Multiple sequence alignment - TraesCS2B01G423100

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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 TraesCS2B01G423100 chr2B 100.000 4054 0 0 1458 5511 608474582 608478635 0.000000e+00 7487
1 TraesCS2B01G423100 chr2B 100.000 1161 0 0 1 1161 608473125 608474285 0.000000e+00 2145
2 TraesCS2B01G423100 chr2B 86.957 138 11 2 2422 2559 608475488 608475618 1.240000e-31 148
3 TraesCS2B01G423100 chr2B 86.957 138 11 2 2364 2494 608475546 608475683 1.240000e-31 148
4 TraesCS2B01G423100 chr2D 92.227 3911 216 47 1458 5305 516828349 516832234 0.000000e+00 5457
5 TraesCS2B01G423100 chr2D 87.223 947 44 22 1 929 516827076 516827963 0.000000e+00 1007
6 TraesCS2B01G423100 chr2D 95.455 198 5 2 967 1161 516827955 516828151 4.140000e-81 313
7 TraesCS2B01G423100 chr2A 95.668 3024 88 16 2348 5342 660559182 660562191 0.000000e+00 4819
8 TraesCS2B01G423100 chr2A 93.853 911 37 4 1458 2362 660558269 660559166 0.000000e+00 1354
9 TraesCS2B01G423100 chr2A 88.470 451 19 13 477 916 660557423 660557851 1.060000e-141 514
10 TraesCS2B01G423100 chr2A 98.315 178 3 0 980 1157 660557873 660558050 4.140000e-81 313
11 TraesCS2B01G423100 chr2A 94.545 165 7 2 5349 5511 660562824 660562988 2.550000e-63 254
12 TraesCS2B01G423100 chr2A 85.644 202 10 7 1 198 660556448 660556634 1.570000e-45 195
13 TraesCS2B01G423100 chrUn 100.000 392 0 0 3600 3991 479715306 479714915 0.000000e+00 725
14 TraesCS2B01G423100 chr6D 83.108 740 95 16 3055 3784 132763995 132764714 0.000000e+00 647
15 TraesCS2B01G423100 chr3D 81.481 783 118 21 3014 3784 81040252 81041019 7.840000e-173 617
16 TraesCS2B01G423100 chr4B 81.378 784 114 22 3014 3782 535144547 535145313 1.310000e-170 610
17 TraesCS2B01G423100 chr5D 85.093 322 42 2 3014 3335 82365437 82365122 1.910000e-84 324
18 TraesCS2B01G423100 chr1D 78.662 314 43 12 3402 3714 486700951 486700661 2.620000e-43 187
19 TraesCS2B01G423100 chr1D 81.768 181 29 3 3391 3571 12281370 12281546 1.240000e-31 148
20 TraesCS2B01G423100 chr7D 82.873 181 27 3 3391 3571 528074392 528074216 5.710000e-35 159
21 TraesCS2B01G423100 chr1A 81.768 181 29 3 3391 3571 45637148 45636972 1.240000e-31 148


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 TraesCS2B01G423100 chr2B 608473125 608478635 5510 False 2482.0 7487 93.478500 1 5511 4 chr2B.!!$F1 5510
1 TraesCS2B01G423100 chr2D 516827076 516832234 5158 False 2259.0 5457 91.635000 1 5305 3 chr2D.!!$F1 5304
2 TraesCS2B01G423100 chr2A 660556448 660562988 6540 False 1241.5 4819 92.749167 1 5511 6 chr2A.!!$F1 5510
3 TraesCS2B01G423100 chr6D 132763995 132764714 719 False 647.0 647 83.108000 3055 3784 1 chr6D.!!$F1 729
4 TraesCS2B01G423100 chr3D 81040252 81041019 767 False 617.0 617 81.481000 3014 3784 1 chr3D.!!$F1 770
5 TraesCS2B01G423100 chr4B 535144547 535145313 766 False 610.0 610 81.378000 3014 3782 1 chr4B.!!$F1 768

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
29 31 0.036952 AACGGCACCTGTGATCTCTG 60.037 55.000 0.51 0.00 0.00 3.35 F
111 118 0.251916 AATTAGCACTAGGCCACGCA 59.748 50.000 5.01 0.00 46.50 5.24 F
112 119 0.462047 ATTAGCACTAGGCCACGCAC 60.462 55.000 5.01 0.00 46.50 5.34 F
1528 2130 0.028770 TTCACCGTTTCTTGCGCTTG 59.971 50.000 9.73 0.65 0.00 4.01 F
1930 2535 0.322816 CTGCCATACTGGTTGCTGGT 60.323 55.000 0.00 0.00 40.46 4.00 F
2829 3479 1.274167 TCTGGAACGACGCAAGGTAAT 59.726 47.619 0.00 0.00 46.39 1.89 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1505 2107 0.028770 CGCAAGAAACGGTGAAGCAA 59.971 50.000 0.00 0.0 43.02 3.91 R
1509 2111 0.028770 CAAGCGCAAGAAACGGTGAA 59.971 50.000 11.47 0.0 41.69 3.18 R
1537 2139 0.098728 CGAATTGGCCGCTCGATTTT 59.901 50.000 13.96 0.0 34.52 1.82 R
3341 3993 0.371645 GAAGAGCAATGAAGCGTCCG 59.628 55.000 0.00 0.0 40.15 4.79 R
3410 4063 2.288152 TGGGTGAAGAAAATTCGCTTGC 60.288 45.455 1.68 0.0 0.00 4.01 R
