Multiple sequence alignment - TraesCS7B01G448100

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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 TraesCS7B01G448100 chr7B 100.000 3928 0 0 1 3928 711048087 711052014 0.000000e+00 7254.0
1 TraesCS7B01G448100 chr7B 83.764 696 104 9 3019 3711 726715995 726715306 0.000000e+00 651.0
2 TraesCS7B01G448100 chr7B 81.227 538 74 19 2351 2879 711032257 711032776 3.650000e-110 409.0
3 TraesCS7B01G448100 chr7B 88.158 228 21 1 1619 1846 711049354 711049133 2.330000e-67 267.0
4 TraesCS7B01G448100 chr7B 82.051 195 16 6 3753 3928 726715159 726714965 8.790000e-32 148.0
5 TraesCS7B01G448100 chr7A 90.786 1183 92 8 1844 3019 709698059 709699231 0.000000e+00 1565.0
6 TraesCS7B01G448100 chr7A 92.191 986 65 7 69 1046 709697089 709698070 0.000000e+00 1384.0
7 TraesCS7B01G448100 chr7A 85.774 717 78 13 3018 3713 733958651 733957938 0.000000e+00 737.0
8 TraesCS7B01G448100 chr7A 80.680 647 102 20 2358 2997 709989806 709989176 7.630000e-132 481.0
9 TraesCS7B01G448100 chr7A 80.978 368 57 11 1848 2207 709710726 709711088 2.990000e-71 279.0
10 TraesCS7B01G448100 chr7A 91.667 96 8 0 2201 2296 709711241 709711336 2.460000e-27 134.0
11 TraesCS7B01G448100 chr7A 78.571 112 20 4 218 327 269692422 269692531 1.960000e-08 71.3
12 TraesCS7B01G448100 chr7D 94.196 982 49 5 69 1046 616942404 616943381 0.000000e+00 1491.0
13 TraesCS7B01G448100 chr7D 93.333 570 34 2 2431 3000 616948694 616949259 0.000000e+00 839.0
14 TraesCS7B01G448100 chr7D 91.723 592 40 3 1846 2429 616943372 616943962 0.000000e+00 813.0
15 TraesCS7B01G448100 chr7D 86.694 496 40 12 1050 1525 500234857 500234368 9.670000e-146 527.0
16 TraesCS7B01G448100 chr7D 81.132 477 61 18 1846 2306 617114527 617114064 4.830000e-94 355.0
17 TraesCS7B01G448100 chr7D 86.547 223 23 2 1621 1843 500234642 500234857 5.070000e-59 239.0
18 TraesCS7B01G448100 chr7D 85.714 203 23 4 2684 2885 616930961 616931158 3.980000e-50 209.0
19 TraesCS7B01G448100 chr7D 91.603 131 9 2 1537 1665 500234263 500234133 3.120000e-41 180.0
20 TraesCS7B01G448100 chr7D 83.962 106 12 3 226 328 632804213 632804316 3.230000e-16 97.1
21 TraesCS7B01G448100 chr3B 91.315 829 41 13 1047 1847 736158867 736158042 0.000000e+00 1103.0
22 TraesCS7B01G448100 chr3B 83.926 703 82 18 3018 3713 445592503 445591825 0.000000e+00 643.0
23 TraesCS7B01G448100 chr3B 88.000 225 21 1 1619 1843 736158646 736158864 1.080000e-65 261.0
24 TraesCS7B01G448100 chr3B 82.011 189 20 8 3751 3928 445591753 445591568 8.790000e-32 148.0
25 TraesCS7B01G448100 chr6B 94.537 659 15 6 1200 1840 657263463 657262808 0.000000e+00 998.0
26 TraesCS7B01G448100 chr6B 84.344 709 93 14 3017 3716 412462743 412462044 0.000000e+00 678.0
27 TraesCS7B01G448100 chr6B 82.565 694 99 10 3018 3711 566218536 566219207 3.380000e-165 592.0
28 TraesCS7B01G448100 chr6B 85.279 197 10 6 3751 3928 412461904 412461708 6.700000e-43 185.0
29 TraesCS7B01G448100 chr6B 82.682 179 11 10 3750 3928 566219351 566219509 1.470000e-29 141.0
30 TraesCS7B01G448100 chr2A 87.430 716 67 12 3018 3713 27960562 27959850 0.000000e+00 802.0
31 TraesCS7B01G448100 chr2A 88.889 315 32 3 1537 1848 529951563 529951249 6.160000e-103 385.0
32 TraesCS7B01G448100 chr2A 87.859 313 36 2 1537 1848 740376984 740377295 2.230000e-97 366.0
33 TraesCS7B01G448100 chr2A 79.337 513 55 24 1050 1522 529952207 529951706 2.950000e-81 313.0
34 TraesCS7B01G448100 chr2A 89.474 228 17 5 1047 1268 740377293 740377067 8.310000e-72 281.0
35 TraesCS7B01G448100 chr2A 89.083 229 18 5 1047 1268 529951251 529951479 1.070000e-70 278.0
36 TraesCS7B01G448100 chr2D 86.732 716 71 13 3018 3713 106285206 106285917 0.000000e+00 774.0
37 TraesCS7B01G448100 chr2D 98.551 69 1 0 3750 3818 106286203 106286271 5.330000e-24 122.0
38 TraesCS7B01G448100 chr6D 86.676 698 88 5 3018 3713 167265356 167264662 0.000000e+00 769.0
39 TraesCS7B01G448100 chr6D 98.551 69 1 0 3750 3818 167264376 167264308 5.330000e-24 122.0
