Multiple sequence alignment - TraesCS3A01G185900

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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 TraesCS3A01G185900 chr3A 100.000 3842 0 0 1 3842 218727270 218731111 0.000000e+00 7095.0
1 TraesCS3A01G185900 chr3A 87.500 104 13 0 2163 2266 113922179 113922076 1.870000e-23 121.0
2 TraesCS3A01G185900 chr3D 92.104 2229 99 27 1648 3842 177778526 177780711 0.000000e+00 3070.0
3 TraesCS3A01G185900 chr3D 91.975 1134 38 25 541 1650 177777392 177778496 0.000000e+00 1541.0
4 TraesCS3A01G185900 chr3D 89.971 349 23 4 119 462 177777023 177777364 1.270000e-119 440.0
5 TraesCS3A01G185900 chr3D 94.915 118 6 0 3725 3842 359745550 359745667 6.550000e-43 185.0
6 TraesCS3A01G185900 chr3D 94.915 118 4 2 3725 3842 337317647 337317532 2.360000e-42 183.0
7 TraesCS3A01G185900 chr3D 94.167 120 5 2 3723 3842 325461162 325461279 8.480000e-42 182.0
8 TraesCS3A01G185900 chr3D 95.506 89 4 0 1405 1493 476327007 476326919 4.000000e-30 143.0
9 TraesCS3A01G185900 chr3D 87.288 118 11 2 1 118 234597769 234597882 8.660000e-27 132.0
10 TraesCS3A01G185900 chr3B 93.445 1495 33 24 1648 3133 256434128 256435566 0.000000e+00 2158.0
11 TraesCS3A01G185900 chr3B 92.651 694 20 8 961 1650 256433423 256434089 0.000000e+00 970.0
12 TraesCS3A01G185900 chr3B 89.086 788 41 17 156 934 256432289 256433040 0.000000e+00 937.0
13 TraesCS3A01G185900 chr3B 87.179 624 57 7 3131 3735 256450336 256450955 0.000000e+00 688.0
14 TraesCS3A01G185900 chr7A 98.305 118 2 0 1 118 485743125 485743242 1.400000e-49 207.0
15 TraesCS3A01G185900 chr7A 84.956 113 14 3 2155 2266 57864458 57864568 1.130000e-20 111.0
16 TraesCS3A01G185900 chr1A 94.872 117 6 0 3726 3842 288945368 288945484 2.360000e-42 183.0
17 TraesCS3A01G185900 chr1A 81.159 138 17 8 2132 2263 60955867 60955733 6.790000e-18 102.0
18 TraesCS3A01G185900 chr1A 92.105 38 3 0 1235 1272 359981297 359981260 2.000000e-03 54.7
19 TraesCS3A01G185900 chr7D 95.575 113 5 0 3730 3842 288603953 288603841 8.480000e-42 182.0
20 TraesCS3A01G185900 chr7D 92.248 129 8 2 3714 3842 378299257 378299131 8.480000e-42 182.0
21 TraesCS3A01G185900 chr2D 94.118 119 7 0 3724 3842 377838037 377837919 8.480000e-42 182.0
22 TraesCS3A01G185900 chr2D 80.380 158 25 5 2113 2266 95645089 95645244 8.720000e-22 115.0
23 TraesCS3A01G185900 chr2D 89.552 67 7 0 2400 2466 209025376 209025310 6.840000e-13 86.1
24 TraesCS3A01G185900 chr2D 89.831 59 4 2 2413 2470 560992417 560992474 1.480000e-09 75.0
25 TraesCS3A01G185900 chr2D 94.444 36 2 0 1231 1266 59627177 59627212 5.360000e-04 56.5
26 TraesCS3A01G185900 chr6D 90.580 138 9 4 3706 3842 199585088 199585222 3.050000e-41 180.0
27 TraesCS3A01G185900 chr1B 92.800 125 5 3 3718 3842 289331194 289331074 1.100000e-40 178.0
28 TraesCS3A01G185900 chr1B 94.444 36 2 0 1231 1266 389942941 389942976 5.360000e-04 56.5
29 TraesCS3A01G185900 chr2B 93.277 119 8 0 1 119 655523968 655523850 3.940000e-40 176.0
30 TraesCS3A01G185900 chr2B 88.060 134 3 4 1 122 731716562 731716430 3.090000e-31 147.0
31 TraesCS3A01G185900 chr2B 79.470 151 25 5 2120 2266 146992885 146993033 6.790000e-18 102.0
32 TraesCS3A01G185900 chr2B 92.727 55 4 0 2412 2466 263812031 263811977 3.180000e-11 80.5
33 TraesCS3A01G185900 chr2B 90.909 55 3 2 2417 2470 669649392 669649445 5.320000e-09 73.1
34 TraesCS3A01G185900 chr2B 94.444 36 2 0 1231 1266 92995616 92995651 5.360000e-04 56.5
35 TraesCS3A01G185900 chrUn 84.956 113 14 3 2155 2266 49140042 49140152 1.130000e-20 111.0
36 TraesCS3A01G185900 chrUn 84.071 113 15 3 2155 2266 49113203 49113313 5.250000e-19 106.0
37 TraesCS3A01G185900 chr2A 92.727 55 4 0 2412 2466 262118020 262117966 3.180000e-11 80.5
38 TraesCS3A01G185900 chr2A 92.453 53 4 0 2419 2471 768627141 768627193 4.120000e-10 76.8
39 TraesCS3A01G185900 chr2A 89.831 59 4 2 2413 2470 700976373 700976430 1.480000e-09 75.0
40 TraesCS3A01G185900 chr2A 94.286 35 2 0 1232 1266 58824670 58824704 2.000000e-03 54.7
41 TraesCS3A01G185900 chr1D 90.476 42 2 1 1225 1266 288539996 288540035 2.000000e-03 54.7