4730 5429 0.376152 GTGAAGATCATGCAGGTGCG 59.624 55.000 0.00 0.0 45.83 5.34 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
29 31 0.036952 AACGGCACCTGTGATCTCTG 60.037 55.000 0.51 0.00 0.00 3.35
57 59 5.350091 TGAATCGAATCGTAAATGAAGCACA 59.650 36.000 1.52 0.00 0.00 4.57
66 68 9.935682 AATCGTAAATGAAGCACATTATTACTG 57.064 29.630 9.02 6.72 46.90 2.74
67 69 8.487313 TCGTAAATGAAGCACATTATTACTGT 57.513 30.769 9.02 0.00 46.90 3.55
68 70 9.589111 TCGTAAATGAAGCACATTATTACTGTA 57.411 29.630 9.02 0.00 46.90 2.74
69 71 9.849607 CGTAAATGAAGCACATTATTACTGTAG 57.150 33.333 9.02 0.00 46.90 2.74
73 75 7.980742 TGAAGCACATTATTACTGTAGTACG 57.019 36.000 0.00 0.00 0.00 3.67
74 76 6.474427 TGAAGCACATTATTACTGTAGTACGC 59.526 38.462 0.00 0.00 0.00 4.42
101 108 5.789710 GCAAATTGCAATGAATTAGCACT 57.210 34.783 13.82 0.00 44.26 4.40
102 109 6.890663 GCAAATTGCAATGAATTAGCACTA 57.109 33.333 13.82 0.00 44.26 2.74
103 110 6.929896 GCAAATTGCAATGAATTAGCACTAG 58.070 36.000 13.82 0.00 44.26 2.57
104 111 6.019318 GCAAATTGCAATGAATTAGCACTAGG 60.019 38.462 13.82 0.00 44.26 3.02
105 112 4.637483 TTGCAATGAATTAGCACTAGGC 57.363 40.909 0.00 0.00 45.30 3.93
106 113 2.951642 TGCAATGAATTAGCACTAGGCC 59.048 45.455 0.00 0.00 46.50 5.19
107 114 2.951642 GCAATGAATTAGCACTAGGCCA 59.048 45.455 5.01 0.00 46.50 5.36
108 115 3.243201 GCAATGAATTAGCACTAGGCCAC 60.243 47.826 5.01 0.00 46.50 5.01
109 116 2.309528 TGAATTAGCACTAGGCCACG 57.690 50.000 5.01 0.00 46.50 4.94
110 117 0.938008 GAATTAGCACTAGGCCACGC 59.062 55.000 5.01 0.73 46.50 5.34
111 118 0.251916 AATTAGCACTAGGCCACGCA 59.748 50.000 5.01 0.00 46.50 5.24
112 119 0.462047 ATTAGCACTAGGCCACGCAC 60.462 55.000 5.01 0.00 46.50 5.34
166 173 7.201696 GGCCTGTAATTATTTGAGATTCGTTCA 60.202 37.037 0.00 0.00 0.00 3.18
171 178 6.683974 ATTATTTGAGATTCGTTCACAGGG 57.316 37.500 0.00 0.00 0.00 4.45
172 179 2.472695 TTGAGATTCGTTCACAGGGG 57.527 50.000 0.00 0.00 0.00 4.79
173 180 1.639722 TGAGATTCGTTCACAGGGGA 58.360 50.000 0.00 0.00 0.00 4.81
230 247 7.589221 CGTATATACAACGGTTTAACCTCTCTC 59.411 40.741 12.66 0.00 35.66 3.20
248 265 6.106648 TCTCTCTAATCTGGCCATTATGTG 57.893 41.667 5.51 0.00 0.00 3.21
273 290 3.083349 TCCGGATGCCACCCTCAG 61.083 66.667 0.00 0.00 0.00 3.35
274 291 4.864334 CCGGATGCCACCCTCAGC 62.864 72.222 0.00 0.00 0.00 4.26
277 294 1.751927 GGATGCCACCCTCAGCTTG 60.752 63.158 0.00 0.00 0.00 4.01
278 295 2.362120 ATGCCACCCTCAGCTTGC 60.362 61.111 0.00 0.00 0.00 4.01
279 296 3.951769 ATGCCACCCTCAGCTTGCC 62.952 63.158 0.00 0.00 0.00 4.52
280 297 4.357279 GCCACCCTCAGCTTGCCT 62.357 66.667 0.00 0.00 0.00 4.75
281 298 2.045536 CCACCCTCAGCTTGCCTC 60.046 66.667 0.00 0.00 0.00 4.70
282 299 2.752358 CACCCTCAGCTTGCCTCA 59.248 61.111 0.00 0.00 0.00 3.86
293 310 5.423015 TCAGCTTGCCTCAAATTACTCTAG 58.577 41.667 0.00 0.00 0.00 2.43
295 312 5.064452 CAGCTTGCCTCAAATTACTCTAGTG 59.936 44.000 0.00 0.00 0.00 2.74
303 320 7.427214 CCTCAAATTACTCTAGTGCTAGTACC 58.573 42.308 7.41 0.00 34.84 3.34
352 369 1.233285 CCATTAGCATGCTCCTCGCC 61.233 60.000 26.57 0.00 38.05 5.54
380 947 0.945743 GAGACACGCATGCACAGTGA 60.946 55.000 24.98 0.00 39.04 3.41
383 950 3.716006 ACGCATGCACAGTGACGC 61.716 61.111 19.57 1.85 0.00 5.19
409 976 4.597032 CCAGATCGGCTCTCCTCT 57.403 61.111 0.00 0.00 29.16 3.69
427 994 3.433615 CCTCTCACGCGATTTCTTTTCTT 59.566 43.478 15.93 0.00 0.00 2.52
429 996 3.432252 TCTCACGCGATTTCTTTTCTTCC 59.568 43.478 15.93 0.00 0.00 3.46
430 997 3.135225 TCACGCGATTTCTTTTCTTCCA 58.865 40.909 15.93 0.00 0.00 3.53
431 998 3.186409 TCACGCGATTTCTTTTCTTCCAG 59.814 43.478 15.93 0.00 0.00 3.86
433 1000 3.433615 ACGCGATTTCTTTTCTTCCAGAG 59.566 43.478 15.93 0.00 0.00 3.35
434 1001 3.726190 CGCGATTTCTTTTCTTCCAGAGC 60.726 47.826 0.00 0.00 0.00 4.09
437 1004 5.762045 CGATTTCTTTTCTTCCAGAGCAAA 58.238 37.500 0.00 0.00 0.00 3.68
