Multiple sequence alignment - TraesCS7D01G502500

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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 TraesCS7D01G502500 chr7D 100.000 3443 0 0 1 3443 608121761 608125203 0.000000e+00 6359.0
1 TraesCS7D01G502500 chr7D 94.321 1849 100 5 765 2610 610623642 610621796 0.000000e+00 2828.0
2 TraesCS7D01G502500 chr7D 92.171 1124 69 3 1444 2567 514346918 514345814 0.000000e+00 1570.0
3 TraesCS7D01G502500 chr7D 98.367 551 9 0 211 761 525914188 525913638 0.000000e+00 968.0
4 TraesCS7D01G502500 chr7D 98.004 551 8 3 211 761 457113890 457113343 0.000000e+00 953.0
5 TraesCS7D01G502500 chr7D 86.854 677 52 15 779 1453 514353626 514352985 0.000000e+00 723.0
6 TraesCS7D01G502500 chr7D 85.072 690 68 18 2746 3409 610604170 610603490 0.000000e+00 671.0
7 TraesCS7D01G502500 chr7D 85.714 203 28 1 3205 3406 8810233 8810435 2.690000e-51 213.0
8 TraesCS7D01G502500 chr7B 91.787 2691 185 15 769 3443 698503553 698506223 0.000000e+00 3712.0
9 TraesCS7D01G502500 chr7B 91.590 1855 129 17 769 2610 693439535 693441375 0.000000e+00 2536.0
10 TraesCS7D01G502500 chr7B 91.478 1854 129 16 769 2610 698974218 698976054 0.000000e+00 2521.0
11 TraesCS7D01G502500 chr7B 91.401 1849 127 23 775 2610 695262145 695260316 0.000000e+00 2505.0
12 TraesCS7D01G502500 chr7B 91.878 1699 125 8 929 2623 684982566 684980877 0.000000e+00 2361.0
13 TraesCS7D01G502500 chr7B 92.313 1574 101 9 1880 3443 699157919 699159482 0.000000e+00 2218.0
14 TraesCS7D01G502500 chr7B 88.166 1859 150 39 775 2610 694824894 694823083 0.000000e+00 2150.0
15 TraesCS7D01G502500 chr7B 90.291 1308 93 15 1517 2819 697385641 697384363 0.000000e+00 1681.0
16 TraesCS7D01G502500 chr7B 91.470 551 47 0 977 1527 697394514 697393964 0.000000e+00 758.0
17 TraesCS7D01G502500 chr7B 90.945 508 41 4 2938 3442 697384369 697383864 0.000000e+00 678.0
18 TraesCS7D01G502500 chr7B 90.177 509 44 5 2938 3442 684980734 684980228 0.000000e+00 658.0
19 TraesCS7D01G502500 chr7B 100.000 39 0 0 1371 1409 694823721 694823683 4.770000e-09 73.1
20 TraesCS7D01G502500 chr7A 88.109 1867 139 26 762 2610 700535493 700533692 0.000000e+00 2141.0
21 TraesCS7D01G502500 chr7A 88.333 180 19 2 3205 3382 9367698 9367877 7.480000e-52 215.0
22 TraesCS7D01G502500 chr7A 93.137 102 7 0 3205 3306 9379242 9379343 2.140000e-32 150.0
23 TraesCS7D01G502500 chr3D 98.730 551 7 0 211 761 91803503 91802953 0.000000e+00 979.0
24 TraesCS7D01G502500 chr2D 98.370 552 7 2 211 762 544881953 544881404 0.000000e+00 968.0
25 TraesCS7D01G502500 chr2D 98.022 556 11 0 210 765 612544013 612544568 0.000000e+00 966.0
26 TraesCS7D01G502500 chr1D 98.367 551 7 2 211 761 364839604 364840152 0.000000e+00 966.0
27 TraesCS7D01G502500 chr5D 98.004 551 11 0 211 761 58020844 58020294 0.000000e+00 957.0
28 TraesCS7D01G502500 chr5D 98.007 552 9 1 211 762 275196825 275196276 0.000000e+00 957.0
29 TraesCS7D01G502500 chr5D 91.129 124 10 1 1 123 434574064 434574187 2.130000e-37 167.0
30 TraesCS7D01G502500 chr5D 85.714 126 17 1 1 125 410607936 410608061 7.750000e-27 132.0
31 TraesCS7D01G502500 chr6D 97.645 552 13 0 211 762 265307547 265306996 0.000000e+00 948.0
32 TraesCS7D01G502500 chr6D 87.705 122 14 1 3 123 108238102 108238223 1.290000e-29 141.0
33 TraesCS7D01G502500 chr4A 83.010 206 29 3 3199 3403 729901041 729901241 7.590000e-42 182.0
34 TraesCS7D01G502500 chr4A 81.773 203 22 4 3205 3406 729658400 729658588 4.600000e-34 156.0
35 TraesCS7D01G502500 chr5B 91.339 127 10 1 3 129 491089796 491089921 4.570000e-39 172.0
36 TraesCS7D01G502500 chr2B 90.244 123 11 1 1 122 350525901 350526023 3.560000e-35 159.0
37 TraesCS7D01G502500 chr2B 84.677 124 18 1 1 123 776565620 776565743 4.670000e-24 122.0
38 TraesCS7D01G502500 chr4B 90.756 119 10 1 6 123 127093251 127093133 1.280000e-34 158.0
39 TraesCS7D01G502500 chr3B 88.618 123 13 1 1 122 663065273 663065151 7.700000e-32 148.0
40 TraesCS7D01G502500 chr6B 87.903 124 14 1 1 123 537584826 537584949 9.960000e-31 145.0