40 TraesCS7B01G448100 chr3A 86.479 710 83 8 3015 3713 396606481 396607188 0.000000e+00 767.0
41 TraesCS7B01G448100 chr3A 97.101 69 2 0 3750 3818 396607259 396607327 2.480000e-22 117.0
42 TraesCS7B01G448100 chr3A 80.189 106 17 4 224 327 304190766 304190663 4.210000e-10 76.8
43 TraesCS7B01G448100 chr4D 86.591 701 84 9 3017 3713 440254942 440254248 0.000000e+00 765.0
44 TraesCS7B01G448100 chr4D 83.333 198 14 7 3750 3928 34591161 34591358 8.730000e-37 165.0
45 TraesCS7B01G448100 chr4D 83.333 198 14 8 3750 3928 401239228 401239031 8.730000e-37 165.0
46 TraesCS7B01G448100 chr4D 97.674 43 1 0 3886 3928 34591363 34591405 1.510000e-09 75.0
47 TraesCS7B01G448100 chr4D 97.727 44 0 1 3879 3921 34591960 34592003 1.510000e-09 75.0
48 TraesCS7B01G448100 chr4D 97.727 44 0 1 3879 3921 440253640 440253597 1.510000e-09 75.0
49 TraesCS7B01G448100 chr5B 83.668 698 102 10 3018 3711 205449991 205449302 0.000000e+00 647.0
50 TraesCS7B01G448100 chr5B 83.562 511 62 8 1036 1527 333189128 333189635 3.580000e-125 459.0
51 TraesCS7B01G448100 chr5B 88.498 313 33 3 1537 1846 82236761 82236449 3.710000e-100 375.0
52 TraesCS7B01G448100 chr5B 88.217 314 34 3 1537 1847 516461886 516461573 4.790000e-99 372.0
53 TraesCS7B01G448100 chr5B 79.532 513 54 25 1050 1522 82237404 82236903 6.330000e-83 318.0
54 TraesCS7B01G448100 chr5B 89.231 195 21 0 1649 1843 82237210 82237404 1.090000e-60 244.0
55 TraesCS7B01G448100 chr5B 83.333 192 13 6 3753 3925 205449155 205448964 4.060000e-35 159.0
56 TraesCS7B01G448100 chr1A 80.277 649 78 22 3018 3632 485227820 485228452 1.000000e-120 444.0
57 TraesCS7B01G448100 chr4A 86.649 382 32 11 1050 1412 583694030 583693649 4.730000e-109 405.0
58 TraesCS7B01G448100 chr4B 87.698 252 29 2 1050 1299 588224402 588224653 3.840000e-75 292.0
59 TraesCS7B01G448100 chrUn 97.727 44 0 1 3879 3921 26914563 26914520 1.510000e-09 75.0
60 TraesCS7B01G448100 chr3D 86.441 59 5 3 3615 3671 573701716 573701773 1.180000e-05 62.1


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 TraesCS7B01G448100 chr7B 711048087 711052014 3927 False 7254.0 7254 100.0000 1 3928 1 chr7B.!!$F2 3927
1 TraesCS7B01G448100 chr7B 711032257 711032776 519 False 409.0 409 81.2270 2351 2879 1 chr7B.!!$F1 528
2 TraesCS7B01G448100 chr7B 726714965 726715995 1030 True 399.5 651 82.9075 3019 3928 2 chr7B.!!$R2 909
3 TraesCS7B01G448100 chr7A 709697089 709699231 2142 False 1474.5 1565 91.4885 69 3019 2 chr7A.!!$F2 2950
4 TraesCS7B01G448100 chr7A 733957938 733958651 713 True 737.0 737 85.7740 3018 3713 1 chr7A.!!$R2 695
5 TraesCS7B01G448100 chr7A 709989176 709989806 630 True 481.0 481 80.6800 2358 2997 1 chr7A.!!$R1 639
6 TraesCS7B01G448100 chr7A 709710726 709711336 610 False 206.5 279 86.3225 1848 2296 2 chr7A.!!$F3 448
7 TraesCS7B01G448100 chr7D 616942404 616943962 1558 False 1152.0 1491 92.9595 69 2429 2 chr7D.!!$F5 2360
8 TraesCS7B01G448100 chr7D 616948694 616949259 565 False 839.0 839 93.3330 2431 3000 1 chr7D.!!$F3 569
9 TraesCS7B01G448100 chr7D 500234133 500234857 724 True 353.5 527 89.1485 1050 1665 2 chr7D.!!$R2 615
10 TraesCS7B01G448100 chr3B 736158042 736158867 825 True 1103.0 1103 91.3150 1047 1847 1 chr3B.!!$R1 800
11 TraesCS7B01G448100 chr3B 445591568 445592503 935 True 395.5 643 82.9685 3018 3928 2 chr3B.!!$R2 910
12 TraesCS7B01G448100 chr6B 657262808 657263463 655 True 998.0 998 94.5370 1200 1840 1 chr6B.!!$R1 640
13 TraesCS7B01G448100 chr6B 412461708 412462743 1035 True 431.5 678 84.8115 3017 3928 2 chr6B.!!$R2 911
14 TraesCS7B01G448100 chr6B 566218536 566219509 973 False 366.5 592 82.6235 3018 3928 2 chr6B.!!$F1 910
15 TraesCS7B01G448100 chr2A 27959850 27960562 712 True 802.0 802 87.4300 3018 3713 1 chr2A.!!$R1 695
16 TraesCS7B01G448100 chr2A 529951249 529952207 958 True 349.0 385 84.1130 1050 1848 2 chr2A.!!$R3 798
17 TraesCS7B01G448100 chr2D 106285206 106286271 1065 False 448.0 774 92.6415 3018 3818 2 chr2D.!!$F1 800
18 TraesCS7B01G448100 chr6D 167264308 167265356 1048 True 445.5 769 92.6135 3018 3818 2 chr6D.!!$R1 800