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 TraesCS3A01G185900 chr3A 218727270 218731111 3841 False 7095.000000 7095 100.000000 1 3842 1 chr3A.!!$F1 3841
1 TraesCS3A01G185900 chr3D 177777023 177780711 3688 False 1683.666667 3070 91.350000 119 3842 3 chr3D.!!$F4 3723
2 TraesCS3A01G185900 chr3B 256432289 256435566 3277 False 1355.000000 2158 91.727333 156 3133 3 chr3B.!!$F2 2977
3 TraesCS3A01G185900 chr3B 256450336 256450955 619 False 688.000000 688 87.179000 3131 3735 1 chr3B.!!$F1 604

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
107 108 0.035458 CCCTATGTCCGAATCCTGGC 59.965 60.0 0.0 0.0 0.00 4.85 F
722 762 0.110486 TGTTTGCTTGTCCCTCCTCC 59.890 55.0 0.0 0.0 0.00 4.30 F
1284 1691 0.178958 AGGTCAGTCACTTCCCGACT 60.179 55.0 0.0 0.0 44.55 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 2230 0.103937 TTGTTTTCTTGCTTGGCCCG 59.896 50.0 0.0 0.0 0.00 6.13 R
2562 3020 1.234615 ACGTGGAAGCGGGATTGTTG 61.235 55.0 0.0 0.0 35.98 3.33 R
3058 3516 0.037790 AGCAGAGAGAAGTGCCGAAC 60.038 55.0 0.0 0.0 40.81 3.95 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
26 27 8.806429 TCATTCTAGCTTATGTCCAAAAATCA 57.194 30.769 0.00 0.00 0.00 2.57
27 28 8.677300 TCATTCTAGCTTATGTCCAAAAATCAC 58.323 33.333 0.00 0.00 0.00 3.06
28 29 8.680903 CATTCTAGCTTATGTCCAAAAATCACT 58.319 33.333 0.00 0.00 0.00 3.41
29 30 7.615582 TCTAGCTTATGTCCAAAAATCACTG 57.384 36.000 0.00 0.00 0.00 3.66
30 31 7.168219 TCTAGCTTATGTCCAAAAATCACTGT 58.832 34.615 0.00 0.00 0.00 3.55
31 32 8.318412 TCTAGCTTATGTCCAAAAATCACTGTA 58.682 33.333 0.00 0.00 0.00 2.74
32 33 7.145932 AGCTTATGTCCAAAAATCACTGTAC 57.854 36.000 0.00 0.00 0.00 2.90
33 34 6.942576 AGCTTATGTCCAAAAATCACTGTACT 59.057 34.615 0.00 0.00 0.00 2.73
34 35 7.119846 AGCTTATGTCCAAAAATCACTGTACTC 59.880 37.037 0.00 0.00 0.00 2.59
35 36 5.862924 ATGTCCAAAAATCACTGTACTCG 57.137 39.130 0.00 0.00 0.00 4.18
36 37 4.062293 TGTCCAAAAATCACTGTACTCGG 58.938 43.478 0.00 0.00 0.00 4.63
37 38 3.071479 TCCAAAAATCACTGTACTCGGC 58.929 45.455 0.00 0.00 0.00 5.54
38 39 2.811431 CCAAAAATCACTGTACTCGGCA 59.189 45.455 0.00 0.00 0.00 5.69
39 40 3.120199 CCAAAAATCACTGTACTCGGCAG 60.120 47.826 0.00 0.00 39.67 4.85
40 41 3.678056 AAAATCACTGTACTCGGCAGA 57.322 42.857 0.00 0.00 37.40 4.26
41 42 2.656560 AATCACTGTACTCGGCAGAC 57.343 50.000 0.00 0.00 37.40 3.51
42 43 1.840737 ATCACTGTACTCGGCAGACT 58.159 50.000 0.00 0.00 37.40 3.24
43 44 2.484742 TCACTGTACTCGGCAGACTA 57.515 50.000 0.00 0.00 37.40 2.59
44 45 3.000684 TCACTGTACTCGGCAGACTAT 57.999 47.619 0.00 0.00 37.40 2.12
45 46 2.683362 TCACTGTACTCGGCAGACTATG 59.317 50.000 0.00 0.00 37.40 2.23
46 47 2.423892 CACTGTACTCGGCAGACTATGT 59.576 50.000 0.00 0.00 37.40 2.29
47 48 3.626217 CACTGTACTCGGCAGACTATGTA 59.374 47.826 0.00 0.00 37.40 2.29
48 49 4.276183 CACTGTACTCGGCAGACTATGTAT 59.724 45.833 0.00 0.00 37.40 2.29
49 50 5.469084 CACTGTACTCGGCAGACTATGTATA 59.531 44.000 0.00 0.00 37.40 1.47
50 51 6.149640 CACTGTACTCGGCAGACTATGTATAT 59.850 42.308 0.00 0.00 37.40 0.86
51 52 6.715718 ACTGTACTCGGCAGACTATGTATATT 59.284 38.462 0.00 0.00 37.40 1.28
52 53 7.881751 ACTGTACTCGGCAGACTATGTATATTA 59.118 37.037 0.00 0.00 37.40 0.98
53 54 8.803397 TGTACTCGGCAGACTATGTATATTAT 57.197 34.615 0.00 0.00 0.00 1.28
54 55 8.890718 TGTACTCGGCAGACTATGTATATTATC 58.109 37.037 0.00 0.00 0.00 1.75
55 56 9.111613 GTACTCGGCAGACTATGTATATTATCT 57.888 37.037 0.00 0.00 0.00 1.98
57 58 9.332502 ACTCGGCAGACTATGTATATTATCTAG 57.667 37.037 0.00 0.00 0.00 2.43
58 59 9.549078 CTCGGCAGACTATGTATATTATCTAGA 57.451 37.037 0.00 0.00 0.00 2.43
59 60 9.901172 TCGGCAGACTATGTATATTATCTAGAA 57.099 33.333 0.00 0.00 0.00 2.10
83 84 9.299963 GAATAATCTATCATCATGTCTCCTTCG 57.700 37.037 0.00 0.00 0.00 3.79
84 85 4.511617 TCTATCATCATGTCTCCTTCGC 57.488 45.455 0.00 0.00 0.00 4.70
85 86 2.540265 ATCATCATGTCTCCTTCGCC 57.460 50.000 0.00 0.00 0.00 5.54
86 87 0.465705 TCATCATGTCTCCTTCGCCC 59.534 55.000 0.00 0.00 0.00 6.13
87 88 0.533755 CATCATGTCTCCTTCGCCCC 60.534 60.000 0.00 0.00 0.00 5.80
88 89 1.700042 ATCATGTCTCCTTCGCCCCC 61.700 60.000 0.00 0.00 0.00 5.40