438 1005 5.626955 CGATTTCTTTTCTTCCAGAGCAAAC 59.373 40.000 0.00 0.00 0.00 2.93
439 1006 4.918810 TTCTTTTCTTCCAGAGCAAACC 57.081 40.909 0.00 0.00 0.00 3.27
440 1007 4.170468 TCTTTTCTTCCAGAGCAAACCT 57.830 40.909 0.00 0.00 0.00 3.50
441 1008 4.536765 TCTTTTCTTCCAGAGCAAACCTT 58.463 39.130 0.00 0.00 0.00 3.50
474 1041 9.466497 TTGCTGAATCTCCTTTACATTAGATTT 57.534 29.630 0.00 0.00 38.47 2.17
475 1042 9.466497 TGCTGAATCTCCTTTACATTAGATTTT 57.534 29.630 0.00 0.00 38.47 1.82
514 1081 7.555914 TGCTTTGCATTGGATTAGATTAGTGTA 59.444 33.333 0.00 0.00 31.71 2.90
648 1219 5.420409 CCCCTTCTCTTTGGCGATATATAC 58.580 45.833 0.00 0.00 0.00 1.47
649 1220 5.046591 CCCCTTCTCTTTGGCGATATATACA 60.047 44.000 0.00 0.00 0.00 2.29
774 1352 4.033932 CCAACTAACAAAACAAAAGCCTGC 59.966 41.667 0.00 0.00 0.00 4.85
878 1459 2.125147 TCGATCGCAAAGCCCAGG 60.125 61.111 11.09 0.00 0.00 4.45
923 1519 4.760840 GTGCGCGCGTGAGAGAGA 62.761 66.667 32.35 1.38 31.43 3.10
929 1525 1.087202 GCGCGTGAGAGAGAGAGAGA 61.087 60.000 8.43 0.00 0.00 3.10
930 1526 0.930310 CGCGTGAGAGAGAGAGAGAG 59.070 60.000 0.00 0.00 0.00 3.20
931 1527 1.470805 CGCGTGAGAGAGAGAGAGAGA 60.471 57.143 0.00 0.00 0.00 3.10
933 1529 2.159099 GCGTGAGAGAGAGAGAGAGAGA 60.159 54.545 0.00 0.00 0.00 3.10
935 1531 3.381590 CGTGAGAGAGAGAGAGAGAGAGA 59.618 52.174 0.00 0.00 0.00 3.10
936 1532 4.498850 CGTGAGAGAGAGAGAGAGAGAGAG 60.499 54.167 0.00 0.00 0.00 3.20
937 1533 4.646945 GTGAGAGAGAGAGAGAGAGAGAGA 59.353 50.000 0.00 0.00 0.00 3.10
938 1534 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
939 1535 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
940 1536 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
941 1537 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
942 1538 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
943 1539 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
944 1540 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
945 1541 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
946 1542 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
947 1543 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
948 1544 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
949 1545 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
950 1546 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
951 1547 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
952 1548 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
953 1549 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
954 1550 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
955 1551 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
956 1552 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
957 1553 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
958 1554 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
959 1555 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
960 1556 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
961 1557 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
962 1558 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
963 1559 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
964 1560 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
965 1561 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
966 1562 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
967 1563 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
968 1564 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
969 1565 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
970 1566 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
971 1567 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
972 1568 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
973 1569 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
974 1570 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