19 TraesCS7B01G448100 chr3A 396606481 396607327 846 False 442.0 767 91.7900 3015 3818 2 chr3A.!!$F1 803
20 TraesCS7B01G448100 chr4D 440253597 440254942 1345 True 420.0 765 92.1590 3017 3921 2 chr4D.!!$R2 904
21 TraesCS7B01G448100 chr5B 333189128 333189635 507 False 459.0 459 83.5620 1036 1527 1 chr5B.!!$F2 491
22 TraesCS7B01G448100 chr5B 205448964 205449991 1027 True 403.0 647 83.5005 3018 3925 2 chr5B.!!$R3 907
23 TraesCS7B01G448100 chr5B 82236449 82237404 955 True 346.5 375 84.0150 1050 1846 2 chr5B.!!$R2 796
24 TraesCS7B01G448100 chr1A 485227820 485228452 632 False 444.0 444 80.2770 3018 3632 1 chr1A.!!$F1 614

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
25 26 0.110486 TGGTTGAGTTCCAGGCTTCC 59.890 55.0 0.00 0.0 0.00 3.46 F
26 27 0.110486 GGTTGAGTTCCAGGCTTCCA 59.890 55.0 0.00 0.0 0.00 3.53 F
28 29 0.250901 TTGAGTTCCAGGCTTCCAGC 60.251 55.0 0.00 0.0 41.46 4.85 F
41 42 0.323999 TTCCAGCTGCAATGGCTCAT 60.324 50.0 8.66 0.0 41.91 2.90 F
1083 1092 0.606401 ACCACCTGCCGAGTTGAATG 60.606 55.0 0.00 0.0 0.00 2.67 F
2296 2687 0.036875 CCACCCTCACTCCAGGTTTC 59.963 60.0 0.00 0.0 0.00 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1346 1373 1.132199 CTACCGCGTGACAAGCTACG 61.132 60.000 11.61 2.36 42.79 3.51 R
1496 1544 2.933906 GCTATTGTTTAGTGTAGCCGCA 59.066 45.455 0.00 0.00 34.84 5.69 R
1994 2218 3.664025 TTCCCGGCAGTGCTCATCG 62.664 63.158 16.11 9.80 0.00 3.84 R
2066 2290 3.697439 TACCAGCTTGCCGCCATCC 62.697 63.158 0.00 0.00 40.39 3.51 R
2630 3031 0.692419 ATCCATCGAGTTCCCAGCCT 60.692 55.000 0.00 0.00 0.00 4.58 R
3555 4039 1.000486 TCGAAGAGAGGAGTGGGGG 60.000 63.158 0.00 0.00 0.00 5.40 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 3.354948 TCATCATGGTTGAGTTCCAGG 57.645 47.619 0.00 0.00 38.42 4.45
21 22 1.747355 CATCATGGTTGAGTTCCAGGC 59.253 52.381 0.00 0.00 38.42 4.85
22 23 1.067295 TCATGGTTGAGTTCCAGGCT 58.933 50.000 0.00 0.00 38.42 4.58
23 24 1.425066 TCATGGTTGAGTTCCAGGCTT 59.575 47.619 0.00 0.00 38.42 4.35
24 25 1.815003 CATGGTTGAGTTCCAGGCTTC 59.185 52.381 0.00 0.00 38.42 3.86
25 26 0.110486 TGGTTGAGTTCCAGGCTTCC 59.890 55.000 0.00 0.00 0.00 3.46
26 27 0.110486 GGTTGAGTTCCAGGCTTCCA 59.890 55.000 0.00 0.00 0.00 3.53
27 28 1.528129 GTTGAGTTCCAGGCTTCCAG 58.472 55.000 0.00 0.00 0.00 3.86
28 29 0.250901 TTGAGTTCCAGGCTTCCAGC 60.251 55.000 0.00 0.00 41.46 4.85
29 30 1.130054 TGAGTTCCAGGCTTCCAGCT 61.130 55.000 0.00 0.00 41.99 4.24
30 31 0.676151 GAGTTCCAGGCTTCCAGCTG 60.676 60.000 6.78 6.78 41.99 4.24
31 32 2.034687 TTCCAGGCTTCCAGCTGC 59.965 61.111 8.66 0.00 41.99 5.25
32 33 2.832778 TTCCAGGCTTCCAGCTGCA 61.833 57.895 8.66 0.00 41.99 4.41
33 34 2.282674 CCAGGCTTCCAGCTGCAA 60.283 61.111 8.66 0.00 41.99 4.08
34 35 1.681327 CCAGGCTTCCAGCTGCAAT 60.681 57.895 8.66 0.00 41.99 3.56
35 36 1.511305 CAGGCTTCCAGCTGCAATG 59.489 57.895 8.66 2.11 41.99 2.82
36 37 1.681327 AGGCTTCCAGCTGCAATGG 60.681 57.895 8.66 10.74 41.99 3.16
37 38 2.183555 GCTTCCAGCTGCAATGGC 59.816 61.111 8.66 0.00 38.45 4.40
38 39 2.348888 GCTTCCAGCTGCAATGGCT 61.349 57.895 8.66 2.94 41.91 4.75
39 40 1.807886 CTTCCAGCTGCAATGGCTC 59.192 57.895 8.66 0.00 41.91 4.70
40 41 0.963856 CTTCCAGCTGCAATGGCTCA 60.964 55.000 8.66 0.00 41.91 4.26
41 42 0.323999 TTCCAGCTGCAATGGCTCAT 60.324 50.000 8.66 0.00 41.91 2.90
42 43 1.035385 TCCAGCTGCAATGGCTCATG 61.035 55.000 8.66 0.00 41.91 3.07
43 44 1.035385 CCAGCTGCAATGGCTCATGA 61.035 55.000 8.66 0.00 41.91 3.07
44 45 0.815095 CAGCTGCAATGGCTCATGAA 59.185 50.000 0.00 0.00 41.91 2.57
45 46 1.409064 CAGCTGCAATGGCTCATGAAT 59.591 47.619 0.00 0.00 41.91 2.57
46 47 2.621526 CAGCTGCAATGGCTCATGAATA 59.378 45.455 0.00 0.00 41.91 1.75
47 48 2.621998 AGCTGCAATGGCTCATGAATAC 59.378 45.455 1.02 0.00 41.91 1.89
48 49 2.288030 GCTGCAATGGCTCATGAATACC 60.288 50.000 0.00 0.00 41.91 2.73
49 50 2.953648 CTGCAATGGCTCATGAATACCA 59.046 45.455 12.71 12.71 41.91 3.25
50 51 2.689471 TGCAATGGCTCATGAATACCAC 59.311 45.455 12.61 3.52 41.91 4.16