104 105 3.165657 CCCCCTATGTCCGAATCCT 57.834 57.895 0.00 0.00 0.00 3.24
105 106 0.687354 CCCCCTATGTCCGAATCCTG 59.313 60.000 0.00 0.00 0.00 3.86
106 107 0.687354 CCCCTATGTCCGAATCCTGG 59.313 60.000 0.00 0.00 0.00 4.45
107 108 0.035458 CCCTATGTCCGAATCCTGGC 59.965 60.000 0.00 0.00 0.00 4.85
108 109 1.051812 CCTATGTCCGAATCCTGGCT 58.948 55.000 0.00 0.00 0.00 4.75
109 110 1.417890 CCTATGTCCGAATCCTGGCTT 59.582 52.381 0.00 0.00 0.00 4.35
110 111 2.548920 CCTATGTCCGAATCCTGGCTTC 60.549 54.545 0.14 0.14 0.00 3.86
111 112 0.179073 ATGTCCGAATCCTGGCTTCG 60.179 55.000 22.12 22.12 43.82 3.79
112 113 2.174319 GTCCGAATCCTGGCTTCGC 61.174 63.158 23.29 10.08 43.08 4.70
181 186 2.107366 TGTGTGTGAACTGGTCTCTGA 58.893 47.619 0.00 0.00 0.00 3.27
211 216 3.869272 GTTCGCTGCGGCCATGAG 61.869 66.667 23.03 0.00 34.44 2.90
275 280 2.154462 GTCCTCCCATGTCACAACAAG 58.846 52.381 0.00 0.00 39.30 3.16
295 300 1.595993 GCACCTGCTCCTACTCGTGA 61.596 60.000 0.00 0.00 38.21 4.35
304 309 4.276183 TGCTCCTACTCGTGACATTAGATC 59.724 45.833 0.00 0.00 0.00 2.75
335 340 1.206132 TGGCACTAACAATCGACCGAT 59.794 47.619 0.00 0.00 36.23 4.18
337 342 1.859080 GCACTAACAATCGACCGATCC 59.141 52.381 5.32 0.00 33.08 3.36
386 391 3.925913 TGAGTTTGTTTTTGTTCTGCAGC 59.074 39.130 9.47 0.00 0.00 5.25
407 416 2.760650 CGTGCCTATGCCTATCTATCCA 59.239 50.000 0.00 0.00 36.33 3.41
408 417 3.386078 CGTGCCTATGCCTATCTATCCAT 59.614 47.826 0.00 0.00 36.33 3.41
409 418 4.500545 CGTGCCTATGCCTATCTATCCATC 60.501 50.000 0.00 0.00 36.33 3.51
410 419 4.653341 GTGCCTATGCCTATCTATCCATCT 59.347 45.833 0.00 0.00 36.33 2.90
486 515 3.186205 GTGGAAATGGAATGGTTTTTGCG 59.814 43.478 0.00 0.00 0.00 4.85
563 592 1.809619 CGAATCGTGGCGTGATGGT 60.810 57.895 0.00 0.00 0.00 3.55
564 593 1.752501 CGAATCGTGGCGTGATGGTC 61.753 60.000 0.00 0.00 0.00 4.02
594 629 2.103094 CCACCGATATGGACACATCACT 59.897 50.000 0.00 0.00 43.02 3.41
686 721 0.306840 TAACTAGCATCCGACGAGCG 59.693 55.000 0.00 0.00 40.47 5.03
713 753 1.308998 CGACCTCCTTGTTTGCTTGT 58.691 50.000 0.00 0.00 0.00 3.16
714 754 1.264288 CGACCTCCTTGTTTGCTTGTC 59.736 52.381 0.00 0.00 0.00 3.18
715 755 1.609072 GACCTCCTTGTTTGCTTGTCC 59.391 52.381 0.00 0.00 0.00 4.02
716 756 0.961753 CCTCCTTGTTTGCTTGTCCC 59.038 55.000 0.00 0.00 0.00 4.46
720 760 1.479389 CCTTGTTTGCTTGTCCCTCCT 60.479 52.381 0.00 0.00 0.00 3.69
721 761 1.882623 CTTGTTTGCTTGTCCCTCCTC 59.117 52.381 0.00 0.00 0.00 3.71
722 762 0.110486 TGTTTGCTTGTCCCTCCTCC 59.890 55.000 0.00 0.00 0.00 4.30
723 763 0.609406 GTTTGCTTGTCCCTCCTCCC 60.609 60.000 0.00 0.00 0.00 4.30
724 764 1.789576 TTTGCTTGTCCCTCCTCCCC 61.790 60.000 0.00 0.00 0.00 4.81
725 765 2.285743 GCTTGTCCCTCCTCCCCT 60.286 66.667 0.00 0.00 0.00 4.79
726 766 2.371259 GCTTGTCCCTCCTCCCCTC 61.371 68.421 0.00 0.00 0.00 4.30
727 767 1.690985 CTTGTCCCTCCTCCCCTCC 60.691 68.421 0.00 0.00 0.00 4.30
866 906 2.290641 GACACTGTCATCACCAAACACC 59.709 50.000 4.17 0.00 32.09 4.16
888 928 3.569250 ACACAAACACAGACACAAACC 57.431 42.857 0.00 0.00 0.00 3.27
942 999 4.608269 TCCATCTCTGTCTCAAGATCAGT 58.392 43.478 0.00 0.00 29.77 3.41
983 1386 5.523588 AGAAGAGAGAGAGAGAGAGAGAGA 58.476 45.833 0.00 0.00 0.00 3.10
986 1389 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
989 1392 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
990 1393 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1275 1682 1.140816 GCTTCGTCAAGGTCAGTCAC 58.859 55.000 0.00 0.00 0.00 3.67
1280 1687 1.605712 CGTCAAGGTCAGTCACTTCCC 60.606 57.143 0.00 0.00 0.00 3.97
1283 1690 0.680061 AAGGTCAGTCACTTCCCGAC 59.320 55.000 0.00 0.00 0.00 4.79
1284 1691 0.178958 AGGTCAGTCACTTCCCGACT 60.179 55.000 0.00 0.00 44.55 4.18
1285 1692 0.680061 GGTCAGTCACTTCCCGACTT 59.320 55.000 0.00 0.00 41.80 3.01
1286 1693 1.336980 GGTCAGTCACTTCCCGACTTC 60.337 57.143 0.00 0.00 41.80 3.01
1287 1694 0.966920 TCAGTCACTTCCCGACTTCC 59.033 55.000 0.00 0.00 41.80 3.46
1288 1695 0.969894 CAGTCACTTCCCGACTTCCT 59.030 55.000 0.00 0.00 41.80 3.36
1289 1696 1.344763 CAGTCACTTCCCGACTTCCTT 59.655 52.381 0.00 0.00 41.80 3.36
1290 1697 1.619332 AGTCACTTCCCGACTTCCTTC 59.381 52.381 0.00 0.00 40.89 3.46