975 1571 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
976 1572 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
977 1573 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
978 1574 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
983 1579 1.212935 AGAGAGAGAGAGAGAGGTGGC 59.787 57.143 0.00 0.00 0.00 5.01
992 1588 3.663815 GAGAGGTGGCGGAGGAGGA 62.664 68.421 0.00 0.00 0.00 3.71
1496 2098 1.138266 CCGTTCCGGTGAGTGGATAAT 59.862 52.381 0.00 0.00 42.73 1.28
1504 2106 2.022129 GAGTGGATAATCCCGCGCG 61.022 63.158 25.67 25.67 41.42 6.86
1505 2107 2.279918 GTGGATAATCCCGCGCGT 60.280 61.111 29.95 12.94 35.03 6.01
1509 2111 2.203015 ATAATCCCGCGCGTTGCT 60.203 55.556 29.95 12.83 43.27 3.91
1528 2130 0.028770 TTCACCGTTTCTTGCGCTTG 59.971 50.000 9.73 0.65 0.00 4.01
1536 2138 3.737172 CTTGCGCTTGAACCCGGG 61.737 66.667 22.25 22.25 0.00 5.73
1537 2139 4.257654 TTGCGCTTGAACCCGGGA 62.258 61.111 32.02 0.04 0.00 5.14
1574 2176 4.349663 TTCGCCTGATTAATTTGTTCCG 57.650 40.909 0.00 0.00 0.00 4.30
1575 2177 2.680841 TCGCCTGATTAATTTGTTCCGG 59.319 45.455 0.00 0.00 0.00 5.14
1576 2178 2.223479 CGCCTGATTAATTTGTTCCGGG 60.223 50.000 0.00 0.00 0.00 5.73
1577 2179 2.100749 GCCTGATTAATTTGTTCCGGGG 59.899 50.000 0.00 0.00 0.00 5.73
1578 2180 3.361786 CCTGATTAATTTGTTCCGGGGT 58.638 45.455 0.00 0.00 0.00 4.95
1579 2181 3.767131 CCTGATTAATTTGTTCCGGGGTT 59.233 43.478 0.00 0.00 0.00 4.11
1580 2182 4.221924 CCTGATTAATTTGTTCCGGGGTTT 59.778 41.667 0.00 0.00 0.00 3.27
1581 2183 5.394224 TGATTAATTTGTTCCGGGGTTTC 57.606 39.130 0.00 0.00 0.00 2.78
1622 2227 2.285668 TGGGGGAAGAGCTCTGGG 60.286 66.667 19.06 0.00 0.00 4.45
1682 2287 1.909781 ACCAAGGAGTTCGCCGGTA 60.910 57.895 1.90 0.00 0.00 4.02
1702 2307 3.085010 CACGCGCGTTGCTTTCAC 61.085 61.111 35.90 0.00 43.27 3.18
1713 2318 3.549873 CGTTGCTTTCACCAATTTCGTTT 59.450 39.130 0.00 0.00 0.00 3.60
1724 2329 5.397240 CACCAATTTCGTTTTCCTTTCGTAC 59.603 40.000 0.00 0.00 0.00 3.67
1778 2383 1.136529 CATTGCTCGTGTTCGTGTCTG 60.137 52.381 0.00 0.00 38.33 3.51
1800 2405 1.989165 CTGCTCGCTAACAGTGAAGTC 59.011 52.381 0.00 0.00 33.88 3.01
1802 2407 1.997669 CTCGCTAACAGTGAAGTCCC 58.002 55.000 0.00 0.00 33.88 4.46
1930 2535 0.322816 CTGCCATACTGGTTGCTGGT 60.323 55.000 0.00 0.00 40.46 4.00
1982 2587 6.238484 GCTTGGTCCAACAGTGTGAATATATC 60.238 42.308 0.00 0.00 0.00 1.63
2295 2913 7.033791 TCCTTTCTTGTTAGTATTAGCTGTCG 58.966 38.462 0.00 0.00 0.00 4.35
2308 2926 6.956202 ATTAGCTGTCGTATACAACTACCT 57.044 37.500 3.32 0.00 36.68 3.08
2403 3051 5.635280 AGTTCGAGATCATAGTGTGTGTTTG 59.365 40.000 0.00 0.00 0.00 2.93
2469 3118 4.756642 TCATAGCTTGTGTTTCTTGACCTG 59.243 41.667 0.00 0.00 0.00 4.00
2572 3222 3.383825 ACTGTGAACGGGTATCCAGATAC 59.616 47.826 8.96 8.96 42.15 2.24
2573 3223 3.367321 TGTGAACGGGTATCCAGATACA 58.633 45.455 17.29 0.00 44.09 2.29
2816 3466 3.614092 TGATCAGGCATCTTTCTGGAAC 58.386 45.455 0.00 0.00 31.92 3.62
2829 3479 1.274167 TCTGGAACGACGCAAGGTAAT 59.726 47.619 0.00 0.00 46.39 1.89
3076 3726 6.473758 AGTACTACCTGCCCTTTTAAAGAAG 58.526 40.000 6.24 1.31 0.00 2.85
3151 3803 4.525487 TCAGGCTGAAAATGCTCAATTCTT 59.475 37.500 16.28 0.00 0.00 2.52
3152 3804 5.011329 TCAGGCTGAAAATGCTCAATTCTTT 59.989 36.000 16.28 0.00 0.00 2.52
3153 3805 5.699458 CAGGCTGAAAATGCTCAATTCTTTT 59.301 36.000 9.42 0.00 0.00 2.27
3154 3806 5.930569 AGGCTGAAAATGCTCAATTCTTTTC 59.069 36.000 0.00 0.00 37.84 2.29
3157 3809 6.643770 GCTGAAAATGCTCAATTCTTTTCTGA 59.356 34.615 13.92 0.00 38.09 3.27
3158 3810 7.359014 GCTGAAAATGCTCAATTCTTTTCTGAC 60.359 37.037 13.92 5.55 38.09 3.51
3159 3811 7.490840 TGAAAATGCTCAATTCTTTTCTGACA 58.509 30.769 7.78 0.00 38.06 3.58
3160 3812 8.145767 TGAAAATGCTCAATTCTTTTCTGACAT 58.854 29.630 7.78 0.00 38.06 3.06
3161 3813 7.884816 AAATGCTCAATTCTTTTCTGACATG 57.115 32.000 0.00 0.00 0.00 3.21
3341 3993 3.256631 TCCAAAGAATGAGAGCCAAAAGC 59.743 43.478 0.00 0.00 44.25 3.51