51 52 2.689471 GCAATGGCTCATGAATACCACA 59.311 45.455 12.61 0.00 34.36 4.17
52 53 3.489738 GCAATGGCTCATGAATACCACAC 60.490 47.826 12.61 3.91 34.36 3.82
53 54 3.650281 ATGGCTCATGAATACCACACA 57.350 42.857 12.61 0.00 34.36 3.72
54 55 2.710377 TGGCTCATGAATACCACACAC 58.290 47.619 7.51 0.00 0.00 3.82
55 56 2.305635 TGGCTCATGAATACCACACACT 59.694 45.455 7.51 0.00 0.00 3.55
56 57 2.679837 GGCTCATGAATACCACACACTG 59.320 50.000 0.00 0.00 0.00 3.66
57 58 2.096496 GCTCATGAATACCACACACTGC 59.904 50.000 0.00 0.00 0.00 4.40
58 59 3.337358 CTCATGAATACCACACACTGCA 58.663 45.455 0.00 0.00 0.00 4.41
59 60 3.337358 TCATGAATACCACACACTGCAG 58.663 45.455 13.48 13.48 0.00 4.41
60 61 1.522668 TGAATACCACACACTGCAGC 58.477 50.000 15.27 0.00 0.00 5.25
61 62 0.804989 GAATACCACACACTGCAGCC 59.195 55.000 15.27 0.00 0.00 4.85
62 63 0.609131 AATACCACACACTGCAGCCC 60.609 55.000 15.27 0.00 0.00 5.19
63 64 2.803155 ATACCACACACTGCAGCCCG 62.803 60.000 15.27 5.12 0.00 6.13
64 65 4.624364 CCACACACTGCAGCCCGA 62.624 66.667 15.27 0.00 0.00 5.14
65 66 2.591429 CACACACTGCAGCCCGAA 60.591 61.111 15.27 0.00 0.00 4.30
66 67 2.591715 ACACACTGCAGCCCGAAC 60.592 61.111 15.27 0.00 0.00 3.95
67 68 3.716006 CACACTGCAGCCCGAACG 61.716 66.667 15.27 0.00 0.00 3.95
87 88 3.067106 CGGCTTCTATGTGTGTTTGAGT 58.933 45.455 0.00 0.00 0.00 3.41
97 98 4.255301 TGTGTGTTTGAGTCTACGGTTTT 58.745 39.130 0.00 0.00 0.00 2.43
104 105 0.769247 AGTCTACGGTTTTGCCCCTT 59.231 50.000 0.00 0.00 0.00 3.95
318 319 9.743057 CTACAAACTTGGTCAAACATTGAAATA 57.257 29.630 0.00 0.00 42.15 1.40
425 429 7.176690 CCAAATGGTATATTAATCTGGGTCCAC 59.823 40.741 0.00 0.00 0.00 4.02
447 451 7.987458 TCCACATTAATCAAGATGAGTAGTTCC 59.013 37.037 0.00 0.00 28.20 3.62
458 462 3.643237 TGAGTAGTTCCACCCTATCAGG 58.357 50.000 0.00 0.00 34.30 3.86
477 481 5.794894 TCAGGTACAACTCAGAAATCCTTC 58.205 41.667 0.00 0.00 0.00 3.46
520 525 8.610248 TCAGTAAGATTTGTCACCGAAATAAA 57.390 30.769 0.00 0.00 0.00 1.40
549 556 1.737816 CAAACAGCTGCTTGCACCT 59.262 52.632 16.36 0.00 45.94 4.00
577 584 8.635328 GTGGAAATTTTCTCCTTACCAAGTTTA 58.365 33.333 8.93 0.00 33.77 2.01
815 822 7.270365 CACTAATTACGTGTGCTACCAAAATTG 59.730 37.037 0.00 0.00 0.00 2.32
870 877 2.899900 CAGCCATAGCCATAGGTCAGTA 59.100 50.000 0.00 0.00 41.25 2.74
898 905 2.937149 CAGAGCAGGAGATGTTGTCATG 59.063 50.000 0.00 0.00 34.06 3.07
976 985 4.142381 GCTTCCAGAGGCAAACGATTAATT 60.142 41.667 0.00 0.00 33.19 1.40
979 988 7.639113 TTCCAGAGGCAAACGATTAATTAAT 57.361 32.000 10.51 10.51 0.00 1.40
982 991 6.264832 CAGAGGCAAACGATTAATTAATGCA 58.735 36.000 15.39 0.00 0.00 3.96
996 1005 2.183300 TGCATACGCACGGAGACC 59.817 61.111 0.00 0.00 45.36 3.85
1038 1047 4.828925 GCAGACTGCCTCGCCCTC 62.829 72.222 17.01 0.00 37.42 4.30
1039 1048 4.504916 CAGACTGCCTCGCCCTCG 62.505 72.222 0.00 0.00 0.00 4.63
1041 1050 4.500116 GACTGCCTCGCCCTCGTC 62.500 72.222 0.00 0.00 36.96 4.20
1083 1092 0.606401 ACCACCTGCCGAGTTGAATG 60.606 55.000 0.00 0.00 0.00 2.67
1133 1142 2.828520 TGACAAAAAGGACCAGCAACAA 59.171 40.909 0.00 0.00 0.00 2.83
1442 1490 6.114767 GGTTAACGTGGGTTAATGGATAGAA 58.885 40.000 0.00 0.00 46.91 2.10
1471 1519 2.125310 CGGCCGGCAGTTCATACA 60.125 61.111 30.85 0.00 0.00 2.29
1496 1544 1.674962 GAGTCAGTCCGCCGTACTTAT 59.325 52.381 0.00 0.00 0.00 1.73
1955 2179 2.273776 GGAAGCTTCCTCCCAGCC 59.726 66.667 33.98 9.46 44.11 4.85
1994 2218 2.202703 CGGTGTAGTACTGCCGGC 60.203 66.667 22.73 22.73 40.45 6.13
2066 2290 2.985456 GACTGCCCTGTCCTCCTG 59.015 66.667 0.00 0.00 0.00 3.86
2096 2328 3.568538 CAAGCTGGTAATTGCTGTTGTC 58.431 45.455 0.00 0.00 39.71 3.18
2099 2331 4.588899 AGCTGGTAATTGCTGTTGTCATA 58.411 39.130 0.00 0.00 38.21 2.15
2146 2378 1.202348 AGATCTCGTCTGACAATGGCG 60.202 52.381 8.73 0.00 35.31 5.69
2172 2404 1.078426 GCCGGGCAAGAAGAGCTTA 60.078 57.895 15.62 0.00 34.31 3.09
2209 2600 0.748005 CGGGGCCAAGAAGTACATGG 60.748 60.000 4.39 0.00 39.98 3.66
2238 2629 1.119574 AAGCTCTGTGGTACGGGTGT 61.120 55.000 0.00 0.00 0.00 4.16