1291 1698 0.974383 TCACTTCCCGACTTCCTTCC 59.026 55.000 0.00 0.00 0.00 3.46
1292 1699 0.977395 CACTTCCCGACTTCCTTCCT 59.023 55.000 0.00 0.00 0.00 3.36
1293 1700 1.348036 CACTTCCCGACTTCCTTCCTT 59.652 52.381 0.00 0.00 0.00 3.36
1294 1701 1.624312 ACTTCCCGACTTCCTTCCTTC 59.376 52.381 0.00 0.00 0.00 3.46
1295 1702 0.981943 TTCCCGACTTCCTTCCTTCC 59.018 55.000 0.00 0.00 0.00 3.46
1318 1725 0.739813 CTTCGTTAACCTCGCCCTGG 60.740 60.000 0.00 0.00 0.00 4.45
1337 1744 1.301293 CCCCACTTCCTCTTCAGCC 59.699 63.158 0.00 0.00 0.00 4.85
1493 1901 5.918608 TCCATTTCTAGCTACTCCATTCAC 58.081 41.667 0.00 0.00 0.00 3.18
1517 1925 0.687354 GAACCAAGAGTCCTGGCTCA 59.313 55.000 7.75 0.00 37.94 4.26
1609 2017 0.538746 ACTGCGGGGGTTTACTTTGG 60.539 55.000 0.00 0.00 0.00 3.28
1674 2123 1.202580 GCTGTGGTGAGAGTGAGTGTT 60.203 52.381 0.00 0.00 0.00 3.32
1680 2136 3.069586 TGGTGAGAGTGAGTGTTACAAGG 59.930 47.826 0.00 0.00 0.00 3.61
1705 2161 6.525355 CAGTTTGACTGTTGATATGTACACG 58.475 40.000 0.00 0.00 41.19 4.49
1706 2162 6.364976 CAGTTTGACTGTTGATATGTACACGA 59.635 38.462 0.00 0.00 41.19 4.35
1707 2163 6.586463 AGTTTGACTGTTGATATGTACACGAG 59.414 38.462 0.00 0.00 0.00 4.18
1708 2164 4.993905 TGACTGTTGATATGTACACGAGG 58.006 43.478 0.00 0.00 0.00 4.63
1709 2165 4.142249 TGACTGTTGATATGTACACGAGGG 60.142 45.833 0.00 0.00 0.00 4.30
1773 2230 3.475774 CGTAGCGACACGGCCAAC 61.476 66.667 2.24 0.00 38.26 3.77
1793 2250 1.472376 CGGGCCAAGCAAGAAAACAAA 60.472 47.619 4.39 0.00 0.00 2.83
1794 2251 2.212652 GGGCCAAGCAAGAAAACAAAG 58.787 47.619 4.39 0.00 0.00 2.77
1798 2255 2.212652 CAAGCAAGAAAACAAAGGGCC 58.787 47.619 0.00 0.00 0.00 5.80
1815 2272 3.898741 AGGGCCAGAAATACTAGACTAGC 59.101 47.826 6.18 0.00 0.00 3.42
1816 2273 3.305471 GGGCCAGAAATACTAGACTAGCG 60.305 52.174 4.39 0.00 0.00 4.26
1817 2274 3.310246 GCCAGAAATACTAGACTAGCGC 58.690 50.000 9.52 0.00 0.00 5.92
2003 2460 2.202597 CCGCGCGCATCCAAATTT 60.203 55.556 32.61 0.00 0.00 1.82
2004 2461 2.223549 CCGCGCGCATCCAAATTTC 61.224 57.895 32.61 0.00 0.00 2.17
2006 2463 1.069924 CGCGCGCATCCAAATTTCAA 61.070 50.000 32.61 0.00 0.00 2.69
2007 2464 1.066914 GCGCGCATCCAAATTTCAAA 58.933 45.000 29.10 0.00 0.00 2.69
2008 2465 1.201801 GCGCGCATCCAAATTTCAAAC 60.202 47.619 29.10 0.00 0.00 2.93
2013 2470 4.152045 GCGCATCCAAATTTCAAACATTCA 59.848 37.500 0.30 0.00 0.00 2.57
2014 2471 5.333952 GCGCATCCAAATTTCAAACATTCAA 60.334 36.000 0.30 0.00 0.00 2.69
2015 2472 6.656945 CGCATCCAAATTTCAAACATTCAAA 58.343 32.000 0.00 0.00 0.00 2.69
2016 2473 7.130917 CGCATCCAAATTTCAAACATTCAAAA 58.869 30.769 0.00 0.00 0.00 2.44
2017 2474 7.321746 CGCATCCAAATTTCAAACATTCAAAAG 59.678 33.333 0.00 0.00 0.00 2.27
2018 2475 8.344098 GCATCCAAATTTCAAACATTCAAAAGA 58.656 29.630 0.00 0.00 0.00 2.52
2040 2497 6.128486 AGAAAATTTCAAACCCCAAAATGCT 58.872 32.000 8.55 0.00 0.00 3.79
2041 2498 7.286313 AGAAAATTTCAAACCCCAAAATGCTA 58.714 30.769 8.55 0.00 0.00 3.49
2042 2499 6.875948 AAATTTCAAACCCCAAAATGCTAC 57.124 33.333 0.00 0.00 0.00 3.58
2043 2500 5.823861 ATTTCAAACCCCAAAATGCTACT 57.176 34.783 0.00 0.00 0.00 2.57
2044 2501 6.926630 ATTTCAAACCCCAAAATGCTACTA 57.073 33.333 0.00 0.00 0.00 1.82
2045 2502 5.715434 TTCAAACCCCAAAATGCTACTAC 57.285 39.130 0.00 0.00 0.00 2.73
2046 2503 4.993028 TCAAACCCCAAAATGCTACTACT 58.007 39.130 0.00 0.00 0.00 2.57
2072 2529 1.677576 TGTGGCTCACAGCTTTTCTTG 59.322 47.619 4.16 0.00 39.62 3.02
2562 3020 2.825836 CTCATGAACGCCTGCCCC 60.826 66.667 0.00 0.00 0.00 5.80
2567 3025 2.909965 GAACGCCTGCCCCAACAA 60.910 61.111 0.00 0.00 0.00 2.83
2775 3233 3.117776 CCATGTCCATGAAGAAGATGGGA 60.118 47.826 8.82 0.00 40.84 4.37
2864 3322 0.107066 TTCATCCATGAGCGCCACAT 60.107 50.000 2.29 7.94 38.19 3.21
2865 3323 0.107066 TCATCCATGAGCGCCACATT 60.107 50.000 13.69 0.00 32.11 2.71
2957 3415 0.751277 TGTGCCCGCCATGATTAAGG 60.751 55.000 0.00 0.00 0.00 2.69
3058 3516 4.524316 TGCAATCAATCAAAGAAGGTGG 57.476 40.909 0.00 0.00 0.00 4.61
3116 3579 4.390297 GTCCAAGTGTCTATTCAGAGCAAC 59.610 45.833 0.00 0.00 0.00 4.17
3184 3647 1.134367 GCTTCGCATTTAAACCCCTCC 59.866 52.381 0.00 0.00 0.00 4.30