3377 4029 9.700831 ATTGCTCTTCACCTAAGGTAATATTTT 57.299 29.630 0.00 0.00 35.75 1.82
3378 4030 8.506168 TGCTCTTCACCTAAGGTAATATTTTG 57.494 34.615 0.00 0.00 35.75 2.44
3410 4063 3.367992 TTTTGTGTTGGCTATGCAGTG 57.632 42.857 0.00 0.00 0.00 3.66
3991 4658 7.658179 TCTCTTTTGTGCAGTTCTACAATAG 57.342 36.000 0.00 0.00 36.75 1.73
4042 4709 4.389890 TCAATTGTTGCCTGCATATTCC 57.610 40.909 5.13 0.00 0.00 3.01
4052 4719 3.338249 CCTGCATATTCCAATACCCTCG 58.662 50.000 0.00 0.00 0.00 4.63
4056 4723 5.063204 TGCATATTCCAATACCCTCGAAAG 58.937 41.667 0.00 0.00 0.00 2.62
4074 4741 7.928706 CCTCGAAAGGTAAGTAGATTGATTGAT 59.071 37.037 0.00 0.00 37.94 2.57
4075 4742 9.319143 CTCGAAAGGTAAGTAGATTGATTGATT 57.681 33.333 0.00 0.00 0.00 2.57
4375 5042 2.224378 CGGGAATCATACCAGTGATGCT 60.224 50.000 0.00 0.00 38.76 3.79
4555 5230 7.803131 AGGTTTAGTCACTTAGAAAGGAAAGT 58.197 34.615 0.00 0.00 36.38 2.66
4611 5287 8.299570 TGCAGAATTTATCTTCTCCTGTTTTTC 58.700 33.333 0.00 0.00 35.73 2.29
4612 5288 8.518702 GCAGAATTTATCTTCTCCTGTTTTTCT 58.481 33.333 0.00 0.00 35.73 2.52
4730 5429 7.824779 ACTGGATACCTCAAAGATGAAACTTAC 59.175 37.037 0.00 0.00 34.49 2.34
4764 5463 6.406370 TGATCTTCACGTTTGATTCTGGTAT 58.594 36.000 0.00 0.00 0.00 2.73
4831 5530 5.376854 AATAGGCATTTGATATGCGGTTC 57.623 39.130 1.91 0.00 45.41 3.62
4941 5644 5.045215 CACATGTTTTGTCAATGCAGAAGT 58.955 37.500 0.00 0.00 36.00 3.01
4993 5697 1.814394 GCATTTGACTGGTCTGCATCA 59.186 47.619 8.05 0.00 31.22 3.07
5089 5799 1.877576 GCGCTAGCCCCTTTTGCTTT 61.878 55.000 9.66 0.00 40.23 3.51
5090 5800 1.459450 CGCTAGCCCCTTTTGCTTTA 58.541 50.000 9.66 0.00 40.23 1.85
5198 5936 9.002600 GCAAGAAAGAATGAAAATTTTACCCAT 57.997 29.630 2.75 0.67 0.00 4.00
5228 5966 1.078709 CGTGTCAGCATCGTTGGATT 58.921 50.000 0.00 0.00 0.00 3.01
5232 5970 2.884012 TGTCAGCATCGTTGGATTGTTT 59.116 40.909 0.00 0.00 0.00 2.83
5257 5995 2.716217 CTGCTCCTTTTCGGGAAATCT 58.284 47.619 0.00 0.00 34.66 2.40
5282 6022 3.722555 TTTTATCGCGTTCAGCTCTTG 57.277 42.857 5.77 0.00 45.59 3.02
5332 6072 5.529791 GCTGAACGCTCATTAGTAGGATAA 58.470 41.667 0.00 0.00 35.14 1.75
5333 6073 6.159988 GCTGAACGCTCATTAGTAGGATAAT 58.840 40.000 0.00 0.00 35.14 1.28
5334 6074 7.313646 GCTGAACGCTCATTAGTAGGATAATA 58.686 38.462 0.00 0.00 35.14 0.98
5336 6076 9.862371 CTGAACGCTCATTAGTAGGATAATATT 57.138 33.333 0.00 0.00 0.00 1.28
5379 6746 2.148916 TGAACTGACAACTGTAGGCG 57.851 50.000 0.00 0.00 0.00 5.52
5430 6797 7.544804 AAGAAAGATAGAAAGCCAATTGGTT 57.455 32.000 25.19 17.51 37.57 3.67
5460 6827 4.676924 GTCAAAAATCTTGGCGTTTCTCTG 59.323 41.667 0.00 0.00 0.00 3.35
5496 6863 0.895100 GGCAGTCACATTGAAGGGCA 60.895 55.000 0.00 0.00 30.89 5.36
5500 6867 1.304381 TCACATTGAAGGGCAGGGC 60.304 57.895 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 20 4.498241 TCGATTCAAACCAGAGATCACAG 58.502 43.478 0.00 0.00 0.00 3.66
29 31 6.194692 GCTTCATTTACGATTCGATTCAAACC 59.805 38.462 13.95 0.00 0.00 3.27
57 59 4.982916 GCTGCTGCGTACTACAGTAATAAT 59.017 41.667 12.65 0.00 37.47 1.28
66 68 2.774007 CAATTTGCTGCTGCGTACTAC 58.226 47.619 11.21 0.00 43.34 2.73
67 69 1.130373 GCAATTTGCTGCTGCGTACTA 59.870 47.619 14.11 0.00 40.96 1.82
68 70 0.109597 GCAATTTGCTGCTGCGTACT 60.110 50.000 14.11 0.00 40.96 2.73
69 71 0.387112 TGCAATTTGCTGCTGCGTAC 60.387 50.000 21.19 0.00 45.31 3.67
71 73 0.320073 ATTGCAATTTGCTGCTGCGT 60.320 45.000 21.19 0.00 45.31 5.24
72 74 0.094558 CATTGCAATTTGCTGCTGCG 59.905 50.000 21.19 0.00 45.31 5.18
73 75 1.434555 TCATTGCAATTTGCTGCTGC 58.565 45.000 21.19 8.89 45.31 5.25
74 76 4.678509 AATTCATTGCAATTTGCTGCTG 57.321 36.364 21.19 14.97 45.31 4.41
101 108 4.063967 CGTCTGGTGCGTGGCCTA 62.064 66.667 3.32 0.00 0.00 3.93
112 119 4.742201 CGCAGTCCACCCGTCTGG 62.742 72.222 0.00 0.00 41.37 3.86
223 240 5.248020 ACATAATGGCCAGATTAGAGAGAGG 59.752 44.000 13.05 0.00 0.00 3.69