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 TraesCS7D01G502500 chr7D 608121761 608125203 3442 False 6359.00 6359 100.0000 1 3443 1 chr7D.!!$F2 3442
1 TraesCS7D01G502500 chr7D 610621796 610623642 1846 True 2828.00 2828 94.3210 765 2610 1 chr7D.!!$R6 1845
2 TraesCS7D01G502500 chr7D 514345814 514346918 1104 True 1570.00 1570 92.1710 1444 2567 1 chr7D.!!$R2 1123
3 TraesCS7D01G502500 chr7D 525913638 525914188 550 True 968.00 968 98.3670 211 761 1 chr7D.!!$R4 550
4 TraesCS7D01G502500 chr7D 457113343 457113890 547 True 953.00 953 98.0040 211 761 1 chr7D.!!$R1 550
5 TraesCS7D01G502500 chr7D 514352985 514353626 641 True 723.00 723 86.8540 779 1453 1 chr7D.!!$R3 674
6 TraesCS7D01G502500 chr7D 610603490 610604170 680 True 671.00 671 85.0720 2746 3409 1 chr7D.!!$R5 663
7 TraesCS7D01G502500 chr7B 698503553 698506223 2670 False 3712.00 3712 91.7870 769 3443 1 chr7B.!!$F2 2674
8 TraesCS7D01G502500 chr7B 693439535 693441375 1840 False 2536.00 2536 91.5900 769 2610 1 chr7B.!!$F1 1841
9 TraesCS7D01G502500 chr7B 698974218 698976054 1836 False 2521.00 2521 91.4780 769 2610 1 chr7B.!!$F3 1841
10 TraesCS7D01G502500 chr7B 695260316 695262145 1829 True 2505.00 2505 91.4010 775 2610 1 chr7B.!!$R1 1835
11 TraesCS7D01G502500 chr7B 699157919 699159482 1563 False 2218.00 2218 92.3130 1880 3443 1 chr7B.!!$F4 1563
12 TraesCS7D01G502500 chr7B 684980228 684982566 2338 True 1509.50 2361 91.0275 929 3442 2 chr7B.!!$R3 2513
13 TraesCS7D01G502500 chr7B 697383864 697385641 1777 True 1179.50 1681 90.6180 1517 3442 2 chr7B.!!$R5 1925
14 TraesCS7D01G502500 chr7B 694823083 694824894 1811 True 1111.55 2150 94.0830 775 2610 2 chr7B.!!$R4 1835
15 TraesCS7D01G502500 chr7B 697393964 697394514 550 True 758.00 758 91.4700 977 1527 1 chr7B.!!$R2 550
16 TraesCS7D01G502500 chr7A 700533692 700535493 1801 True 2141.00 2141 88.1090 762 2610 1 chr7A.!!$R1 1848
17 TraesCS7D01G502500 chr3D 91802953 91803503 550 True 979.00 979 98.7300 211 761 1 chr3D.!!$R1 550
18 TraesCS7D01G502500 chr2D 544881404 544881953 549 True 968.00 968 98.3700 211 762 1 chr2D.!!$R1 551
19 TraesCS7D01G502500 chr2D 612544013 612544568 555 False 966.00 966 98.0220 210 765 1 chr2D.!!$F1 555
20 TraesCS7D01G502500 chr1D 364839604 364840152 548 False 966.00 966 98.3670 211 761 1 chr1D.!!$F1 550
21 TraesCS7D01G502500 chr5D 58020294 58020844 550 True 957.00 957 98.0040 211 761 1 chr5D.!!$R1 550
22 TraesCS7D01G502500 chr5D 275196276 275196825 549 True 957.00 957 98.0070 211 762 1 chr5D.!!$R2 551
23 TraesCS7D01G502500 chr6D 265306996 265307547 551 True 948.00 948 97.6450 211 762 1 chr6D.!!$R1 551

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
153 154 0.036388 TTCTCAACGATGGGAGTGCC 60.036 55.0 0.0 0.00 37.36 5.01 F
187 188 0.402504 TGGGCGGTGTGATAAGGTTT 59.597 50.0 0.0 0.00 0.00 3.27 F
766 767 0.678395 CTGGATCTCAGTCCGGGATG 59.322 60.0 0.0 0.09 41.35 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1233 1260 0.684535 TGAGGATGCGAGTCACCAAA 59.315 50.0 0.0 0.0 0.00 3.28 R
1320 1347 1.012086 CGGTCATGAAGGCAGTGATG 58.988 55.0 0.0 0.0 0.00 3.07 R
2646 2707 0.310543 TCCGCACACAAAGCATGTTC 59.689 50.0 0.0 0.0 41.46 3.18 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.562250 TGGGGTGGAGTGTGACTG 58.438 61.111 0.00 0.00 0.00 3.51
18 19 2.146724 TGGGGTGGAGTGTGACTGG 61.147 63.158 0.00 0.00 0.00 4.00
19 20 2.750350 GGGTGGAGTGTGACTGGG 59.250 66.667 0.00 0.00 0.00 4.45
20 21 1.841556 GGGTGGAGTGTGACTGGGA 60.842 63.158 0.00 0.00 0.00 4.37
21 22 1.415672 GGGTGGAGTGTGACTGGGAA 61.416 60.000 0.00 0.00 0.00 3.97
22 23 0.693049 GGTGGAGTGTGACTGGGAAT 59.307 55.000 0.00 0.00 0.00 3.01
23 24 1.906574 GGTGGAGTGTGACTGGGAATA 59.093 52.381 0.00 0.00 0.00 1.75
24 25 2.505819 GGTGGAGTGTGACTGGGAATAT 59.494 50.000 0.00 0.00 0.00 1.28
25 26 3.535561 GTGGAGTGTGACTGGGAATATG 58.464 50.000 0.00 0.00 0.00 1.78
26 27 3.055094 GTGGAGTGTGACTGGGAATATGT 60.055 47.826 0.00 0.00 0.00 2.29
27 28 3.197766 TGGAGTGTGACTGGGAATATGTC 59.802 47.826 0.00 0.00 0.00 3.06
29 30 3.452627 GAGTGTGACTGGGAATATGTCCT 59.547 47.826 0.00 0.00 46.92 3.85