2239 2630 1.119574 AGCTCTGTGGTACGGGTGTT 61.120 55.000 0.00 0.00 0.00 3.32
2296 2687 0.036875 CCACCCTCACTCCAGGTTTC 59.963 60.000 0.00 0.00 0.00 2.78
2344 2735 1.091537 TATTTAGGCCGCAGCACAAC 58.908 50.000 0.00 0.00 42.56 3.32
2378 2769 4.341520 AGCCTTACTATTTCGTCCTGTAGG 59.658 45.833 0.00 0.00 0.00 3.18
2515 2915 0.386352 CATTGGTTGCACGCAGACAG 60.386 55.000 0.00 0.00 0.00 3.51
2549 2950 0.329596 ACCAAGAAGATGCAGGGTCC 59.670 55.000 0.00 0.00 0.00 4.46
2550 2951 0.622665 CCAAGAAGATGCAGGGTCCT 59.377 55.000 0.00 0.00 0.00 3.85
2551 2952 1.407989 CCAAGAAGATGCAGGGTCCTC 60.408 57.143 0.00 0.00 0.00 3.71
2785 3186 6.352516 AGCAAGAGATTAACATAGAGTTGGG 58.647 40.000 0.00 0.00 41.50 4.12
2798 3199 1.185618 AGTTGGGCGAGCAGTGTCTA 61.186 55.000 0.00 0.00 0.00 2.59
2881 3284 5.683509 GCCAGATTATCATAGAAGGGATCGG 60.684 48.000 0.00 0.00 0.00 4.18
2923 3326 5.047377 TGGGAAAGTTGAAATCATGGCTAAC 60.047 40.000 0.00 0.00 0.00 2.34
2933 3336 8.213518 TGAAATCATGGCTAACTTGATTAGAC 57.786 34.615 8.32 0.00 46.96 2.59
2967 3370 9.781834 TTCACTGTATTGTTAAAGTCTGTTTTG 57.218 29.630 0.00 0.00 0.00 2.44
3002 3405 6.400303 GCAATTTGCAACTATGATGTTGTGTC 60.400 38.462 16.35 0.00 46.33 3.67
3009 3412 7.169476 TGCAACTATGATGTTGTGTCAATTTTG 59.831 33.333 8.78 0.00 46.33 2.44
3048 3451 1.064611 TCCGGGAAAAGTTGTCCAACA 60.065 47.619 14.29 0.00 43.47 3.33
3137 3546 2.837591 GCTCCTTCTTCCTCCTTTCTCT 59.162 50.000 0.00 0.00 0.00 3.10
3147 3571 1.801913 CCTTTCTCTGTCGGTCGCG 60.802 63.158 0.00 0.00 0.00 5.87
3404 3885 2.525629 TCGTGACCCCTTCTGCCA 60.526 61.111 0.00 0.00 0.00 4.92
3427 3908 4.681978 GGCTATGCCGCTACCCCG 62.682 72.222 0.00 0.00 39.62 5.73
3506 3990 2.279408 GGACCTAGAGCTCCCGGT 59.721 66.667 20.94 20.94 0.00 5.28
3508 3992 1.076923 GACCTAGAGCTCCCGGTGA 60.077 63.158 24.58 0.00 0.00 4.02
3555 4039 0.108207 TCGAGGTCCCTATCGTCTCC 59.892 60.000 0.00 0.00 39.86 3.71
3602 4086 2.390938 TCGTCTGCAAGTTGTTACTCG 58.609 47.619 4.48 4.37 31.99 4.18
3611 4095 0.034337 GTTGTTACTCGTCCCAGGCA 59.966 55.000 0.00 0.00 0.00 4.75
3639 4123 4.704833 TGTTGCTGCCCGGAGCTC 62.705 66.667 15.49 4.71 44.23 4.09
3679 4377 3.369471 CCGGTGAGAAGAAGCTCCAATTA 60.369 47.826 0.00 0.00 33.95 1.40
3680 4378 4.446371 CGGTGAGAAGAAGCTCCAATTAT 58.554 43.478 0.00 0.00 33.95 1.28
3682 4380 6.049149 CGGTGAGAAGAAGCTCCAATTATTA 58.951 40.000 0.00 0.00 33.95 0.98
3683 4381 6.708054 CGGTGAGAAGAAGCTCCAATTATTAT 59.292 38.462 0.00 0.00 33.95 1.28
3684 4382 7.872993 CGGTGAGAAGAAGCTCCAATTATTATA 59.127 37.037 0.00 0.00 33.95 0.98
3686 4384 9.547753 GTGAGAAGAAGCTCCAATTATTATACA 57.452 33.333 0.00 0.00 33.95 2.29
3713 4553 7.264221 TGCACTTGTTCATTAAGTTCAAACAT 58.736 30.769 0.00 0.00 36.29 2.71
3726 4729 5.249420 AGTTCAAACATAGAAGAAGCTCCC 58.751 41.667 0.00 0.00 0.00 4.30
3727 4730 4.222124 TCAAACATAGAAGAAGCTCCCC 57.778 45.455 0.00 0.00 0.00 4.81
3729 4732 3.922171 AACATAGAAGAAGCTCCCCTG 57.078 47.619 0.00 0.00 0.00 4.45
3730 4733 1.488393 ACATAGAAGAAGCTCCCCTGC 59.512 52.381 0.00 0.00 0.00 4.85
3733 4736 1.153469 GAAGAAGCTCCCCTGCTCG 60.153 63.158 0.00 0.00 43.24 5.03
3734 4737 1.893919 GAAGAAGCTCCCCTGCTCGT 61.894 60.000 0.00 0.00 43.24 4.18
3736 4739 1.142097 GAAGCTCCCCTGCTCGTAC 59.858 63.158 0.00 0.00 43.24 3.67
3737 4740 1.305381 AAGCTCCCCTGCTCGTACT 60.305 57.895 0.00 0.00 43.24 2.73
3739 4742 2.052690 GCTCCCCTGCTCGTACTCA 61.053 63.158 0.00 0.00 0.00 3.41
3740 4743 2.010582 GCTCCCCTGCTCGTACTCAG 62.011 65.000 0.00 0.00 0.00 3.35
3741 4744 0.681564 CTCCCCTGCTCGTACTCAGT 60.682 60.000 0.00 0.00 0.00 3.41
3742 4745 0.251653 TCCCCTGCTCGTACTCAGTT 60.252 55.000 0.00 0.00 0.00 3.16
3744 4747 1.822990 CCCCTGCTCGTACTCAGTTAA 59.177 52.381 0.00 0.00 0.00 2.01
3746 4749 3.448686 CCCTGCTCGTACTCAGTTAATG 58.551 50.000 0.00 0.00 0.00 1.90
3747 4750 2.860735 CCTGCTCGTACTCAGTTAATGC 59.139 50.000 0.00 0.00 0.00 3.56
3748 4751 3.511699 CTGCTCGTACTCAGTTAATGCA 58.488 45.455 0.00 0.00 0.00 3.96
3829 4918 6.681777 AGTTAACTGAATCAATGTCCAAAGC 58.318 36.000 7.48 0.00 0.00 3.51