248 265 3.202706 GGCATCCGGAGAAACGCC 61.203 66.667 11.34 12.81 0.00 5.68
273 290 4.201861 GCACTAGAGTAATTTGAGGCAAGC 60.202 45.833 0.00 0.00 0.00 4.01
274 291 5.181748 AGCACTAGAGTAATTTGAGGCAAG 58.818 41.667 0.00 0.00 0.00 4.01
277 294 5.908341 ACTAGCACTAGAGTAATTTGAGGC 58.092 41.667 11.59 0.00 36.97 4.70
278 295 7.068348 TGGTACTAGCACTAGAGTAATTTGAGG 59.932 40.741 11.59 0.00 36.97 3.86
279 296 7.997482 TGGTACTAGCACTAGAGTAATTTGAG 58.003 38.462 11.59 0.00 36.97 3.02
280 297 7.949690 TGGTACTAGCACTAGAGTAATTTGA 57.050 36.000 11.59 0.00 36.97 2.69
281 298 9.250624 GATTGGTACTAGCACTAGAGTAATTTG 57.749 37.037 11.59 0.00 36.97 2.32
282 299 8.136165 CGATTGGTACTAGCACTAGAGTAATTT 58.864 37.037 11.59 0.00 36.97 1.82
293 310 2.545322 GGTAGGCGATTGGTACTAGCAC 60.545 54.545 0.00 0.00 34.88 4.40
295 312 1.000618 GGGTAGGCGATTGGTACTAGC 59.999 57.143 0.00 0.00 34.22 3.42
303 320 1.153168 CCCAGTGGGTAGGCGATTG 60.153 63.158 21.24 0.00 38.25 2.67
322 339 1.357137 TGCTAATGGTGGTGTCCAGA 58.643 50.000 0.00 0.00 41.05 3.86
323 340 2.019249 CATGCTAATGGTGGTGTCCAG 58.981 52.381 0.00 0.00 41.05 3.86
324 341 1.954733 GCATGCTAATGGTGGTGTCCA 60.955 52.381 11.37 0.00 42.01 4.02
325 342 0.740737 GCATGCTAATGGTGGTGTCC 59.259 55.000 11.37 0.00 34.09 4.02
326 343 1.672881 GAGCATGCTAATGGTGGTGTC 59.327 52.381 22.74 0.00 44.46 3.67
327 344 1.683011 GGAGCATGCTAATGGTGGTGT 60.683 52.381 22.74 0.00 44.46 4.16
352 369 2.580867 GCGTGTCTCCTAGCGCTG 60.581 66.667 22.90 10.13 45.48 5.18
380 947 1.519719 GATCTGGCTCCTTCTGCGT 59.480 57.895 0.00 0.00 0.00 5.24
406 973 4.434857 GGAAGAAAAGAAATCGCGTGAGAG 60.435 45.833 5.77 0.00 0.00 3.20
409 976 3.135225 TGGAAGAAAAGAAATCGCGTGA 58.865 40.909 5.77 0.00 0.00 4.35
475 1042 4.679373 TGCAAAGCATTACCCTCAAAAA 57.321 36.364 0.00 0.00 31.71 1.94
605 1176 8.854237 AAGGGGCTCCAAGTAAATAAATAAAT 57.146 30.769 4.79 0.00 34.83 1.40
622 1193 1.746991 CGCCAAAGAGAAGGGGCTC 60.747 63.158 0.00 0.00 44.23 4.70
648 1219 2.487934 CGGCTACAGGGAGATCAATTG 58.512 52.381 0.00 0.00 0.00 2.32
649 1220 1.202698 GCGGCTACAGGGAGATCAATT 60.203 52.381 0.00 0.00 0.00 2.32
811 1389 3.008517 TGGCGGCAGAGATGGGAA 61.009 61.111 7.97 0.00 0.00 3.97
870 1451 4.332543 TCCGGTCCTCCTGGGCTT 62.333 66.667 0.00 0.00 38.23 4.35
878 1459 3.839432 CTTCCCGCTCCGGTCCTC 61.839 72.222 0.00 0.00 46.80 3.71
915 1511 4.871822 TCTCTCTCTCTCTCTCTCTCTCA 58.128 47.826 0.00 0.00 0.00 3.27
917 1513 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
919 1515 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
923 1519 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
929 1525 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
930 1526 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
931 1527 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
933 1529 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
935 1531 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
936 1532 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
937 1533 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
938 1534 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
939 1535 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
940 1536 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
941 1537 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
942 1538 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
943 1539 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
944 1540 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
945 1541 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
946 1542 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
947 1543 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
948 1544 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
949 1545 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
950 1546 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