30 31 3.452627 AGTGTGACTGGGAATATGTCCTC 59.547 47.826 0.00 0.00 46.92 3.71
31 32 3.452627 GTGTGACTGGGAATATGTCCTCT 59.547 47.826 0.00 0.00 46.92 3.69
32 33 4.080863 GTGTGACTGGGAATATGTCCTCTT 60.081 45.833 0.00 0.00 46.92 2.85
33 34 4.536090 TGTGACTGGGAATATGTCCTCTTT 59.464 41.667 0.00 0.00 46.92 2.52
34 35 5.724370 TGTGACTGGGAATATGTCCTCTTTA 59.276 40.000 0.00 0.00 46.92 1.85
35 36 6.386927 TGTGACTGGGAATATGTCCTCTTTAT 59.613 38.462 0.00 0.00 46.92 1.40
36 37 7.092444 TGTGACTGGGAATATGTCCTCTTTATT 60.092 37.037 0.00 0.00 46.92 1.40
37 38 7.775561 GTGACTGGGAATATGTCCTCTTTATTT 59.224 37.037 0.00 0.00 46.92 1.40
38 39 7.993183 TGACTGGGAATATGTCCTCTTTATTTC 59.007 37.037 0.00 0.00 46.92 2.17
39 40 6.992715 ACTGGGAATATGTCCTCTTTATTTCG 59.007 38.462 4.58 0.00 46.92 3.46
40 41 5.763204 TGGGAATATGTCCTCTTTATTTCGC 59.237 40.000 4.58 0.00 46.92 4.70
41 42 5.181433 GGGAATATGTCCTCTTTATTTCGCC 59.819 44.000 4.58 0.00 46.92 5.54
42 43 5.107065 GGAATATGTCCTCTTTATTTCGCCG 60.107 44.000 0.00 0.00 43.98 6.46
43 44 2.018542 TGTCCTCTTTATTTCGCCGG 57.981 50.000 0.00 0.00 0.00 6.13
44 45 1.551430 TGTCCTCTTTATTTCGCCGGA 59.449 47.619 5.05 0.00 0.00 5.14
45 46 2.169769 TGTCCTCTTTATTTCGCCGGAT 59.830 45.455 5.05 0.00 0.00 4.18
46 47 3.203716 GTCCTCTTTATTTCGCCGGATT 58.796 45.455 5.05 0.00 0.00 3.01
47 48 3.626217 GTCCTCTTTATTTCGCCGGATTT 59.374 43.478 5.05 0.00 0.00 2.17
48 49 3.875134 TCCTCTTTATTTCGCCGGATTTC 59.125 43.478 5.05 0.00 0.00 2.17
49 50 3.625764 CCTCTTTATTTCGCCGGATTTCA 59.374 43.478 5.05 0.00 0.00 2.69
50 51 4.495844 CCTCTTTATTTCGCCGGATTTCAC 60.496 45.833 5.05 0.00 0.00 3.18
51 52 3.375922 TCTTTATTTCGCCGGATTTCACC 59.624 43.478 5.05 0.00 0.00 4.02
61 62 1.954927 GGATTTCACCGGATGACTCC 58.045 55.000 9.46 12.70 36.92 3.85
62 63 1.475213 GGATTTCACCGGATGACTCCC 60.475 57.143 9.46 5.39 38.45 4.30
63 64 1.209504 GATTTCACCGGATGACTCCCA 59.790 52.381 9.46 0.00 38.45 4.37
64 65 1.060729 TTTCACCGGATGACTCCCAA 58.939 50.000 9.46 0.00 38.45 4.12
65 66 0.613260 TTCACCGGATGACTCCCAAG 59.387 55.000 9.46 0.00 38.45 3.61
66 67 0.252057 TCACCGGATGACTCCCAAGA 60.252 55.000 9.46 0.00 38.45 3.02
67 68 0.176680 CACCGGATGACTCCCAAGAG 59.823 60.000 9.46 0.00 46.36 2.85
68 69 0.041238 ACCGGATGACTCCCAAGAGA 59.959 55.000 9.46 0.00 43.39 3.10
69 70 0.461961 CCGGATGACTCCCAAGAGAC 59.538 60.000 0.00 0.00 43.39 3.36
70 71 0.461961 CGGATGACTCCCAAGAGACC 59.538 60.000 0.00 0.00 43.39 3.85
71 72 1.573108 GGATGACTCCCAAGAGACCA 58.427 55.000 0.00 0.00 43.39 4.02
72 73 1.909302 GGATGACTCCCAAGAGACCAA 59.091 52.381 0.00 0.00 43.39 3.67
73 74 2.355209 GGATGACTCCCAAGAGACCAAC 60.355 54.545 0.00 0.00 43.39 3.77
74 75 2.103153 TGACTCCCAAGAGACCAACT 57.897 50.000 0.00 0.00 43.39 3.16
75 76 2.408565 TGACTCCCAAGAGACCAACTT 58.591 47.619 0.00 0.00 43.39 2.66
76 77 2.777692 TGACTCCCAAGAGACCAACTTT 59.222 45.455 0.00 0.00 43.39 2.66
77 78 3.202151 TGACTCCCAAGAGACCAACTTTT 59.798 43.478 0.00 0.00 43.39 2.27
78 79 4.207955 GACTCCCAAGAGACCAACTTTTT 58.792 43.478 0.00 0.00 43.39 1.94
94 95 2.943449 TTTTTGGTTCGGTGGTGTTC 57.057 45.000 0.00 0.00 0.00 3.18
95 96 2.131776 TTTTGGTTCGGTGGTGTTCT 57.868 45.000 0.00 0.00 0.00 3.01
96 97 2.131776 TTTGGTTCGGTGGTGTTCTT 57.868 45.000 0.00 0.00 0.00 2.52
97 98 1.384525 TTGGTTCGGTGGTGTTCTTG 58.615 50.000 0.00 0.00 0.00 3.02
98 99 0.464735 TGGTTCGGTGGTGTTCTTGG 60.465 55.000 0.00 0.00 0.00 3.61
99 100 1.170290 GGTTCGGTGGTGTTCTTGGG 61.170 60.000 0.00 0.00 0.00 4.12
100 101 1.149627 TTCGGTGGTGTTCTTGGGG 59.850 57.895 0.00 0.00 0.00 4.96
101 102 1.637724 TTCGGTGGTGTTCTTGGGGT 61.638 55.000 0.00 0.00 0.00 4.95
102 103 1.896660 CGGTGGTGTTCTTGGGGTG 60.897 63.158 0.00 0.00 0.00 4.61
103 104 2.200337 GGTGGTGTTCTTGGGGTGC 61.200 63.158 0.00 0.00 0.00 5.01
104 105 2.197324 TGGTGTTCTTGGGGTGCC 59.803 61.111 0.00 0.00 0.00 5.01
105 106 2.197324 GGTGTTCTTGGGGTGCCA 59.803 61.111 0.00 0.00 0.00 4.92
106 107 1.456705 GGTGTTCTTGGGGTGCCAA 60.457 57.895 0.00 0.00 0.00 4.52
107 108 1.739667 GTGTTCTTGGGGTGCCAAC 59.260 57.895 0.00 0.00 0.00 3.77
108 109 1.826054 TGTTCTTGGGGTGCCAACG 60.826 57.895 0.00 0.00 0.00 4.10