3196 3659 2.971901 ACCCCTCCACTTTTTGGTAG 57.028 50.000 0.00 0.00 46.97 3.18
3202 3665 3.420893 CTCCACTTTTTGGTAGATGCCA 58.579 45.455 0.00 0.00 46.97 4.92
3216 3679 9.914834 TTGGTAGATGCCACTTTATTACTTAAT 57.085 29.630 0.00 0.00 38.42 1.40
3217 3680 9.914834 TGGTAGATGCCACTTTATTACTTAATT 57.085 29.630 0.00 0.00 32.81 1.40
3241 3704 0.617820 AAGTGGTACATCCGGCCTCT 60.618 55.000 0.00 0.00 44.52 3.69
3242 3705 1.144057 GTGGTACATCCGGCCTCTG 59.856 63.158 0.00 0.00 44.52 3.35
3243 3706 2.109181 GGTACATCCGGCCTCTGC 59.891 66.667 0.00 0.00 0.00 4.26
3249 3712 0.179048 CATCCGGCCTCTGCATAACA 60.179 55.000 0.00 0.00 40.13 2.41
3261 3724 7.649306 GGCCTCTGCATAACAAAAATAACATAG 59.351 37.037 0.00 0.00 40.13 2.23
3274 3737 5.560966 AATAACATAGCCAAACCAAGTCG 57.439 39.130 0.00 0.00 0.00 4.18
3280 3743 2.863809 AGCCAAACCAAGTCGAGAATT 58.136 42.857 0.00 0.00 0.00 2.17
3389 3855 5.051891 AGGAATTTTGATCAAAGAGCGTG 57.948 39.130 19.64 0.00 0.00 5.34
3430 3896 7.713764 ATAAAGGAATTGCACAAAGTTTGAC 57.286 32.000 22.23 13.38 0.00 3.18
3441 3907 6.183360 TGCACAAAGTTTGACTTGATGAGAAT 60.183 34.615 22.23 0.00 38.66 2.40
3528 3995 6.183360 CCAAATCCTACGAGAATCCTTTCAAC 60.183 42.308 0.00 0.00 34.08 3.18
3605 4073 5.171339 ACCAATGCACTTAGTCAATCTCT 57.829 39.130 0.00 0.00 0.00 3.10
3616 4100 1.410882 GTCAATCTCTTCCTAGCGCCT 59.589 52.381 2.29 0.00 0.00 5.52
3631 4115 1.608717 CGCCTGCTCCTCCTAGTGTT 61.609 60.000 0.00 0.00 0.00 3.32
3672 4156 2.584064 CACCAGCCATAGTCGCCA 59.416 61.111 0.00 0.00 0.00 5.69
3700 4184 2.123428 GGCCTCGGCTTCATTGCAT 61.123 57.895 8.00 0.00 41.60 3.96
3770 4270 1.534729 AGGGGATCGCAACAGTTTTC 58.465 50.000 12.32 0.00 0.00 2.29
3778 4278 1.459592 CGCAACAGTTTTCGAGGGTAG 59.540 52.381 0.00 0.00 0.00 3.18
3811 4311 7.537596 ACCCAAATTTATTGATCTGACACAA 57.462 32.000 0.00 2.51 0.00 3.33
3812 4312 7.961351 ACCCAAATTTATTGATCTGACACAAA 58.039 30.769 0.00 0.00 0.00 2.83
3814 4314 7.546667 CCCAAATTTATTGATCTGACACAAAGG 59.453 37.037 0.00 0.00 0.00 3.11
3823 4323 1.610522 CTGACACAAAGGGAGCCAAAG 59.389 52.381 0.00 0.00 0.00 2.77
3834 4334 3.199946 AGGGAGCCAAAGAATATTCACGA 59.800 43.478 17.56 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.241919 TGATTTTTGGACATAAGCTAGAATGAA 57.758 29.630 9.83 0.00 0.00 2.57
1 2 8.677300 GTGATTTTTGGACATAAGCTAGAATGA 58.323 33.333 9.83 0.00 0.00 2.57
2 3 8.680903 AGTGATTTTTGGACATAAGCTAGAATG 58.319 33.333 0.00 0.00 0.00 2.67
3 4 8.680903 CAGTGATTTTTGGACATAAGCTAGAAT 58.319 33.333 0.00 0.00 0.00 2.40
4 5 7.665559 ACAGTGATTTTTGGACATAAGCTAGAA 59.334 33.333 0.00 0.00 0.00 2.10
5 6 7.168219 ACAGTGATTTTTGGACATAAGCTAGA 58.832 34.615 0.00 0.00 0.00 2.43
6 7 7.383102 ACAGTGATTTTTGGACATAAGCTAG 57.617 36.000 0.00 0.00 0.00 3.42
7 8 8.100791 AGTACAGTGATTTTTGGACATAAGCTA 58.899 33.333 0.00 0.00 30.29 3.32
8 9 6.942576 AGTACAGTGATTTTTGGACATAAGCT 59.057 34.615 0.00 0.00 30.29 3.74
9 10 7.145932 AGTACAGTGATTTTTGGACATAAGC 57.854 36.000 0.00 0.00 30.29 3.09
10 11 7.413000 CCGAGTACAGTGATTTTTGGACATAAG 60.413 40.741 0.00 0.00 30.29 1.73
11 12 6.370442 CCGAGTACAGTGATTTTTGGACATAA 59.630 38.462 0.00 0.00 30.29 1.90
12 13 5.872617 CCGAGTACAGTGATTTTTGGACATA 59.127 40.000 0.00 0.00 30.29 2.29
13 14 4.695455 CCGAGTACAGTGATTTTTGGACAT 59.305 41.667 0.00 0.00 30.29 3.06
14 15 4.062293 CCGAGTACAGTGATTTTTGGACA 58.938 43.478 0.00 0.00 30.29 4.02
15 16 3.120304 GCCGAGTACAGTGATTTTTGGAC 60.120 47.826 0.00 0.00 0.00 4.02
16 17 3.071479 GCCGAGTACAGTGATTTTTGGA 58.929 45.455 0.00 0.00 0.00 3.53
17 18 2.811431 TGCCGAGTACAGTGATTTTTGG 59.189 45.455 0.00 0.00 0.00 3.28
18 19 3.745975 TCTGCCGAGTACAGTGATTTTTG 59.254 43.478 0.00 0.00 36.50 2.44
19 20 3.746492 GTCTGCCGAGTACAGTGATTTTT 59.254 43.478 0.00 0.00 36.50 1.94
20 21 3.006967 AGTCTGCCGAGTACAGTGATTTT 59.993 43.478 0.00 0.00 36.50 1.82
21 22 2.563179 AGTCTGCCGAGTACAGTGATTT 59.437 45.455 0.00 0.00 36.50 2.17
22 23 2.171840 AGTCTGCCGAGTACAGTGATT 58.828 47.619 0.00 0.00 36.50 2.57
23 24 1.840737 AGTCTGCCGAGTACAGTGAT 58.159 50.000 0.00 0.00 36.50 3.06
24 25 2.484742 TAGTCTGCCGAGTACAGTGA 57.515 50.000 0.00 0.00 36.50 3.41