3830 4919 6.265196 AGTTAACTGAATCAATGTCCAAAGCA 59.735 34.615 7.48 0.00 0.00 3.91
3831 4920 4.510038 ACTGAATCAATGTCCAAAGCAC 57.490 40.909 0.00 0.00 0.00 4.40
3834 4942 4.143543 TGAATCAATGTCCAAAGCACAGA 58.856 39.130 0.00 0.00 0.00 3.41
3836 4944 4.778534 ATCAATGTCCAAAGCACAGAAG 57.221 40.909 0.00 0.00 0.00 2.85
3840 4948 5.592282 TCAATGTCCAAAGCACAGAAGTTTA 59.408 36.000 0.00 0.00 0.00 2.01
3869 4977 3.119029 ACTGTTGCTGTCAATTTGCTGTT 60.119 39.130 0.00 0.00 34.29 3.16
3880 5307 9.462174 CTGTCAATTTGCTGTTAATTGTTCTAA 57.538 29.630 12.80 0.00 41.49 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.618816 GCCTGGAACTCAACCATGATGA 60.619 50.000 0.00 0.00 36.79 2.92
4 5 1.815003 GAAGCCTGGAACTCAACCATG 59.185 52.381 0.00 0.00 36.79 3.66
5 6 1.272147 GGAAGCCTGGAACTCAACCAT 60.272 52.381 0.00 0.00 36.79 3.55
6 7 0.110486 GGAAGCCTGGAACTCAACCA 59.890 55.000 0.00 0.00 35.96 3.67
8 9 1.528129 CTGGAAGCCTGGAACTCAAC 58.472 55.000 0.00 0.00 0.00 3.18
21 22 0.963856 TGAGCCATTGCAGCTGGAAG 60.964 55.000 25.23 14.09 41.75 3.46
22 23 0.323999 ATGAGCCATTGCAGCTGGAA 60.324 50.000 23.56 23.56 41.75 3.53
23 24 1.035385 CATGAGCCATTGCAGCTGGA 61.035 55.000 17.12 10.66 41.75 3.86
24 25 1.035385 TCATGAGCCATTGCAGCTGG 61.035 55.000 17.12 11.95 41.75 4.85
25 26 0.815095 TTCATGAGCCATTGCAGCTG 59.185 50.000 10.11 10.11 41.75 4.24
26 27 1.776662 ATTCATGAGCCATTGCAGCT 58.223 45.000 0.00 0.00 45.23 4.24
27 28 2.288030 GGTATTCATGAGCCATTGCAGC 60.288 50.000 0.00 0.00 41.13 5.25
28 29 2.953648 TGGTATTCATGAGCCATTGCAG 59.046 45.455 10.47 0.00 41.13 4.41
29 30 2.689471 GTGGTATTCATGAGCCATTGCA 59.311 45.455 15.58 0.00 41.13 4.08
30 31 2.689471 TGTGGTATTCATGAGCCATTGC 59.311 45.455 15.58 6.95 33.20 3.56
31 32 3.695556 TGTGTGGTATTCATGAGCCATTG 59.304 43.478 15.58 0.00 33.20 2.82
32 33 3.696051 GTGTGTGGTATTCATGAGCCATT 59.304 43.478 15.58 0.00 33.20 3.16
33 34 3.054139 AGTGTGTGGTATTCATGAGCCAT 60.054 43.478 15.58 2.01 33.20 4.40
34 35 2.305635 AGTGTGTGGTATTCATGAGCCA 59.694 45.455 10.47 10.47 0.00 4.75
35 36 2.679837 CAGTGTGTGGTATTCATGAGCC 59.320 50.000 0.00 0.79 0.00 4.70
36 37 2.096496 GCAGTGTGTGGTATTCATGAGC 59.904 50.000 0.00 0.00 0.00 4.26
37 38 3.337358 TGCAGTGTGTGGTATTCATGAG 58.663 45.455 0.00 0.00 0.00 2.90
38 39 3.337358 CTGCAGTGTGTGGTATTCATGA 58.663 45.455 5.25 0.00 0.00 3.07
39 40 2.159476 GCTGCAGTGTGTGGTATTCATG 60.159 50.000 16.64 0.00 0.00 3.07
40 41 2.086869 GCTGCAGTGTGTGGTATTCAT 58.913 47.619 16.64 0.00 0.00 2.57
41 42 1.522668 GCTGCAGTGTGTGGTATTCA 58.477 50.000 16.64 0.00 0.00 2.57
42 43 0.804989 GGCTGCAGTGTGTGGTATTC 59.195 55.000 16.64 0.00 0.00 1.75
43 44 0.609131 GGGCTGCAGTGTGTGGTATT 60.609 55.000 16.64 0.00 0.00 1.89
44 45 1.002134 GGGCTGCAGTGTGTGGTAT 60.002 57.895 16.64 0.00 0.00 2.73
45 46 2.429930 GGGCTGCAGTGTGTGGTA 59.570 61.111 16.64 0.00 0.00 3.25
46 47 4.935495 CGGGCTGCAGTGTGTGGT 62.935 66.667 16.64 0.00 0.00 4.16
47 48 4.624364 TCGGGCTGCAGTGTGTGG 62.624 66.667 16.64 0.00 0.00 4.17
48 49 2.591429 TTCGGGCTGCAGTGTGTG 60.591 61.111 16.64 1.45 0.00 3.82
49 50 2.591715 GTTCGGGCTGCAGTGTGT 60.592 61.111 16.64 0.00 0.00 3.72
50 51 3.716006 CGTTCGGGCTGCAGTGTG 61.716 66.667 16.64 5.22 0.00 3.82
51 52 4.988598 CCGTTCGGGCTGCAGTGT 62.989 66.667 16.64 0.00 0.00 3.55
60 61 0.108329 ACACATAGAAGCCGTTCGGG 60.108 55.000 13.16 0.00 37.79 5.14
61 62 0.999406 CACACATAGAAGCCGTTCGG 59.001 55.000 6.90 6.90 37.79 4.30
62 63 1.710013 ACACACATAGAAGCCGTTCG 58.290 50.000 0.00 0.00 37.79 3.95
63 64 3.496884 TCAAACACACATAGAAGCCGTTC 59.503 43.478 0.00 0.00 0.00 3.95
64 65 3.472652 TCAAACACACATAGAAGCCGTT 58.527 40.909 0.00 0.00 0.00 4.44
65 66 3.067106 CTCAAACACACATAGAAGCCGT 58.933 45.455 0.00 0.00 0.00 5.68
66 67 3.067106 ACTCAAACACACATAGAAGCCG 58.933 45.455 0.00 0.00 0.00 5.52
67 68 4.319177 AGACTCAAACACACATAGAAGCC 58.681 43.478 0.00 0.00 0.00 4.35
87 88 1.143277 TGAAAGGGGCAAAACCGTAGA 59.857 47.619 0.00 0.00 40.62 2.59
97 98 2.883888 GCAGGAGTATTTGAAAGGGGCA 60.884 50.000 0.00 0.00 0.00 5.36