109 110 2.203422 TTCTTGGGGTGCCAACGG 60.203 61.111 0.00 0.00 0.00 4.44
120 121 4.473520 CCAACGGCCGGAGATGCT 62.474 66.667 31.76 2.42 0.00 3.79
121 122 2.892425 CAACGGCCGGAGATGCTC 60.892 66.667 31.76 0.00 0.00 4.26
122 123 3.077556 AACGGCCGGAGATGCTCT 61.078 61.111 31.76 0.57 0.00 4.09
123 124 1.756950 AACGGCCGGAGATGCTCTA 60.757 57.895 31.76 0.00 0.00 2.43
124 125 1.327690 AACGGCCGGAGATGCTCTAA 61.328 55.000 31.76 0.00 0.00 2.10
125 126 1.115930 ACGGCCGGAGATGCTCTAAT 61.116 55.000 31.76 0.00 0.00 1.73
126 127 0.668706 CGGCCGGAGATGCTCTAATG 60.669 60.000 20.10 0.00 0.00 1.90
127 128 0.681733 GGCCGGAGATGCTCTAATGA 59.318 55.000 5.05 0.00 0.00 2.57
128 129 1.606737 GGCCGGAGATGCTCTAATGAC 60.607 57.143 5.05 0.00 0.00 3.06
129 130 1.069204 GCCGGAGATGCTCTAATGACA 59.931 52.381 5.05 0.00 0.00 3.58
130 131 2.865670 GCCGGAGATGCTCTAATGACAG 60.866 54.545 5.05 0.00 0.00 3.51
131 132 2.625314 CCGGAGATGCTCTAATGACAGA 59.375 50.000 0.00 0.00 0.00 3.41
132 133 3.257873 CCGGAGATGCTCTAATGACAGAT 59.742 47.826 0.00 0.00 0.00 2.90
133 134 4.484236 CGGAGATGCTCTAATGACAGATC 58.516 47.826 0.00 0.00 0.00 2.75
134 135 4.218200 CGGAGATGCTCTAATGACAGATCT 59.782 45.833 0.00 0.00 0.00 2.75
135 136 5.278907 CGGAGATGCTCTAATGACAGATCTT 60.279 44.000 0.00 0.00 0.00 2.40
136 137 6.158598 GGAGATGCTCTAATGACAGATCTTC 58.841 44.000 0.00 0.00 0.00 2.87
137 138 6.015180 GGAGATGCTCTAATGACAGATCTTCT 60.015 42.308 0.00 0.00 31.55 2.85
138 139 6.985117 AGATGCTCTAATGACAGATCTTCTC 58.015 40.000 0.00 0.00 0.00 2.87
139 140 6.550481 AGATGCTCTAATGACAGATCTTCTCA 59.450 38.462 0.00 0.00 0.00 3.27
140 141 6.535963 TGCTCTAATGACAGATCTTCTCAA 57.464 37.500 0.00 0.00 0.00 3.02
141 142 6.336566 TGCTCTAATGACAGATCTTCTCAAC 58.663 40.000 0.00 0.00 0.00 3.18
142 143 5.458452 GCTCTAATGACAGATCTTCTCAACG 59.542 44.000 0.00 0.00 0.00 4.10
143 144 6.679146 GCTCTAATGACAGATCTTCTCAACGA 60.679 42.308 0.00 0.00 0.00 3.85
144 145 7.340122 TCTAATGACAGATCTTCTCAACGAT 57.660 36.000 0.00 0.00 0.00 3.73
145 146 7.199078 TCTAATGACAGATCTTCTCAACGATG 58.801 38.462 0.00 0.00 0.00 3.84
146 147 4.115401 TGACAGATCTTCTCAACGATGG 57.885 45.455 0.00 0.00 0.00 3.51
147 148 3.118992 TGACAGATCTTCTCAACGATGGG 60.119 47.826 0.00 0.00 0.00 4.00
148 149 3.099905 ACAGATCTTCTCAACGATGGGA 58.900 45.455 0.00 0.00 32.98 4.37
149 150 3.131933 ACAGATCTTCTCAACGATGGGAG 59.868 47.826 0.00 0.00 37.36 4.30
150 151 3.131933 CAGATCTTCTCAACGATGGGAGT 59.868 47.826 0.00 0.00 37.36 3.85
151 152 3.131933 AGATCTTCTCAACGATGGGAGTG 59.868 47.826 0.00 0.00 37.36 3.51
152 153 1.066858 TCTTCTCAACGATGGGAGTGC 60.067 52.381 0.00 0.00 37.36 4.40
153 154 0.036388 TTCTCAACGATGGGAGTGCC 60.036 55.000 0.00 0.00 37.36 5.01
154 155 1.811266 CTCAACGATGGGAGTGCCG 60.811 63.158 0.00 0.00 33.83 5.69
155 156 2.819595 CAACGATGGGAGTGCCGG 60.820 66.667 0.00 0.00 33.83 6.13
156 157 3.000819 AACGATGGGAGTGCCGGA 61.001 61.111 5.05 0.00 33.83 5.14
157 158 3.019003 AACGATGGGAGTGCCGGAG 62.019 63.158 5.05 0.00 33.83 4.63
172 173 2.457366 CGGAGGAGTTATGTATGGGC 57.543 55.000 0.00 0.00 0.00 5.36
173 174 1.336887 CGGAGGAGTTATGTATGGGCG 60.337 57.143 0.00 0.00 0.00 6.13
174 175 1.002087 GGAGGAGTTATGTATGGGCGG 59.998 57.143 0.00 0.00 0.00 6.13
175 176 1.692519 GAGGAGTTATGTATGGGCGGT 59.307 52.381 0.00 0.00 0.00 5.68
176 177 1.416401 AGGAGTTATGTATGGGCGGTG 59.584 52.381 0.00 0.00 0.00 4.94
177 178 1.140252 GGAGTTATGTATGGGCGGTGT 59.860 52.381 0.00 0.00 0.00 4.16
178 179 2.210116 GAGTTATGTATGGGCGGTGTG 58.790 52.381 0.00 0.00 0.00 3.82
179 180 1.834896 AGTTATGTATGGGCGGTGTGA 59.165 47.619 0.00 0.00 0.00 3.58
180 181 2.438021 AGTTATGTATGGGCGGTGTGAT 59.562 45.455 0.00 0.00 0.00 3.06
181 182 3.644265 AGTTATGTATGGGCGGTGTGATA 59.356 43.478 0.00 0.00 0.00 2.15
182 183 4.101898 AGTTATGTATGGGCGGTGTGATAA 59.898 41.667 0.00 0.00 0.00 1.75
183 184 2.613026 TGTATGGGCGGTGTGATAAG 57.387 50.000 0.00 0.00 0.00 1.73
184 185 1.140052 TGTATGGGCGGTGTGATAAGG 59.860 52.381 0.00 0.00 0.00 2.69
185 186 1.140252 GTATGGGCGGTGTGATAAGGT 59.860 52.381 0.00 0.00 0.00 3.50