25 26 2.423892 ACATAGTCTGCCGAGTACAGTG 59.576 50.000 0.00 0.00 36.50 3.66
26 27 2.724454 ACATAGTCTGCCGAGTACAGT 58.276 47.619 0.00 0.00 36.50 3.55
27 28 6.745159 ATATACATAGTCTGCCGAGTACAG 57.255 41.667 0.00 0.00 36.44 2.74
28 29 8.803397 ATAATATACATAGTCTGCCGAGTACA 57.197 34.615 0.00 0.00 0.00 2.90
29 30 9.111613 AGATAATATACATAGTCTGCCGAGTAC 57.888 37.037 0.00 0.00 0.00 2.73
31 32 9.332502 CTAGATAATATACATAGTCTGCCGAGT 57.667 37.037 0.00 0.00 0.00 4.18
32 33 9.549078 TCTAGATAATATACATAGTCTGCCGAG 57.451 37.037 0.00 0.00 0.00 4.63
33 34 9.901172 TTCTAGATAATATACATAGTCTGCCGA 57.099 33.333 0.00 0.00 0.00 5.54
57 58 9.299963 CGAAGGAGACATGATGATAGATTATTC 57.700 37.037 0.00 0.00 0.00 1.75
58 59 7.763528 GCGAAGGAGACATGATGATAGATTATT 59.236 37.037 0.00 0.00 0.00 1.40
59 60 7.264221 GCGAAGGAGACATGATGATAGATTAT 58.736 38.462 0.00 0.00 0.00 1.28
60 61 6.350528 GGCGAAGGAGACATGATGATAGATTA 60.351 42.308 0.00 0.00 0.00 1.75
61 62 5.477510 GCGAAGGAGACATGATGATAGATT 58.522 41.667 0.00 0.00 0.00 2.40
62 63 4.081752 GGCGAAGGAGACATGATGATAGAT 60.082 45.833 0.00 0.00 0.00 1.98
63 64 3.256879 GGCGAAGGAGACATGATGATAGA 59.743 47.826 0.00 0.00 0.00 1.98
64 65 3.583806 GGCGAAGGAGACATGATGATAG 58.416 50.000 0.00 0.00 0.00 2.08
65 66 2.300152 GGGCGAAGGAGACATGATGATA 59.700 50.000 0.00 0.00 0.00 2.15
66 67 1.071385 GGGCGAAGGAGACATGATGAT 59.929 52.381 0.00 0.00 0.00 2.45
67 68 0.465705 GGGCGAAGGAGACATGATGA 59.534 55.000 0.00 0.00 0.00 2.92
68 69 0.533755 GGGGCGAAGGAGACATGATG 60.534 60.000 0.00 0.00 0.00 3.07
69 70 1.700042 GGGGGCGAAGGAGACATGAT 61.700 60.000 0.00 0.00 0.00 2.45
70 71 2.367202 GGGGGCGAAGGAGACATGA 61.367 63.158 0.00 0.00 0.00 3.07
71 72 2.190578 GGGGGCGAAGGAGACATG 59.809 66.667 0.00 0.00 0.00 3.21
86 87 0.687354 CAGGATTCGGACATAGGGGG 59.313 60.000 0.00 0.00 0.00 5.40
87 88 0.687354 CCAGGATTCGGACATAGGGG 59.313 60.000 0.00 0.00 0.00 4.79
88 89 0.035458 GCCAGGATTCGGACATAGGG 59.965 60.000 0.00 0.00 0.00 3.53
89 90 1.051812 AGCCAGGATTCGGACATAGG 58.948 55.000 0.00 0.00 0.00 2.57
90 91 2.760374 GAAGCCAGGATTCGGACATAG 58.240 52.381 0.55 0.00 0.00 2.23
91 92 1.068588 CGAAGCCAGGATTCGGACATA 59.931 52.381 28.80 0.00 45.71 2.29
92 93 0.179073 CGAAGCCAGGATTCGGACAT 60.179 55.000 28.80 0.00 45.71 3.06
93 94 1.218047 CGAAGCCAGGATTCGGACA 59.782 57.895 28.80 0.00 45.71 4.02
94 95 4.110493 CGAAGCCAGGATTCGGAC 57.890 61.111 28.80 0.00 45.71 4.79
127 128 3.842126 CCTGTGCGTGCGTGATCG 61.842 66.667 0.00 0.00 40.37 3.69
152 157 3.002246 CCAGTTCACACACACACACATAC 59.998 47.826 0.00 0.00 0.00 2.39
153 158 3.202097 CCAGTTCACACACACACACATA 58.798 45.455 0.00 0.00 0.00 2.29
154 159 2.016318 CCAGTTCACACACACACACAT 58.984 47.619 0.00 0.00 0.00 3.21
181 186 2.952245 CGAACTCGTGTCGACCCT 59.048 61.111 14.12 0.00 34.11 4.34
275 280 2.352032 ACGAGTAGGAGCAGGTGCC 61.352 63.158 0.00 0.00 43.38 5.01
295 300 5.133221 GCCATTGGTAACTGGATCTAATGT 58.867 41.667 4.26 0.00 34.24 2.71
304 309 3.417101 TGTTAGTGCCATTGGTAACTGG 58.583 45.455 18.20 0.00 35.53 4.00
386 391 2.760650 TGGATAGATAGGCATAGGCACG 59.239 50.000 0.15 0.00 43.71 5.34
407 416 3.430929 GCCATTCGTCACCTACAAGAGAT 60.431 47.826 0.00 0.00 0.00 2.75
408 417 2.094182 GCCATTCGTCACCTACAAGAGA 60.094 50.000 0.00 0.00 0.00 3.10
409 418 2.271800 GCCATTCGTCACCTACAAGAG 58.728 52.381 0.00 0.00 0.00 2.85
410 419 1.403647 CGCCATTCGTCACCTACAAGA 60.404 52.381 0.00 0.00 0.00 3.02
493 522 5.154418 TCCATTCAATTTCCACCCTTTCTT 58.846 37.500 0.00 0.00 0.00 2.52
494 523 4.750941 TCCATTCAATTTCCACCCTTTCT 58.249 39.130 0.00 0.00 0.00 2.52
495 524 5.237815 GTTCCATTCAATTTCCACCCTTTC 58.762 41.667 0.00 0.00 0.00 2.62
534 563 2.511600 CGATTCGGCACAGGACCC 60.512 66.667 0.00 0.00 0.00 4.46
563 592 2.039418 CATATCGGTGGTCTTGGGAGA 58.961 52.381 0.00 0.00 0.00 3.71
564 593 1.070758 CCATATCGGTGGTCTTGGGAG 59.929 57.143 0.00 0.00 34.46 4.30
669 704 1.777030 CTCGCTCGTCGGATGCTAGT 61.777 60.000 0.00 0.00 39.05 2.57
686 721 1.137825 CAAGGAGGTCGTCTCGCTC 59.862 63.158 0.00 0.00 43.34 5.03
713 753 4.761304 AGGGGAGGGGAGGAGGGA 62.761 72.222 0.00 0.00 0.00 4.20