104 105 2.642311 TGGACTGGCAGGAGTATTTGAA 59.358 45.455 20.34 0.00 0.00 2.69
214 215 8.316946 TCCATGATGAATCTAATGGTACTGATC 58.683 37.037 0.00 0.00 40.44 2.92
287 288 7.639113 ATGTTTGACCAAGTTTGTAGAAGAA 57.361 32.000 0.00 0.00 0.00 2.52
289 290 7.479980 TCAATGTTTGACCAAGTTTGTAGAAG 58.520 34.615 0.00 0.00 34.08 2.85
397 401 8.116026 GGACCCAGATTAATATACCATTTGGAT 58.884 37.037 3.01 0.00 38.94 3.41
417 421 5.044919 ACTCATCTTGATTAATGTGGACCCA 60.045 40.000 0.00 0.00 0.00 4.51
425 429 7.227512 GGGTGGAACTACTCATCTTGATTAATG 59.772 40.741 0.00 0.00 36.74 1.90
447 451 4.023980 TCTGAGTTGTACCTGATAGGGTG 58.976 47.826 0.00 0.00 40.58 4.61
458 462 6.780706 TTTCGAAGGATTTCTGAGTTGTAC 57.219 37.500 0.00 0.00 0.00 2.90
477 481 4.173256 ACTGAGTTGCCTTTTGTTTTTCG 58.827 39.130 0.00 0.00 0.00 3.46
503 508 9.541143 AAAACTCATTTTATTTCGGTGACAAAT 57.459 25.926 0.00 0.00 36.22 2.32
520 525 3.385755 AGCAGCTGTTTGGAAAACTCATT 59.614 39.130 16.64 0.00 0.00 2.57
549 556 7.523415 ACTTGGTAAGGAGAAAATTTCCACTA 58.477 34.615 1.57 0.00 37.18 2.74
815 822 2.029838 ATGACGACATTCCTGAAGCC 57.970 50.000 0.00 0.00 32.21 4.35
870 877 0.688418 ATCTCCTGCTCTGCTCTGCT 60.688 55.000 0.00 0.00 0.00 4.24
898 905 0.040425 GTGATCACGGTGTTGCCAAC 60.040 55.000 10.69 0.00 36.97 3.77
979 988 3.693382 CGGTCTCCGTGCGTATGCA 62.693 63.158 5.25 5.25 43.66 3.96
996 1005 1.953138 GTCGCAGATGCCCATCTCG 60.953 63.158 7.78 13.34 45.78 4.04
1001 1010 3.785859 GGAGGTCGCAGATGCCCA 61.786 66.667 0.00 0.00 40.67 5.36
1032 1041 4.514577 ATTCAGGCGACGAGGGCG 62.515 66.667 0.00 0.00 44.79 6.13
1036 1045 2.480419 AGACAAAAATTCAGGCGACGAG 59.520 45.455 0.00 0.00 0.00 4.18
1037 1046 2.489971 AGACAAAAATTCAGGCGACGA 58.510 42.857 0.00 0.00 0.00 4.20
1038 1047 2.969443 AGACAAAAATTCAGGCGACG 57.031 45.000 0.00 0.00 0.00 5.12
1039 1048 6.915843 TCTTTTTAGACAAAAATTCAGGCGAC 59.084 34.615 0.00 0.00 41.54 5.19
1040 1049 6.915843 GTCTTTTTAGACAAAAATTCAGGCGA 59.084 34.615 0.00 0.00 41.54 5.54
1041 1050 6.143919 GGTCTTTTTAGACAAAAATTCAGGCG 59.856 38.462 7.52 0.00 41.54 5.52
1042 1051 6.983890 TGGTCTTTTTAGACAAAAATTCAGGC 59.016 34.615 7.52 0.00 41.54 4.85
1043 1052 7.438160 GGTGGTCTTTTTAGACAAAAATTCAGG 59.562 37.037 7.52 0.00 41.54 3.86
1044 1053 8.197439 AGGTGGTCTTTTTAGACAAAAATTCAG 58.803 33.333 7.52 0.00 41.54 3.02
1121 1130 3.030652 CCACGTTGTTGCTGGTCC 58.969 61.111 0.00 0.00 0.00 4.46
1346 1373 1.132199 CTACCGCGTGACAAGCTACG 61.132 60.000 11.61 2.36 42.79 3.51
1471 1519 2.963371 GGCGGACTGACTCGAGTT 59.037 61.111 21.08 3.21 0.00 3.01
1496 1544 2.933906 GCTATTGTTTAGTGTAGCCGCA 59.066 45.455 0.00 0.00 34.84 5.69
1994 2218 3.664025 TTCCCGGCAGTGCTCATCG 62.664 63.158 16.11 9.80 0.00 3.84
2066 2290 3.697439 TACCAGCTTGCCGCCATCC 62.697 63.158 0.00 0.00 40.39 3.51
2086 2310 7.226128 TGCATTTTCAAATTATGACAACAGCAA 59.774 29.630 11.47 0.00 38.28 3.91
2096 2328 6.097156 ACGCACATGCATTTTCAAATTATG 57.903 33.333 0.00 5.38 42.21 1.90
2099 2331 5.868258 TGATACGCACATGCATTTTCAAATT 59.132 32.000 0.00 0.00 42.21 1.82
2146 2378 3.508840 CTTGCCCGGCCGATTGAC 61.509 66.667 30.73 11.35 0.00 3.18
2172 2404 1.153628 GCTACGCCTGTCCAACGAT 60.154 57.895 0.00 0.00 0.00 3.73
2296 2687 3.308866 CCTAAGGTATTTCCACGAAAGCG 59.691 47.826 0.00 0.00 44.79 4.68
2344 2735 7.148407 ACGAAATAGTAAGGCTCAGTTGAAATG 60.148 37.037 0.00 0.00 0.00 2.32
2422 2813 1.068474 GGTGTTCAAGATCACGTCCG 58.932 55.000 0.00 0.00 35.67 4.79
2515 2915 1.341209 CTTGGTTTTGGTTCTGAGCCC 59.659 52.381 8.14 0.00 0.00 5.19
2566 2967 3.011818 TGGTTGCACTCATGATAGCAAG 58.988 45.455 26.06 5.67 46.32 4.01
2630 3031 0.692419 ATCCATCGAGTTCCCAGCCT 60.692 55.000 0.00 0.00 0.00 4.58
2720 3121 1.826921 CATGCCCACTCCATCAGGC 60.827 63.158 0.00 0.00 45.96 4.85
2785 3186 1.435515 CCCTCTAGACACTGCTCGC 59.564 63.158 0.00 0.00 0.00 5.03
2798 3199 1.211456 CATTGCTCTCCTTCCCCTCT 58.789 55.000 0.00 0.00 0.00 3.69
2881 3284 1.002544 CCATTCCTCTCGGCCTTATCC 59.997 57.143 0.00 0.00 0.00 2.59
