0.00 2.32
1710 1990 1.882352 GCTGGACCTGGTTTCGACAAT 60.882 52.381 0.00 0.00 0.00 2.71
1711 1991 0.534203 GCTGGACCTGGTTTCGACAA 60.534 55.000 0.00 0.00 0.00 3.18
1712 1992 1.070786 GCTGGACCTGGTTTCGACA 59.929 57.895 0.00 0.00 0.00 4.35
1713 1993 2.027625 CGCTGGACCTGGTTTCGAC 61.028 63.158 0.00 0.00 0.00 4.20
1714 1994 2.154798 CTCGCTGGACCTGGTTTCGA 62.155 60.000 0.00 7.09 0.00 3.71
1715 1995 1.738099 CTCGCTGGACCTGGTTTCG 60.738 63.158 0.00 2.83 0.00 3.46
1716 1996 2.035442 GCTCGCTGGACCTGGTTTC 61.035 63.158 0.00 0.00 0.00 2.78
1717 1997 2.032681 GCTCGCTGGACCTGGTTT 59.967 61.111 0.00 0.00 0.00 3.27
1718 1998 4.021925 GGCTCGCTGGACCTGGTT 62.022 66.667 0.00 0.00 0.00 3.67
1720 2000 3.790437 ATGGCTCGCTGGACCTGG 61.790 66.667 0.01 0.00 0.00 4.45
1766 2046 3.532155 ATCTCGGGCTCCTGCGTC 61.532 66.667 0.00 0.00 40.82 5.19
1856 2137 4.269523 ATGTGCCAGTGCCCACGT 62.270 61.111 7.40 4.87 36.33 4.49
2011 2292 3.003763 ACCCAGGCCGGAGAAGTC 61.004 66.667 5.05 0.00 36.56 3.01
2082 2373 3.256631 GCATGGTTTTGACCACTGATCTT 59.743 43.478 0.00 0.00 43.37 2.40
2085 2376 1.895131 GGCATGGTTTTGACCACTGAT 59.105 47.619 0.00 0.00 43.37 2.90
2123 2414 2.837591 TCGTCCCTCAAATGGATTCAGA 59.162 45.455 0.00 0.00 33.65 3.27
2183 2474 5.105567 TGGTCTCTCAACTACAAAACCAA 57.894 39.130 0.00 0.00 32.86 3.67
2200 2491 9.936329 ATTTTACCAATGGTATAGAAATGGTCT 57.064 29.630 13.55 0.00 41.22 3.85
2297 2588 4.201558 CGCGCGAACAGGAAAATAATTAAC 59.798 41.667 28.94 0.00 0.00 2.01
2300 2591 2.780993 CGCGCGAACAGGAAAATAATT 58.219 42.857 28.94 0.00 0.00 1.40
2386 3762 3.640407 GGGTGGTGGAGCAGAGCA 61.640 66.667 0.00 0.00 0.00 4.26
2390 3766 2.282462 GGTTGGGTGGTGGAGCAG 60.282 66.667 0.00 0.00 0.00 4.24
2404 3780 1.043022 AGTACGTCGAAAGGGTGGTT 58.957 50.000 0.00 0.00 0.00 3.67
2440 3823 2.820037 GCTCCAGTAACAGCCGGC 60.820 66.667 21.89 21.89 0.00 6.13
2480 3863 0.900647 AACTGAGCAGGCTCGTACCT 60.901 55.000 15.83 1.21 45.48 3.08
2481 3864 0.458716 GAACTGAGCAGGCTCGTACC 60.459 60.000 15.83 8.88 45.48 3.34
2482 3865 0.528470 AGAACTGAGCAGGCTCGTAC 59.472 55.000 15.83 7.83 45.48 3.67
2483 3866 0.528017 CAGAACTGAGCAGGCTCGTA 59.472 55.000 15.83 0.00 45.48 3.43
2484 3867 1.291588 CAGAACTGAGCAGGCTCGT 59.708 57.895 15.83 13.25 45.48 4.18
2485 3868 2.099431 GCAGAACTGAGCAGGCTCG 61.099 63.158 15.83 12.68 45.48 5.03
2486 3869 0.604780 TTGCAGAACTGAGCAGGCTC 60.605 55.000 14.20 14.20 42.39 4.70
2487 3870 0.179009 TTTGCAGAACTGAGCAGGCT 60.179 50.000 5.97 0.00 42.39 4.58
2488 3871 0.886563 ATTTGCAGAACTGAGCAGGC 59.113 50.000 5.97 0.00 42.39 4.85
2489 3872 1.471684 GGATTTGCAGAACTGAGCAGG 59.528 52.381 5.97 0.00 42.39 4.85
2490 3873 1.471684 GGGATTTGCAGAACTGAGCAG 59.528 52.381 5.97 0.00 42.39 4.24
2491 3874 1.538047 GGGATTTGCAGAACTGAGCA 58.462 50.000 5.97 0.00 39.32 4.26
2492 3875 0.449388 CGGGATTTGCAGAACTGAGC 59.551 55.000 5.97 0.00 0.00 4.26
2493 3876 1.089920 CCGGGATTTGCAGAACTGAG 58.910 55.000 5.97 0.00 0.00 3.35
2494 3877 0.690192 TCCGGGATTTGCAGAACTGA 59.310 50.000 0.00 0.00 0.00 3.41
2495 3878 1.200020 GTTCCGGGATTTGCAGAACTG 59.800 52.381 0.00 0.00 35.17 3.16
2496 3879 1.073923 AGTTCCGGGATTTGCAGAACT 59.926 47.619 0.00 8.89 41.67 3.01
2497 3880 1.468914 GAGTTCCGGGATTTGCAGAAC 59.531 52.381 0.00 4.96 37.65 3.01
2498 3881 1.351017 AGAGTTCCGGGATTTGCAGAA 59.649 47.619 0.00 0.00 0.00 3.02
2499 3882 0.984230 AGAGTTCCGGGATTTGCAGA 59.016 50.000 0.00 0.00 0.00 4.26
2500 3883 3.558674 AGAGTTCCGGGATTTGCAG 57.441 52.632 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.