714 754 4.179599 GAGGGGAGGGGAGGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
715 755 4.179599 GGAGGGGAGGGGAGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
716 756 4.179599 GGGAGGGGAGGGGAGGAG 62.180 77.778 0.00 0.00 0.00 3.69
866 906 3.672867 GGTTTGTGTCTGTGTTTGTGTTG 59.327 43.478 0.00 0.00 0.00 3.33
888 928 2.421424 CGAGAGGGAAGGAATGCTTTTG 59.579 50.000 0.00 0.00 0.00 2.44
942 999 0.036388 CTTAACTCTTGGGAGCGGCA 60.036 55.000 1.45 0.00 42.98 5.69
983 1386 2.177669 CCCATCTCCTTCCTCTCTCTCT 59.822 54.545 0.00 0.00 0.00 3.10
986 1389 1.219213 TCCCCATCTCCTTCCTCTCTC 59.781 57.143 0.00 0.00 0.00 3.20
989 1392 2.044469 GCATCCCCATCTCCTTCCTCT 61.044 57.143 0.00 0.00 0.00 3.69
990 1393 0.399833 GCATCCCCATCTCCTTCCTC 59.600 60.000 0.00 0.00 0.00 3.71
1275 1682 1.066071 GGAAGGAAGGAAGTCGGGAAG 60.066 57.143 0.00 0.00 0.00 3.46
1280 1687 1.903183 AGGAAGGAAGGAAGGAAGTCG 59.097 52.381 0.00 0.00 0.00 4.18
1283 1690 2.303311 ACGAAGGAAGGAAGGAAGGAAG 59.697 50.000 0.00 0.00 0.00 3.46
1284 1691 2.335933 ACGAAGGAAGGAAGGAAGGAA 58.664 47.619 0.00 0.00 0.00 3.36
1285 1692 2.025636 ACGAAGGAAGGAAGGAAGGA 57.974 50.000 0.00 0.00 0.00 3.36
1286 1693 2.861147 AACGAAGGAAGGAAGGAAGG 57.139 50.000 0.00 0.00 0.00 3.46
1287 1694 4.001652 GGTTAACGAAGGAAGGAAGGAAG 58.998 47.826 0.00 0.00 0.00 3.46
1288 1695 3.649502 AGGTTAACGAAGGAAGGAAGGAA 59.350 43.478 0.00 0.00 0.00 3.36
1289 1696 3.245441 AGGTTAACGAAGGAAGGAAGGA 58.755 45.455 0.00 0.00 0.00 3.36
1290 1697 3.597255 GAGGTTAACGAAGGAAGGAAGG 58.403 50.000 0.00 0.00 0.00 3.46
1291 1698 3.251571 CGAGGTTAACGAAGGAAGGAAG 58.748 50.000 0.00 0.00 0.00 3.46
1292 1699 2.611224 GCGAGGTTAACGAAGGAAGGAA 60.611 50.000 0.00 0.00 0.00 3.36
1293 1700 1.067354 GCGAGGTTAACGAAGGAAGGA 60.067 52.381 0.00 0.00 0.00 3.36
1294 1701 1.356938 GCGAGGTTAACGAAGGAAGG 58.643 55.000 0.00 0.00 0.00 3.46
1295 1702 1.356938 GGCGAGGTTAACGAAGGAAG 58.643 55.000 0.00 0.00 0.00 3.46
1318 1725 1.377856 GCTGAAGAGGAAGTGGGGC 60.378 63.158 0.00 0.00 0.00 5.80
1329 1736 0.178861 AAAGGGAGAGGGGCTGAAGA 60.179 55.000 0.00 0.00 0.00 2.87
1337 1744 0.252927 ACTCAGGGAAAGGGAGAGGG 60.253 60.000 0.00 0.00 33.00 4.30
1444 1852 2.671070 GCAGTTAATTTGTTGCCGGGAG 60.671 50.000 2.18 0.00 0.00 4.30
1493 1901 1.419374 CAGGACTCTTGGTTCGAACG 58.581 55.000 21.34 10.09 0.00 3.95
1517 1925 5.701290 GGTATGCCAGTTTAATTAGAGCGAT 59.299 40.000 0.00 0.00 34.09 4.58
1543 1951 3.774734 AGGCGATCTGTATGGTATGGTA 58.225 45.455 0.00 0.00 0.00 3.25
1546 1954 4.887748 AGAAAGGCGATCTGTATGGTATG 58.112 43.478 0.00 0.00 0.00 2.39
1547 1955 4.021016 GGAGAAAGGCGATCTGTATGGTAT 60.021 45.833 0.00 0.00 0.00 2.73
1548 1956 3.321111 GGAGAAAGGCGATCTGTATGGTA 59.679 47.826 0.00 0.00 0.00 3.25
1549 1957 2.103263 GGAGAAAGGCGATCTGTATGGT 59.897 50.000 0.00 0.00 0.00 3.55
1550 1958 2.548920 GGGAGAAAGGCGATCTGTATGG 60.549 54.545 0.00 0.00 0.00 2.74
1551 1959 2.366916 AGGGAGAAAGGCGATCTGTATG 59.633 50.000 0.00 0.00 0.00 2.39
1640 2048 4.966168 TCACCACAGCAGGGAGTATTATTA 59.034 41.667 0.00 0.00 0.00 0.98
1705 2161 2.044123 CACATAAAGGTGCTCCCCTC 57.956 55.000 0.00 0.00 32.13 4.30
1773 2230 0.103937 TTGTTTTCTTGCTTGGCCCG 59.896 50.000 0.00 0.00 0.00 6.13
1774 2231 2.212652 CTTTGTTTTCTTGCTTGGCCC 58.787 47.619 0.00 0.00 0.00 5.80
1775 2232 2.212652 CCTTTGTTTTCTTGCTTGGCC 58.787 47.619 0.00 0.00 0.00 5.36
1776 2233 2.212652 CCCTTTGTTTTCTTGCTTGGC 58.787 47.619 0.00 0.00 0.00 4.52
1777 2234 2.212652 GCCCTTTGTTTTCTTGCTTGG 58.787 47.619 0.00 0.00 0.00 3.61
1778 2235 2.212652 GGCCCTTTGTTTTCTTGCTTG 58.787 47.619 0.00 0.00 0.00 4.01
1779 2236 1.836802 TGGCCCTTTGTTTTCTTGCTT 59.163 42.857 0.00 0.00 0.00 3.91
1780 2237 1.413812 CTGGCCCTTTGTTTTCTTGCT 59.586 47.619 0.00 0.00 0.00 3.91
1793 2250 3.898741 GCTAGTCTAGTATTTCTGGCCCT 59.101 47.826 0.00 0.00 0.00 5.19
1794 2251 3.305471 CGCTAGTCTAGTATTTCTGGCCC 60.305 52.174 0.00 0.00 32.27 5.80
1798 2255 2.974536 GCGCGCTAGTCTAGTATTTCTG 59.025 50.000 26.67 0.00 0.00 3.02
1816 2273 4.803908 CTCCCCTTCCCCTTGCGC 62.804 72.222 0.00 0.00 0.00 6.09
1817 2274 4.803908 GCTCCCCTTCCCCTTGCG 62.804 72.222 0.00 0.00 0.00 4.85