186 187 0.623723 ATGGGCGGTGTGATAAGGTT 59.376 50.000 0.00 0.00 0.00 3.50
187 188 0.402504 TGGGCGGTGTGATAAGGTTT 59.597 50.000 0.00 0.00 0.00 3.27
188 189 1.092348 GGGCGGTGTGATAAGGTTTC 58.908 55.000 0.00 0.00 0.00 2.78
189 190 1.339727 GGGCGGTGTGATAAGGTTTCT 60.340 52.381 0.00 0.00 0.00 2.52
190 191 2.093341 GGGCGGTGTGATAAGGTTTCTA 60.093 50.000 0.00 0.00 0.00 2.10
191 192 3.195661 GGCGGTGTGATAAGGTTTCTAG 58.804 50.000 0.00 0.00 0.00 2.43
192 193 3.369157 GGCGGTGTGATAAGGTTTCTAGT 60.369 47.826 0.00 0.00 0.00 2.57
193 194 4.142093 GGCGGTGTGATAAGGTTTCTAGTA 60.142 45.833 0.00 0.00 0.00 1.82
194 195 5.041940 GCGGTGTGATAAGGTTTCTAGTAG 58.958 45.833 0.00 0.00 0.00 2.57
195 196 5.163581 GCGGTGTGATAAGGTTTCTAGTAGA 60.164 44.000 0.00 0.00 0.00 2.59
196 197 6.461231 GCGGTGTGATAAGGTTTCTAGTAGAT 60.461 42.308 0.00 0.00 0.00 1.98
197 198 6.918569 CGGTGTGATAAGGTTTCTAGTAGATG 59.081 42.308 0.00 0.00 0.00 2.90
198 199 6.702282 GGTGTGATAAGGTTTCTAGTAGATGC 59.298 42.308 0.00 0.00 0.00 3.91
199 200 7.418025 GGTGTGATAAGGTTTCTAGTAGATGCT 60.418 40.741 0.00 0.00 0.00 3.79
200 201 7.436673 GTGTGATAAGGTTTCTAGTAGATGCTG 59.563 40.741 0.00 0.00 0.00 4.41
201 202 6.926272 GTGATAAGGTTTCTAGTAGATGCTGG 59.074 42.308 0.00 0.00 0.00 4.85
202 203 4.762289 AAGGTTTCTAGTAGATGCTGGG 57.238 45.455 0.00 0.00 0.00 4.45
203 204 3.995636 AGGTTTCTAGTAGATGCTGGGA 58.004 45.455 0.00 0.00 0.00 4.37
204 205 4.561752 AGGTTTCTAGTAGATGCTGGGAT 58.438 43.478 0.00 0.00 0.00 3.85
205 206 4.346418 AGGTTTCTAGTAGATGCTGGGATG 59.654 45.833 0.00 0.00 0.00 3.51
206 207 4.061596 GTTTCTAGTAGATGCTGGGATGC 58.938 47.826 0.00 0.00 0.00 3.91
403 404 3.809832 GCTGTAGCATTCGGACATTATGT 59.190 43.478 0.00 0.00 41.59 2.29
666 667 0.693049 TGTTGAGAGCCTTTCCCCTC 59.307 55.000 0.00 0.00 0.00 4.30
765 766 3.139810 CTGGATCTCAGTCCGGGAT 57.860 57.895 0.00 0.00 41.35 3.85
766 767 0.678395 CTGGATCTCAGTCCGGGATG 59.322 60.000 0.00 0.09 41.35 3.51
767 768 1.369321 GGATCTCAGTCCGGGATGC 59.631 63.158 0.00 0.00 0.00 3.91
773 774 3.492353 AGTCCGGGATGCATGGGG 61.492 66.667 2.46 1.96 0.00 4.96
855 869 2.159572 CCGCCAGATTGGAAACGTTTAG 60.160 50.000 14.65 0.00 40.96 1.85
868 882 1.529865 ACGTTTAGCTCACGCTTTTCC 59.470 47.619 16.26 0.00 46.47 3.13
1027 1054 3.532792 CACCGCACGTCGTCATCG 61.533 66.667 0.00 0.00 36.19 3.84
1341 1368 0.904649 TCACTGCCTTCATGACCGAT 59.095 50.000 0.00 0.00 0.00 4.18
1455 1482 3.544167 CTACATCCCGGAGCTCGCG 62.544 68.421 0.73 12.27 37.59 5.87
1758 1786 1.154263 CGACTCCGACGAGGTCAAC 60.154 63.158 16.13 0.00 40.77 3.18
1932 1960 0.532862 CCAACGACAAGGACAGCAGT 60.533 55.000 0.00 0.00 0.00 4.40
2060 2098 3.669354 CGCAGGTGGAGATCCTTAC 57.331 57.895 0.00 0.00 36.82 2.34
2394 2432 1.153489 GCAGGATCGAGCTCTTGCA 60.153 57.895 15.80 0.00 44.93 4.08
2415 2453 0.676466 TAGTGGCTGGCATGGTTTCG 60.676 55.000 7.33 0.00 0.00 3.46
2458 2496 2.960384 GAGTAAAGAGGAGGCTCCCTAC 59.040 54.545 29.62 22.68 37.19 3.18
2475 2524 6.127310 GCTCCCTACAAGAACTGAATAAGAGA 60.127 42.308 0.00 0.00 0.00 3.10
2635 2696 4.042311 TGTGTGGAAAGCTTTGGGTCTATA 59.958 41.667 18.30 0.00 0.00 1.31
2640 2701 5.428457 TGGAAAGCTTTGGGTCTATATGAGA 59.572 40.000 18.30 0.00 0.00 3.27
2644 2705 6.107901 AGCTTTGGGTCTATATGAGATGAC 57.892 41.667 0.00 0.00 36.29 3.06
2646 2707 5.931146 GCTTTGGGTCTATATGAGATGACTG 59.069 44.000 0.00 0.00 36.29 3.51
2667 2728 1.100463 ACATGCTTTGTGTGCGGACA 61.100 50.000 5.33 5.33 37.11 4.02
2713 2774 2.630580 AGGTACCTTATGCAGCTCTAGC 59.369 50.000 9.21 0.00 42.49 3.42
3065 3134 1.519234 CTCAATGCGGCGTCTGCTA 60.519 57.895 9.37 0.46 42.25 3.49
3119 3188 1.179152 TGAGCACTTGGAATGCATGG 58.821 50.000 0.00 0.00 45.92 3.66
3182 3251 2.182030 GAGGCGAGTTCGAGGTGG 59.818 66.667 5.60 0.00 43.02 4.61
3367 3456 7.114866 TGTAATCCATGATGTAACTCGGTTA 57.885 36.000 0.00 0.00 0.00 2.85
3436 3530 8.000780 AGAGATGGGAGCAATTTTACAATTAC 57.999 34.615 0.00 0.00 30.90 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.146724 CCAGTCACACTCCACCCCA 61.147 63.158 0.00 0.00 0.00 4.96
3 4 0.693049 ATTCCCAGTCACACTCCACC 59.307 55.000 0.00 0.00 0.00 4.61