2952 3355 8.017587 CAATATTGCCCAAAACAGACTTTAAC 57.982 34.615 1.74 0.00 0.00 2.01
3002 3405 2.231235 GGGAGTACCAGGCACAAAATTG 59.769 50.000 0.00 0.00 39.85 2.32
3009 3412 2.722201 CGGAGGGAGTACCAGGCAC 61.722 68.421 0.00 0.00 43.89 5.01
3083 3492 2.800250 AGCAAGAGATTTGAAGGTGGG 58.200 47.619 0.00 0.00 0.00 4.61
3119 3528 3.367910 CGACAGAGAAAGGAGGAAGAAGG 60.368 52.174 0.00 0.00 0.00 3.46
3147 3571 4.683334 GTGCCGACGGTTGCTTGC 62.683 66.667 16.73 0.00 0.00 4.01
3181 3605 4.934942 CGTGGCCGTCGTCACACA 62.935 66.667 11.23 0.00 33.62 3.72
3237 3680 3.349006 CACAGCGGTGGCACAGAC 61.349 66.667 22.02 12.32 41.80 3.51
3238 3681 3.100503 TTCACAGCGGTGGCACAGA 62.101 57.895 22.02 5.78 45.32 3.41
3303 3746 2.362369 CGTGGAGGAGCAGGTGGAT 61.362 63.158 0.00 0.00 0.00 3.41
3374 3855 1.030488 GTCACGACGGGAGAGGATGA 61.030 60.000 0.00 0.00 0.00 2.92
3481 3965 2.811101 CTCTAGGTCCAGGCGCTG 59.189 66.667 7.64 3.34 0.00 5.18
3506 3990 2.119801 GAGCTTCAATTCCAGGCTCA 57.880 50.000 11.36 0.00 45.79 4.26
3508 3992 2.652590 GATGAGCTTCAATTCCAGGCT 58.347 47.619 0.00 0.00 35.86 4.58
3555 4039 1.000486 TCGAAGAGAGGAGTGGGGG 60.000 63.158 0.00 0.00 0.00 5.40
3611 4095 3.946201 AGCAACACGAGCAGGCCT 61.946 61.111 0.00 0.00 0.00 5.19
3639 4123 2.829003 CAGCAGCATGAGCAGGGG 60.829 66.667 12.28 0.00 45.49 4.79
3647 4131 3.506096 CTCACCGGCAGCAGCATG 61.506 66.667 0.00 0.00 44.61 4.06
3648 4132 3.258228 TTCTCACCGGCAGCAGCAT 62.258 57.895 0.00 0.00 44.61 3.79
3682 4380 8.575589 TGAACTTAATGAACAAGTGCAATGTAT 58.424 29.630 6.81 0.00 38.38 2.29
3683 4381 7.935520 TGAACTTAATGAACAAGTGCAATGTA 58.064 30.769 6.81 0.00 38.38 2.29
3684 4382 6.804677 TGAACTTAATGAACAAGTGCAATGT 58.195 32.000 0.70 0.70 38.38 2.71
3686 4384 7.763528 TGTTTGAACTTAATGAACAAGTGCAAT 59.236 29.630 8.96 0.00 46.20 3.56
3704 4544 4.396478 GGGGAGCTTCTTCTATGTTTGAAC 59.604 45.833 0.00 0.00 0.00 3.18
3713 4553 1.490574 GAGCAGGGGAGCTTCTTCTA 58.509 55.000 0.00 0.00 46.75 2.10
3726 4729 2.860735 GCATTAACTGAGTACGAGCAGG 59.139 50.000 14.83 2.19 36.47 4.85
3727 4730 3.511699 TGCATTAACTGAGTACGAGCAG 58.488 45.455 10.55 10.55 38.10 4.24
3729 4732 5.749109 AGTTATGCATTAACTGAGTACGAGC 59.251 40.000 3.54 0.00 46.96 5.03
3740 4743 6.095440 AGGGACACATTCAGTTATGCATTAAC 59.905 38.462 3.54 7.66 40.50 2.01
3741 4744 6.186957 AGGGACACATTCAGTTATGCATTAA 58.813 36.000 3.54 0.00 0.00 1.40
3742 4745 5.754782 AGGGACACATTCAGTTATGCATTA 58.245 37.500 3.54 0.00 0.00 1.90
3744 4747 4.202441 GAGGGACACATTCAGTTATGCAT 58.798 43.478 3.79 3.79 0.00 3.96
3746 4749 3.609853 TGAGGGACACATTCAGTTATGC 58.390 45.455 0.00 0.00 0.00 3.14
3747 4750 5.649395 ACATTGAGGGACACATTCAGTTATG 59.351 40.000 0.00 0.00 0.00 1.90
3748 4751 5.819991 ACATTGAGGGACACATTCAGTTAT 58.180 37.500 0.00 0.00 0.00 1.89
3803 4892 8.296713 GCTTTGGACATTGATTCAGTTAACTTA 58.703 33.333 5.07 0.00 0.00 2.24
3818 4907 6.265196 TCATAAACTTCTGTGCTTTGGACATT 59.735 34.615 0.00 0.00 0.00 2.71
3819 4908 5.769662 TCATAAACTTCTGTGCTTTGGACAT 59.230 36.000 0.00 0.00 0.00 3.06
3822 4911 6.240894 AGATCATAAACTTCTGTGCTTTGGA 58.759 36.000 0.00 0.00 0.00 3.53
3823 4912 6.506500 AGATCATAAACTTCTGTGCTTTGG 57.493 37.500 0.00 0.00 0.00 3.28
3824 4913 8.173775 CAGTAGATCATAAACTTCTGTGCTTTG 58.826 37.037 0.00 0.00 30.66 2.77
3827 4916 6.940739 ACAGTAGATCATAAACTTCTGTGCT 58.059 36.000 0.00 0.00 40.97 4.40
3828 4917 7.459486 CAACAGTAGATCATAAACTTCTGTGC 58.541 38.462 0.00 0.00 41.39 4.57
3829 4918 7.332926 AGCAACAGTAGATCATAAACTTCTGTG 59.667 37.037 0.00 0.00 41.39 3.66
3830 4919 7.332926 CAGCAACAGTAGATCATAAACTTCTGT 59.667 37.037 0.00 0.00 43.04 3.41
3831 4920 7.332926 ACAGCAACAGTAGATCATAAACTTCTG 59.667 37.037 0.00 0.00 37.48 3.02
3834 4942 7.161404 TGACAGCAACAGTAGATCATAAACTT 58.839 34.615 0.00 0.00 0.00 2.66
3836 4944 6.968131 TGACAGCAACAGTAGATCATAAAC 57.032 37.500 0.00 0.00 0.00 2.01
3840 4948 6.624423 GCAAATTGACAGCAACAGTAGATCAT 60.624 38.462 0.00 0.00 36.72 2.45
3880 5307 9.409918 TGCTAGTAGTATCTCTCACAAGTTAAT 57.590 33.333 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.