951 1547 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
952 1548 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
953 1549 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
954 1550 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
955 1551 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
956 1552 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
957 1553 4.222336 CCTCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
958 1554 3.964031 ACCTCTCTCTCTCTCTCTCTCTC 59.036 52.174 0.00 0.00 0.00 3.20
959 1555 3.708631 CACCTCTCTCTCTCTCTCTCTCT 59.291 52.174 0.00 0.00 0.00 3.10
960 1556 3.181461 CCACCTCTCTCTCTCTCTCTCTC 60.181 56.522 0.00 0.00 0.00 3.20
961 1557 2.774234 CCACCTCTCTCTCTCTCTCTCT 59.226 54.545 0.00 0.00 0.00 3.10
962 1558 2.746472 GCCACCTCTCTCTCTCTCTCTC 60.746 59.091 0.00 0.00 0.00 3.20
963 1559 1.212935 GCCACCTCTCTCTCTCTCTCT 59.787 57.143 0.00 0.00 0.00 3.10
964 1560 1.680338 GCCACCTCTCTCTCTCTCTC 58.320 60.000 0.00 0.00 0.00 3.20
965 1561 0.107214 CGCCACCTCTCTCTCTCTCT 60.107 60.000 0.00 0.00 0.00 3.10
966 1562 1.101049 CCGCCACCTCTCTCTCTCTC 61.101 65.000 0.00 0.00 0.00 3.20
967 1563 1.077068 CCGCCACCTCTCTCTCTCT 60.077 63.158 0.00 0.00 0.00 3.10
968 1564 1.077357 TCCGCCACCTCTCTCTCTC 60.077 63.158 0.00 0.00 0.00 3.20
969 1565 1.077068 CTCCGCCACCTCTCTCTCT 60.077 63.158 0.00 0.00 0.00 3.10
970 1566 2.124693 CCTCCGCCACCTCTCTCTC 61.125 68.421 0.00 0.00 0.00 3.20
971 1567 2.043450 CCTCCGCCACCTCTCTCT 60.043 66.667 0.00 0.00 0.00 3.10
972 1568 2.043852 TCCTCCGCCACCTCTCTC 60.044 66.667 0.00 0.00 0.00 3.20
973 1569 2.043450 CTCCTCCGCCACCTCTCT 60.043 66.667 0.00 0.00 0.00 3.10
974 1570 3.151022 CCTCCTCCGCCACCTCTC 61.151 72.222 0.00 0.00 0.00 3.20
975 1571 3.670629 CTCCTCCTCCGCCACCTCT 62.671 68.421 0.00 0.00 0.00 3.69
976 1572 3.151022 CTCCTCCTCCGCCACCTC 61.151 72.222 0.00 0.00 0.00 3.85
1504 2106 1.477105 GCAAGAAACGGTGAAGCAAC 58.523 50.000 0.00 0.00 0.00 4.17
1505 2107 0.028770 CGCAAGAAACGGTGAAGCAA 59.971 50.000 0.00 0.00 43.02 3.91
1509 2111 0.028770 CAAGCGCAAGAAACGGTGAA 59.971 50.000 11.47 0.00 41.69 3.18
1528 2130 1.702491 CGCTCGATTTTCCCGGGTTC 61.702 60.000 22.86 12.44 0.00 3.62
1536 2138 1.827578 GAATTGGCCGCTCGATTTTC 58.172 50.000 0.00 0.00 0.00 2.29
1537 2139 0.098728 CGAATTGGCCGCTCGATTTT 59.901 50.000 13.96 0.00 34.52 1.82
1574 2176 1.911057 CCACTCTGAAAGGAAACCCC 58.089 55.000 0.00 0.00 0.00 4.95
1575 2177 1.248486 GCCACTCTGAAAGGAAACCC 58.752 55.000 0.00 0.00 0.00 4.11
1576 2178 0.875059 CGCCACTCTGAAAGGAAACC 59.125 55.000 0.00 0.00 0.00 3.27
1577 2179 0.875059 CCGCCACTCTGAAAGGAAAC 59.125 55.000 0.00 0.00 0.00 2.78
1578 2180 0.250727 CCCGCCACTCTGAAAGGAAA 60.251 55.000 0.00 0.00 0.00 3.13
1579 2181 1.125093 TCCCGCCACTCTGAAAGGAA 61.125 55.000 0.00 0.00 0.00 3.36
1580 2182 1.535444 TCCCGCCACTCTGAAAGGA 60.535 57.895 0.00 0.00 0.00 3.36
1581 2183 1.078848 CTCCCGCCACTCTGAAAGG 60.079 63.158 0.00 0.00 0.00 3.11
1627 2232 2.954753 GAAGTGGTGCGCCGTCTTG 61.955 63.158 24.40 0.00 37.67 3.02
1699 2304 4.096682 ACGAAAGGAAAACGAAATTGGTGA 59.903 37.500 0.00 0.00 0.00 4.02
1702 2307 4.609708 CGTACGAAAGGAAAACGAAATTGG 59.390 41.667 10.44 0.00 35.66 3.16
1713 2318 1.337074 ACAATCCGCGTACGAAAGGAA 60.337 47.619 21.65 9.00 43.93 3.36
1724 2329 1.052287 GTGAAGCAAAACAATCCGCG 58.948 50.000 0.00 0.00 0.00 6.46
1778 2383 1.989165 CTTCACTGTTAGCGAGCAGTC 59.011 52.381 13.17 0.00 43.27 3.51
1802 2407 2.123982 GGCATCTGCTGAAGGGGG 60.124 66.667 1.70 0.00 41.70 5.40
1982 2587 5.464965 AATTACGAGGTAATTCAACTGCG 57.535 39.130 7.70 0.00 42.72 5.18
2295 2913 8.848474 TCCTACGGTATAAGGTAGTTGTATAC 57.152 38.462 0.00 0.00 35.46 1.47
2308 2926 6.663093 TCAGGTACAAGTTTCCTACGGTATAA 59.337 38.462 0.00 0.00 0.00 0.98
2324 2942 6.116711 TGGCAAGTAAGTATTCAGGTACAA 57.883 37.500 0.00 0.00 0.00 2.41