8 9 3.914426 GGACATATTCCCAGTCACACT 57.086 47.619 0.00 0.00 38.70 3.55
18 19 5.107065 CGGCGAAATAAAGAGGACATATTCC 60.107 44.000 0.00 0.00 46.33 3.01
19 20 5.107065 CCGGCGAAATAAAGAGGACATATTC 60.107 44.000 9.30 0.00 0.00 1.75
20 21 4.755123 CCGGCGAAATAAAGAGGACATATT 59.245 41.667 9.30 0.00 0.00 1.28
21 22 4.039973 TCCGGCGAAATAAAGAGGACATAT 59.960 41.667 9.30 0.00 0.00 1.78
22 23 3.385433 TCCGGCGAAATAAAGAGGACATA 59.615 43.478 9.30 0.00 0.00 2.29
23 24 2.169769 TCCGGCGAAATAAAGAGGACAT 59.830 45.455 9.30 0.00 0.00 3.06
24 25 1.551430 TCCGGCGAAATAAAGAGGACA 59.449 47.619 9.30 0.00 0.00 4.02
25 26 2.304751 TCCGGCGAAATAAAGAGGAC 57.695 50.000 9.30 0.00 0.00 3.85
26 27 3.553828 AATCCGGCGAAATAAAGAGGA 57.446 42.857 9.30 0.00 0.00 3.71
27 28 3.625764 TGAAATCCGGCGAAATAAAGAGG 59.374 43.478 9.30 0.00 0.00 3.69
28 29 4.495844 GGTGAAATCCGGCGAAATAAAGAG 60.496 45.833 9.30 0.00 0.00 2.85
29 30 3.375922 GGTGAAATCCGGCGAAATAAAGA 59.624 43.478 9.30 0.00 0.00 2.52
30 31 3.691498 GGTGAAATCCGGCGAAATAAAG 58.309 45.455 9.30 0.00 0.00 1.85
31 32 2.096174 CGGTGAAATCCGGCGAAATAAA 59.904 45.455 9.30 0.00 45.88 1.40
32 33 1.666700 CGGTGAAATCCGGCGAAATAA 59.333 47.619 9.30 0.00 45.88 1.40
33 34 1.292061 CGGTGAAATCCGGCGAAATA 58.708 50.000 9.30 0.00 45.88 1.40
34 35 2.094904 CGGTGAAATCCGGCGAAAT 58.905 52.632 9.30 0.00 45.88 2.17
35 36 3.568686 CGGTGAAATCCGGCGAAA 58.431 55.556 9.30 0.00 45.88 3.46
42 43 1.954927 GGAGTCATCCGGTGAAATCC 58.045 55.000 16.58 16.58 38.90 3.01
52 53 1.573108 TGGTCTCTTGGGAGTCATCC 58.427 55.000 0.00 0.00 45.85 3.51
53 54 2.569404 AGTTGGTCTCTTGGGAGTCATC 59.431 50.000 0.00 0.00 40.29 2.92
54 55 2.625639 AGTTGGTCTCTTGGGAGTCAT 58.374 47.619 0.00 0.00 40.29 3.06
55 56 2.103153 AGTTGGTCTCTTGGGAGTCA 57.897 50.000 0.00 0.00 40.29 3.41
56 57 3.493767 AAAGTTGGTCTCTTGGGAGTC 57.506 47.619 0.00 0.00 40.29 3.36
57 58 3.953542 AAAAGTTGGTCTCTTGGGAGT 57.046 42.857 0.00 0.00 40.29 3.85
75 76 2.448453 AGAACACCACCGAACCAAAAA 58.552 42.857 0.00 0.00 0.00 1.94
76 77 2.131776 AGAACACCACCGAACCAAAA 57.868 45.000 0.00 0.00 0.00 2.44
77 78 1.746220 CAAGAACACCACCGAACCAAA 59.254 47.619 0.00 0.00 0.00 3.28
78 79 1.384525 CAAGAACACCACCGAACCAA 58.615 50.000 0.00 0.00 0.00 3.67
79 80 0.464735 CCAAGAACACCACCGAACCA 60.465 55.000 0.00 0.00 0.00 3.67
80 81 1.170290 CCCAAGAACACCACCGAACC 61.170 60.000 0.00 0.00 0.00 3.62
81 82 1.170290 CCCCAAGAACACCACCGAAC 61.170 60.000 0.00 0.00 0.00 3.95
82 83 1.149627 CCCCAAGAACACCACCGAA 59.850 57.895 0.00 0.00 0.00 4.30
83 84 2.073716 ACCCCAAGAACACCACCGA 61.074 57.895 0.00 0.00 0.00 4.69
84 85 1.896660 CACCCCAAGAACACCACCG 60.897 63.158 0.00 0.00 0.00 4.94
85 86 2.200337 GCACCCCAAGAACACCACC 61.200 63.158 0.00 0.00 0.00 4.61
86 87 2.200337 GGCACCCCAAGAACACCAC 61.200 63.158 0.00 0.00 0.00 4.16
87 88 2.197324 GGCACCCCAAGAACACCA 59.803 61.111 0.00 0.00 0.00 4.17
88 89 1.456705 TTGGCACCCCAAGAACACC 60.457 57.895 0.00 0.00 46.01 4.16
89 90 4.268720 TTGGCACCCCAAGAACAC 57.731 55.556 0.00 0.00 46.01 3.32
103 104 4.473520 AGCATCTCCGGCCGTTGG 62.474 66.667 26.12 13.50 0.00 3.77
104 105 2.892425 GAGCATCTCCGGCCGTTG 60.892 66.667 26.12 16.29 0.00 4.10
115 116 6.747125 TGAGAAGATCTGTCATTAGAGCATC 58.253 40.000 0.00 0.00 35.62 3.91
116 117 6.728089 TGAGAAGATCTGTCATTAGAGCAT 57.272 37.500 0.00 0.00 35.62 3.79
117 118 6.336566 GTTGAGAAGATCTGTCATTAGAGCA 58.663 40.000 8.49 0.00 35.62 4.26
118 119 5.458452 CGTTGAGAAGATCTGTCATTAGAGC 59.542 44.000 8.49 0.00 33.42 4.09
119 120 6.790282 TCGTTGAGAAGATCTGTCATTAGAG 58.210 40.000 8.49 1.45 0.00 2.43
120 121 6.759497 TCGTTGAGAAGATCTGTCATTAGA 57.241 37.500 8.49 6.42 0.00 2.10
121 122 6.420306 CCATCGTTGAGAAGATCTGTCATTAG 59.580 42.308 8.49 4.66 0.00 1.73
122 123 6.276091 CCATCGTTGAGAAGATCTGTCATTA 58.724 40.000 8.49 0.14 0.00 1.90
123 124 5.114780 CCATCGTTGAGAAGATCTGTCATT 58.885 41.667 8.49 0.00 0.00 2.57
124 125 4.442612 CCCATCGTTGAGAAGATCTGTCAT 60.443 45.833 8.49 0.00 0.00 3.06
125 126 3.118992 CCCATCGTTGAGAAGATCTGTCA 60.119 47.826 0.00 0.00 0.00 3.58
126 127 3.131223 TCCCATCGTTGAGAAGATCTGTC 59.869 47.826 0.00 0.00 0.00 3.51