2006 2463 8.465999 GGGGTTTGAAATTTTCTTTTGAATGTT 58.534 29.630 10.33 0.00 38.37 2.71
2007 2464 7.613411 TGGGGTTTGAAATTTTCTTTTGAATGT 59.387 29.630 10.33 0.00 38.37 2.71
2008 2465 7.994194 TGGGGTTTGAAATTTTCTTTTGAATG 58.006 30.769 10.33 0.00 38.37 2.67
2013 2470 7.763528 GCATTTTGGGGTTTGAAATTTTCTTTT 59.236 29.630 10.33 0.00 0.00 2.27
2014 2471 7.123997 AGCATTTTGGGGTTTGAAATTTTCTTT 59.876 29.630 10.33 0.00 0.00 2.52
2015 2472 6.606796 AGCATTTTGGGGTTTGAAATTTTCTT 59.393 30.769 10.33 0.00 0.00 2.52
2016 2473 6.128486 AGCATTTTGGGGTTTGAAATTTTCT 58.872 32.000 10.33 0.00 0.00 2.52
2017 2474 6.389830 AGCATTTTGGGGTTTGAAATTTTC 57.610 33.333 2.05 2.05 0.00 2.29
2018 2475 7.059788 AGTAGCATTTTGGGGTTTGAAATTTT 58.940 30.769 0.00 0.00 0.00 1.82
2072 2529 2.592194 CCTGCATTATCATCGCATTGC 58.408 47.619 0.00 0.00 34.63 3.56
2562 3020 1.234615 ACGTGGAAGCGGGATTGTTG 61.235 55.000 0.00 0.00 35.98 3.33
2567 3025 3.000819 TGGACGTGGAAGCGGGAT 61.001 61.111 0.00 0.00 35.98 3.85
2883 3341 4.223953 GAGAGAGAGAGAGGGAGAGAGTA 58.776 52.174 0.00 0.00 0.00 2.59
2884 3342 3.041946 GAGAGAGAGAGAGGGAGAGAGT 58.958 54.545 0.00 0.00 0.00 3.24
2885 3343 2.370189 GGAGAGAGAGAGAGGGAGAGAG 59.630 59.091 0.00 0.00 0.00 3.20
2886 3344 2.408565 GGAGAGAGAGAGAGGGAGAGA 58.591 57.143 0.00 0.00 0.00 3.10
2887 3345 1.421646 GGGAGAGAGAGAGAGGGAGAG 59.578 61.905 0.00 0.00 0.00 3.20
2888 3346 1.010793 AGGGAGAGAGAGAGAGGGAGA 59.989 57.143 0.00 0.00 0.00 3.71
2889 3347 1.421646 GAGGGAGAGAGAGAGAGGGAG 59.578 61.905 0.00 0.00 0.00 4.30
2890 3348 1.010793 AGAGGGAGAGAGAGAGAGGGA 59.989 57.143 0.00 0.00 0.00 4.20
2891 3349 1.522900 AGAGGGAGAGAGAGAGAGGG 58.477 60.000 0.00 0.00 0.00 4.30
2892 3350 5.324832 AATAAGAGGGAGAGAGAGAGAGG 57.675 47.826 0.00 0.00 0.00 3.69
2900 3358 3.322254 GCCGATGAAATAAGAGGGAGAGA 59.678 47.826 0.00 0.00 0.00 3.10
3058 3516 0.037790 AGCAGAGAGAAGTGCCGAAC 60.038 55.000 0.00 0.00 40.81 3.95
3116 3579 6.621316 AGCATTATCTGAAGAAAGATGCAG 57.379 37.500 19.29 0.00 38.72 4.41
3184 3647 4.853924 AAGTGGCATCTACCAAAAAGTG 57.146 40.909 0.00 0.00 42.70 3.16
3216 3679 3.075884 GCCGGATGTACCACTTAAACAA 58.924 45.455 5.05 0.00 38.90 2.83
3217 3680 2.616001 GGCCGGATGTACCACTTAAACA 60.616 50.000 5.05 0.00 38.90 2.83
3225 3688 2.731571 GCAGAGGCCGGATGTACCA 61.732 63.158 5.05 0.00 38.90 3.25
3227 3690 0.679505 TATGCAGAGGCCGGATGTAC 59.320 55.000 5.05 0.00 40.13 2.90
3241 3704 8.930760 GTTTGGCTATGTTATTTTTGTTATGCA 58.069 29.630 0.00 0.00 0.00 3.96
3242 3705 8.387354 GGTTTGGCTATGTTATTTTTGTTATGC 58.613 33.333 0.00 0.00 0.00 3.14
3243 3706 9.429359 TGGTTTGGCTATGTTATTTTTGTTATG 57.571 29.630 0.00 0.00 0.00 1.90
3249 3712 6.866248 CGACTTGGTTTGGCTATGTTATTTTT 59.134 34.615 0.00 0.00 0.00 1.94
3261 3724 2.552315 TCAATTCTCGACTTGGTTTGGC 59.448 45.455 0.00 0.00 0.00 4.52
3339 3802 4.009675 CCCGGATTCAAGAAAAGATGTCA 58.990 43.478 0.73 0.00 0.00 3.58
3389 3855 7.275888 TCCTTTATTATTCATGTGGCATCAC 57.724 36.000 0.00 0.00 43.87 3.06
3430 3896 9.182214 TCATTTTAAGAGGGAATTCTCATCAAG 57.818 33.333 8.33 0.00 36.30 3.02
3441 3907 6.239289 CCTTTGCACTTCATTTTAAGAGGGAA 60.239 38.462 0.00 0.00 0.00 3.97
3482 3948 3.389002 GGATGATTGAAATCCTTTGGGGG 59.611 47.826 0.72 0.00 40.50 5.40
3483 3949 4.032310 TGGATGATTGAAATCCTTTGGGG 58.968 43.478 4.23 0.00 43.52 4.96
3528 3995 0.613777 ACAAGTAAGGCCTCCTTCGG 59.386 55.000 5.23 3.42 43.57 4.30
3577 4045 8.806146 AGATTGACTAAGTGCATTGGTTTTAAT 58.194 29.630 0.00 0.00 31.87 1.40
3616 4100 0.610174 CAGCAACACTAGGAGGAGCA 59.390 55.000 0.00 0.00 0.00 4.26
3759 4259 2.737252 CTCTACCCTCGAAAACTGTTGC 59.263 50.000 0.00 0.00 0.00 4.17
3803 4303 1.610522 CTTTGGCTCCCTTTGTGTCAG 59.389 52.381 0.00 0.00 0.00 3.51
3804 4304 1.214175 TCTTTGGCTCCCTTTGTGTCA 59.786 47.619 0.00 0.00 0.00 3.58
3811 4311 3.947834 CGTGAATATTCTTTGGCTCCCTT 59.052 43.478 16.24 0.00 0.00 3.95
3812 4312 3.199946 TCGTGAATATTCTTTGGCTCCCT 59.800 43.478 16.24 0.00 0.00 4.20
3814 4314 4.192317 ACTCGTGAATATTCTTTGGCTCC 58.808 43.478 16.24 0.00 0.00 4.70


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

AutoCloner maintained by Alex Coulton.