2403 3051 8.821894 GTTCAGATTGATAACTCATAGGTCAAC 58.178 37.037 0.00 0.00 32.30 3.18
2495 3144 2.194271 CTATGACCTCGAACCGAAAGC 58.806 52.381 0.00 0.00 34.74 3.51
2549 3199 2.253610 TCTGGATACCCGTTCACAGTT 58.746 47.619 0.00 0.00 34.29 3.16
2573 3223 4.274459 GTCTGAGCACAAACAGAGAATTGT 59.726 41.667 0.00 0.00 42.56 2.71
2706 3356 4.819630 ACAGATAACCAGAAGCGTTTTCAA 59.180 37.500 4.94 0.00 0.00 2.69
2707 3357 4.385825 ACAGATAACCAGAAGCGTTTTCA 58.614 39.130 4.94 0.00 0.00 2.69
2829 3479 6.195600 ACAACCAACAGAGGGTAAAGATTA 57.804 37.500 0.00 0.00 37.77 1.75
3076 3726 6.122850 TGACAATCTGTAATGCTTACATGC 57.877 37.500 8.55 0.00 44.46 4.06
3151 3803 6.698329 CAGAAATGCAAGAAACATGTCAGAAA 59.302 34.615 0.00 0.00 34.70 2.52
3152 3804 6.210796 CAGAAATGCAAGAAACATGTCAGAA 58.789 36.000 0.00 0.00 34.70 3.02
3153 3805 5.765176 CAGAAATGCAAGAAACATGTCAGA 58.235 37.500 0.00 0.00 34.70 3.27
3154 3806 4.384846 GCAGAAATGCAAGAAACATGTCAG 59.615 41.667 0.00 0.00 34.70 3.51
3157 3809 3.555586 GGGCAGAAATGCAAGAAACATGT 60.556 43.478 0.00 0.00 36.33 3.21
3158 3810 2.997986 GGGCAGAAATGCAAGAAACATG 59.002 45.455 2.29 0.00 36.33 3.21
3159 3811 2.633967 TGGGCAGAAATGCAAGAAACAT 59.366 40.909 2.29 0.00 36.33 2.71
3160 3812 2.037901 TGGGCAGAAATGCAAGAAACA 58.962 42.857 2.29 0.00 36.33 2.83
3161 3813 2.818130 TGGGCAGAAATGCAAGAAAC 57.182 45.000 2.29 0.00 36.33 2.78
3341 3993 0.371645 GAAGAGCAATGAAGCGTCCG 59.628 55.000 0.00 0.00 40.15 4.79
3377 4029 8.273780 AGCCAACACAAAATTTTATTTGAACA 57.726 26.923 2.44 0.00 41.73 3.18
3410 4063 2.288152 TGGGTGAAGAAAATTCGCTTGC 60.288 45.455 1.68 0.00 0.00 4.01
4042 4709 6.461110 TCTACTTACCTTTCGAGGGTATTG 57.539 41.667 16.49 14.62 38.85 1.90
4077 4744 7.765695 AAGTATCTCCTGAAATCAGCAAAAA 57.234 32.000 4.87 0.00 42.47 1.94
4078 4745 7.309377 CCAAAGTATCTCCTGAAATCAGCAAAA 60.309 37.037 4.87 0.00 42.47 2.44
4079 4746 6.151648 CCAAAGTATCTCCTGAAATCAGCAAA 59.848 38.462 4.87 0.00 42.47 3.68
4080 4747 5.649395 CCAAAGTATCTCCTGAAATCAGCAA 59.351 40.000 4.87 0.00 42.47 3.91
4344 5011 0.918983 ATGATTCCCGGGAGCTTCAA 59.081 50.000 26.92 13.71 0.00 2.69
4375 5042 2.807967 CAAATCGCTCCAGTCAAACTCA 59.192 45.455 0.00 0.00 0.00 3.41
4611 5287 4.703575 TCTTCCTGATTTCTCCATGCAAAG 59.296 41.667 0.00 0.00 0.00 2.77
4612 5288 4.665451 TCTTCCTGATTTCTCCATGCAAA 58.335 39.130 0.00 0.00 0.00 3.68
4730 5429 0.376152 GTGAAGATCATGCAGGTGCG 59.624 55.000 0.00 0.00 45.83 5.34
4941 5644 3.070159 GTCTTGCTCATACTGATGGCCTA 59.930 47.826 3.32 0.00 33.49 3.93
4993 5697 5.889853 TCTTCTAATTTGCCAATCAGCATCT 59.110 36.000 0.00 0.00 43.64 2.90
5169 5907 9.481340 GGTAAAATTTTCATTCTTTCTTGCTCT 57.519 29.630 6.72 0.00 0.00 4.09
5198 5936 0.387622 GCTGACACGTACAGGCGTAA 60.388 55.000 18.83 0.00 43.83 3.18
5257 5995 7.223971 ACAAGAGCTGAACGCGATAAAAATATA 59.776 33.333 15.93 0.00 45.59 0.86
5291 6031 4.439057 TCAGCGGACAGGAATATAACAAC 58.561 43.478 0.00 0.00 0.00 3.32
5351 6091 6.817765 ACAGTTGTCAGTTCAAGAGAAAAA 57.182 33.333 0.00 0.00 35.08 1.94
5352 6092 6.538742 CCTACAGTTGTCAGTTCAAGAGAAAA 59.461 38.462 0.00 0.00 35.08 2.29
5354 6094 5.601662 CCTACAGTTGTCAGTTCAAGAGAA 58.398 41.667 0.00 0.00 0.00 2.87
5357 6097 3.728845 GCCTACAGTTGTCAGTTCAAGA 58.271 45.455 0.00 0.00 0.00 3.02
5358 6098 2.476619 CGCCTACAGTTGTCAGTTCAAG 59.523 50.000 0.00 0.00 0.00 3.02
5359 6099 2.101750 TCGCCTACAGTTGTCAGTTCAA 59.898 45.455 0.00 0.00 0.00 2.69
5360 6100 1.684450 TCGCCTACAGTTGTCAGTTCA 59.316 47.619 0.00 0.00 0.00 3.18
5364 6731 1.798813 GGTTTCGCCTACAGTTGTCAG 59.201 52.381 0.00 0.00 0.00 3.51
5379 6746 1.692411 AGTTTCAGTGCTGGGGTTTC 58.308 50.000 0.00 0.00 0.00 2.78
5430 6797 4.202101 ACGCCAAGATTTTTGACAATGTCA 60.202 37.500 12.63 12.63 41.09 3.58
5460 6827 0.743097 GCCTGGAACATCTTGGATGC 59.257 55.000 0.00 0.00 38.20 3.91


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

AutoCloner maintained by Alex Coulton.