127 128 3.099905 TCCCATCGTTGAGAAGATCTGT 58.900 45.455 0.00 0.00 0.00 3.41
128 129 3.131933 ACTCCCATCGTTGAGAAGATCTG 59.868 47.826 0.00 0.00 32.84 2.90
129 130 3.131933 CACTCCCATCGTTGAGAAGATCT 59.868 47.826 0.00 0.00 32.84 2.75
130 131 3.452474 CACTCCCATCGTTGAGAAGATC 58.548 50.000 0.00 0.00 32.84 2.75
131 132 2.419297 GCACTCCCATCGTTGAGAAGAT 60.419 50.000 0.00 0.00 32.84 2.40
132 133 1.066858 GCACTCCCATCGTTGAGAAGA 60.067 52.381 0.00 0.00 32.84 2.87
133 134 1.363744 GCACTCCCATCGTTGAGAAG 58.636 55.000 0.00 0.00 32.84 2.85
134 135 0.036388 GGCACTCCCATCGTTGAGAA 60.036 55.000 0.00 0.00 32.84 2.87
135 136 1.596934 GGCACTCCCATCGTTGAGA 59.403 57.895 0.00 0.00 32.84 3.27
136 137 1.811266 CGGCACTCCCATCGTTGAG 60.811 63.158 0.00 0.00 34.73 3.02
137 138 2.264480 CGGCACTCCCATCGTTGA 59.736 61.111 0.00 0.00 0.00 3.18
138 139 2.819595 CCGGCACTCCCATCGTTG 60.820 66.667 0.00 0.00 0.00 4.10
139 140 3.000819 TCCGGCACTCCCATCGTT 61.001 61.111 0.00 0.00 0.00 3.85
140 141 3.461773 CTCCGGCACTCCCATCGT 61.462 66.667 0.00 0.00 0.00 3.73
141 142 4.227134 CCTCCGGCACTCCCATCG 62.227 72.222 0.00 0.00 0.00 3.84
142 143 2.764128 TCCTCCGGCACTCCCATC 60.764 66.667 0.00 0.00 0.00 3.51
143 144 2.765807 CTCCTCCGGCACTCCCAT 60.766 66.667 0.00 0.00 0.00 4.00
144 145 2.449967 TAACTCCTCCGGCACTCCCA 62.450 60.000 0.00 0.00 0.00 4.37
145 146 1.049289 ATAACTCCTCCGGCACTCCC 61.049 60.000 0.00 0.00 0.00 4.30
146 147 0.105039 CATAACTCCTCCGGCACTCC 59.895 60.000 0.00 0.00 0.00 3.85
147 148 0.824759 ACATAACTCCTCCGGCACTC 59.175 55.000 0.00 0.00 0.00 3.51
148 149 2.154567 TACATAACTCCTCCGGCACT 57.845 50.000 0.00 0.00 0.00 4.40
149 150 2.548067 CCATACATAACTCCTCCGGCAC 60.548 54.545 0.00 0.00 0.00 5.01
150 151 1.691976 CCATACATAACTCCTCCGGCA 59.308 52.381 0.00 0.00 0.00 5.69
151 152 1.002087 CCCATACATAACTCCTCCGGC 59.998 57.143 0.00 0.00 0.00 6.13
152 153 1.002087 GCCCATACATAACTCCTCCGG 59.998 57.143 0.00 0.00 0.00 5.14
153 154 1.336887 CGCCCATACATAACTCCTCCG 60.337 57.143 0.00 0.00 0.00 4.63
154 155 1.002087 CCGCCCATACATAACTCCTCC 59.998 57.143 0.00 0.00 0.00 4.30
155 156 1.692519 ACCGCCCATACATAACTCCTC 59.307 52.381 0.00 0.00 0.00 3.71
156 157 1.416401 CACCGCCCATACATAACTCCT 59.584 52.381 0.00 0.00 0.00 3.69
157 158 1.140252 ACACCGCCCATACATAACTCC 59.860 52.381 0.00 0.00 0.00 3.85
158 159 2.159014 TCACACCGCCCATACATAACTC 60.159 50.000 0.00 0.00 0.00 3.01
159 160 1.834896 TCACACCGCCCATACATAACT 59.165 47.619 0.00 0.00 0.00 2.24
160 161 2.319136 TCACACCGCCCATACATAAC 57.681 50.000 0.00 0.00 0.00 1.89
161 162 4.504165 CCTTATCACACCGCCCATACATAA 60.504 45.833 0.00 0.00 0.00 1.90
162 163 3.007506 CCTTATCACACCGCCCATACATA 59.992 47.826 0.00 0.00 0.00 2.29
163 164 2.224523 CCTTATCACACCGCCCATACAT 60.225 50.000 0.00 0.00 0.00 2.29
164 165 1.140052 CCTTATCACACCGCCCATACA 59.860 52.381 0.00 0.00 0.00 2.29
165 166 1.140252 ACCTTATCACACCGCCCATAC 59.860 52.381 0.00 0.00 0.00 2.39
166 167 1.502690 ACCTTATCACACCGCCCATA 58.497 50.000 0.00 0.00 0.00 2.74
167 168 0.623723 AACCTTATCACACCGCCCAT 59.376 50.000 0.00 0.00 0.00 4.00
168 169 0.402504 AAACCTTATCACACCGCCCA 59.597 50.000 0.00 0.00 0.00 5.36
169 170 1.092348 GAAACCTTATCACACCGCCC 58.908 55.000 0.00 0.00 0.00 6.13
170 171 2.109425 AGAAACCTTATCACACCGCC 57.891 50.000 0.00 0.00 0.00 6.13
171 172 3.858247 ACTAGAAACCTTATCACACCGC 58.142 45.455 0.00 0.00 0.00 5.68
172 173 6.446781 TCTACTAGAAACCTTATCACACCG 57.553 41.667 0.00 0.00 0.00 4.94
173 174 6.702282 GCATCTACTAGAAACCTTATCACACC 59.298 42.308 0.00 0.00 0.00 4.16
174 175 7.436673 CAGCATCTACTAGAAACCTTATCACAC 59.563 40.741 0.00 0.00 0.00 3.82
175 176 7.417911 CCAGCATCTACTAGAAACCTTATCACA 60.418 40.741 0.00 0.00 0.00 3.58
176 177 6.926272 CCAGCATCTACTAGAAACCTTATCAC 59.074 42.308 0.00 0.00 0.00 3.06
177 178 6.042093 CCCAGCATCTACTAGAAACCTTATCA 59.958 42.308 0.00 0.00 0.00 2.15
178 179 6.267928 TCCCAGCATCTACTAGAAACCTTATC 59.732 42.308 0.00 0.00 0.00 1.75
179 180 6.143915 TCCCAGCATCTACTAGAAACCTTAT 58.856 40.000 0.00 0.00 0.00 1.73
180 181 5.525484 TCCCAGCATCTACTAGAAACCTTA 58.475 41.667 0.00 0.00 0.00 2.69
181 182 4.362677 TCCCAGCATCTACTAGAAACCTT 58.637 43.478 0.00 0.00 0.00 3.50
182 183 3.995636 TCCCAGCATCTACTAGAAACCT 58.004 45.455 0.00 0.00 0.00 3.50
183 184 4.636249 CATCCCAGCATCTACTAGAAACC 58.364 47.826 0.00 0.00 0.00 3.27
184 185 4.061596 GCATCCCAGCATCTACTAGAAAC 58.938 47.826 0.00 0.00 0.00 2.78
185 186 3.711190 TGCATCCCAGCATCTACTAGAAA 59.289 43.478 0.00 0.00 40.11 2.52
186 187 3.308401 TGCATCCCAGCATCTACTAGAA 58.692 45.455 0.00 0.00 40.11 2.10
187 188 2.962859 TGCATCCCAGCATCTACTAGA 58.037 47.619 0.00 0.00 40.11 2.43
197 198 1.826921 CAGTCCCATGCATCCCAGC 60.827 63.158 0.00 0.00 0.00 4.85
198 199 0.179026 CTCAGTCCCATGCATCCCAG 60.179 60.000 0.00 0.00 0.00 4.45
199 200 0.621280 TCTCAGTCCCATGCATCCCA 60.621 55.000 0.00 0.00 0.00 4.37
200 201 0.769873 ATCTCAGTCCCATGCATCCC 59.230 55.000 0.00 0.00 0.00 3.85
201 202 1.271271 GGATCTCAGTCCCATGCATCC 60.271 57.143 0.00 0.00 31.82 3.51
202 203 1.419012 TGGATCTCAGTCCCATGCATC 59.581 52.381 0.00 0.00 37.48 3.91
203 204 1.420514 CTGGATCTCAGTCCCATGCAT 59.579 52.381 0.00 0.00 38.64 3.96
204 205 0.835276 CTGGATCTCAGTCCCATGCA 59.165 55.000 0.00 0.00 38.64 3.96
205 206 3.702147 CTGGATCTCAGTCCCATGC 57.298 57.895 0.00 0.00 38.64 4.06
403 404 4.706476 ACTTGATATTAAAAGGCTGCAGCA 59.294 37.500 37.63 18.61 44.36 4.41
666 667 1.471287 TCCTACGGTTCAGATCACACG 59.529 52.381 0.00 0.00 0.00 4.49
688 689 5.490357 CCCTACTAATCTCCATCCAATCCAT 59.510 44.000 0.00 0.00 0.00 3.41
786 788 2.415090 GCGGTCTGACACGTACTATGTT 60.415 50.000 10.38 0.00 0.00 2.71
868 882 4.854361 TCGTAGTACGAGCTACAGAAAG 57.146 45.455 21.10 0.00 46.73 2.62
1011 1038 3.940975 GACGATGACGACGTGCGGT 62.941 63.158 4.58 0.00 46.49 5.68
1087 1114 2.672996 GGTGAAGCCGTGGTGCAT 60.673 61.111 0.00 0.00 0.00 3.96
1233 1260 0.684535 TGAGGATGCGAGTCACCAAA 59.315 50.000 0.00 0.00 0.00 3.28
1320 1347 1.012086 CGGTCATGAAGGCAGTGATG 58.988 55.000 0.00 0.00 0.00 3.07
1341 1368 4.221422 GCCGCGGGACAGAGCATA 62.221 66.667 29.38 0.00 0.00 3.14
1455 1482 1.374758 CTCGCAAGTGGTGGTCCTC 60.375 63.158 0.00 0.00 39.48 3.71
1758 1786 2.034879 CCACCGTAAGCAGCTGTGG 61.035 63.158 16.64 13.73 40.39 4.17
1792 1820 1.198408 CACGTACAAGACTGAGCCGTA 59.802 52.381 0.00 0.00 0.00 4.02
1800 1828 2.701073 CGAAGGACACGTACAAGACT 57.299 50.000 0.00 0.00 0.00 3.24
1932 1960 2.671619 GTGCCAAGGTAAGCCGCA 60.672 61.111 0.00 0.00 40.50 5.69
2130 2168 3.353029 CACGCAACCATCGGCACA 61.353 61.111 0.00 0.00 0.00 4.57
2232 2270 0.320374 CAACCGCTCTGTCCTTACCA 59.680 55.000 0.00 0.00 0.00 3.25
2394 2432 0.405585 AAACCATGCCAGCCACTACT 59.594 50.000 0.00 0.00 0.00 2.57
2415 2453 0.449388 CTTGGCTCTTCCGATGCAAC 59.551 55.000 0.00 0.00 37.80 4.17
2433 2471 2.107366 GAGCCTCCTCTTTACTCAGCT 58.893 52.381 0.00 0.00 35.16 4.24
2458 2496 6.093219 CCACCATGTCTCTTATTCAGTTCTTG 59.907 42.308 0.00 0.00 0.00 3.02
2635 2696 5.008331 ACAAAGCATGTTCAGTCATCTCAT 58.992 37.500 0.00 0.00 40.06 2.90
2640 2701 3.551454 GCACACAAAGCATGTTCAGTCAT 60.551 43.478 0.00 0.00 41.46 3.06
2644 2705 1.401530 CGCACACAAAGCATGTTCAG 58.598 50.000 0.00 0.00 41.46 3.02
2646 2707 0.310543 TCCGCACACAAAGCATGTTC 59.689 50.000 0.00 0.00 41.46 3.18
2667 2728 4.323792 CCAACACTACTGATCCCAATCTGT 60.324 45.833 0.00 3.88 43.83 3.41
2668 2729 4.080919 TCCAACACTACTGATCCCAATCTG 60.081 45.833 0.00 0.00 37.01 2.90
2765 2826 4.411927 TGGCACCAAATATACCAACAAGT 58.588 39.130 0.00 0.00 0.00 3.16
3065 3134 0.988832 TTATGAACCGACAGGGCCTT 59.011 50.000 1.32 0.00 43.47 4.35
3119 3188 8.772705 CAAAGAGTCTGATTCTATAGCCAAATC 58.227 37.037 2.92 0.59 0.00 2.17
3182 3251 0.889186 CATTATGCGTAGGGGGCCAC 60.889 60.000 4.39 0.00 0.00 5.01
3367 3456 2.029970 CGTGGCGCTTTATTACGATGTT 59.970 45.455 7.64 0.00 36.94 2.71
3411 3505 7.836183 AGTAATTGTAAAATTGCTCCCATCTCT 59.164 33.333 3.31 0.00 30.91 3.10
3412 3506 8.000780 AGTAATTGTAAAATTGCTCCCATCTC 57.999 34.615 3.31 0.00 30.91 2.75
3413 3507 7.836183 AGAGTAATTGTAAAATTGCTCCCATCT 59.164 33.333 24.73 9.90 46.36 2.90


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

AutoCloner maintained by Alex Coulton.