Multiple sequence alignment - TraesCS5B01G391300

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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 TraesCS5B01G391300 chr5B 100.000 2382 0 0 1 2382 570582800 570580419 0.000000e+00 4399.0
1 TraesCS5B01G391300 chr5B 100.000 417 0 0 2724 3140 570580077 570579661 0.000000e+00 771.0
2 TraesCS5B01G391300 chr5B 83.885 453 47 17 228 659 340636543 340636990 2.920000e-110 409.0
3 TraesCS5B01G391300 chr5B 86.508 126 11 5 101 225 690675237 690675117 1.960000e-27 134.0
4 TraesCS5B01G391300 chr5B 88.393 112 9 2 114 225 443269819 443269712 7.070000e-27 132.0
5 TraesCS5B01G391300 chr5B 91.111 45 3 1 91 134 670027267 670027311 3.380000e-05 60.2
6 TraesCS5B01G391300 chr5D 91.099 1146 58 22 989 2119 463908221 463907105 0.000000e+00 1511.0
7 TraesCS5B01G391300 chr5D 93.519 432 9 9 2725 3139 463905298 463904869 2.660000e-175 625.0
8 TraesCS5B01G391300 chr5D 85.203 419 45 9 255 659 525244591 525244176 6.270000e-112 414.0
9 TraesCS5B01G391300 chr5D 77.849 623 72 30 84 657 330398181 330398786 3.020000e-85 326.0
10 TraesCS5B01G391300 chr5D 86.598 194 8 4 2207 2382 463905532 463905339 6.870000e-47 198.0
11 TraesCS5B01G391300 chr5D 90.411 73 1 2 895 961 463908280 463908208 1.200000e-14 91.6
12 TraesCS5B01G391300 chr5A 87.380 1149 75 36 989 2124 584045948 584044857 0.000000e+00 1254.0
13 TraesCS5B01G391300 chr5A 94.371 302 8 5 2747 3047 584044102 584043809 3.690000e-124 455.0
14 TraesCS5B01G391300 chr5A 79.780 455 54 20 227 659 311874171 311874609 2.370000e-76 296.0
15 TraesCS5B01G391300 chr5A 88.511 235 8 3 2140 2360 584044690 584044461 1.860000e-67 267.0
16 TraesCS5B01G391300 chr5A 89.437 142 3 4 823 961 584046067 584045935 5.390000e-38 169.0
17 TraesCS5B01G391300 chr4A 87.019 416 37 11 255 659 743673201 743672792 1.330000e-123 453.0
18 TraesCS5B01G391300 chr4A 81.838 457 56 15 226 659 109190942 109190490 2.980000e-95 359.0
19 TraesCS5B01G391300 chr7B 81.787 582 65 20 111 659 425361030 425360457 1.720000e-122 449.0
20 TraesCS5B01G391300 chr1B 84.683 457 43 15 227 659 579006167 579005714 6.220000e-117 431.0
21 TraesCS5B01G391300 chr1B 78.905 621 63 30 158 721 272866580 272865971 2.980000e-95 359.0
22 TraesCS5B01G391300 chr6D 84.667 450 45 16 227 659 357560343 357560785 8.050000e-116 427.0
23 TraesCS5B01G391300 chr6D 82.390 159 16 10 69 222 461506702 461506853 9.140000e-26 128.0
24 TraesCS5B01G391300 chr4B 84.633 449 48 13 227 659 554187559 554187116 8.050000e-116 427.0
25 TraesCS5B01G391300 chr4B 81.731 104 14 1 204 302 21365929 21365826 7.220000e-12 82.4
26 TraesCS5B01G391300 chr7D 85.511 421 41 12 255 659 340296335 340296751 3.740000e-114 422.0
27 TraesCS5B01G391300 chr7D 76.471 476 49 28 1 437 263944877 263944426 1.910000e-47 200.0
28 TraesCS5B01G391300 chr1D 85.167 418 44 9 255 659 25950056 25950468 2.250000e-111 412.0
29 TraesCS5B01G391300 chr3B 82.323 396 47 11 280 659 670371292 670371680 3.910000e-84 322.0
30 TraesCS5B01G391300 chr3B 82.045 401 47 13 277 659 161445164 161445557 5.050000e-83 318.0
31 TraesCS5B01G391300 chr1A 81.176 425 52 16 255 659 258006063 258005647 1.820000e-82 316.0
32 TraesCS5B01G391300 chr1A 82.673 202 20 7 31 219 493940683 493940882 6.970000e-37 165.0
33 TraesCS5B01G391300 chr1A 80.383 209 20 13 31 225 50961945 50961744 4.220000e-29 139.0
34 TraesCS5B01G391300 chr1A 95.238 42 2 0 679 720 584781352 584781393 2.020000e-07 67.6
35 TraesCS5B01G391300 chr3D 77.974 454 54 17 31 459 580608852 580608420 3.130000e-60 243.0
36 TraesCS5B01G391300 chr2A 78.404 426 53 13 254 661 729542849 729543253 1.130000e-59 241.0
37 TraesCS5B01G391300 chr6A 79.814 322 39 15 111 419 72983070 72982762 8.820000e-51 211.0
38 TraesCS5B01G391300 chr7A 83.553 152 16 7 9 152 724321539 724321689 1.960000e-27 134.0


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 TraesCS5B01G391300 chr5B 570579661 570582800 3139 True 2585.00 4399 100.00000 1 3140 2 chr5B.!!$R3 3139
1 TraesCS5B01G391300 chr5D 463904869 463908280 3411 True 606.40 1511 90.40675 895 3139 4 chr5D.!!$R2 2244
2 TraesCS5B01G391300 chr5D 330398181 330398786 605 False 326.00 326 77.84900 84 657 1 chr5D.!!$F1 573
3 TraesCS5B01G391300 chr5A 584043809 584046067 2258 True 536.25 1254 89.92475 823 3047 4 chr5A.!!$R1 2224
4 TraesCS5B01G391300 chr7B 425360457 425361030 573 True 449.00 449 81.78700 111 659 1 chr7B.!!$R1 548
5 TraesCS5B01G391300 chr1B 272865971 272866580 609 True 359.00 359 78.90500 158 721 1 chr1B.!!$R1 563

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
222 226 0.040067 GAGAGGCACGGTTTTGCTTG 60.040 55.0 0.0 0.0 42.56 4.01 F
1655 1796 0.037232 GTCGCCAAAGAGGTACAGCT 60.037 55.0 0.0 0.0 40.61 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2080 2247 0.179250 CGTCGCATCAAAAGGACACG 60.179 55.0 0.00 0.0 0.0 4.49 R
2835 4555 0.680618 TGCTGTTTTGGCCAGGATTG 59.319 50.0 5.11 0.0 0.0 2.67 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
28 29 6.836577 TTTGCTTTTTAACAGATTTTCCGG 57.163 33.333 0.00 0.00 0.00 5.14
29 30 4.877282 TGCTTTTTAACAGATTTTCCGGG 58.123 39.130 0.00 0.00 0.00 5.73
30 31 4.342665 TGCTTTTTAACAGATTTTCCGGGT 59.657 37.500 0.00 0.00 0.00 5.28
31 32 5.163395 TGCTTTTTAACAGATTTTCCGGGTT 60.163 36.000 0.00 0.00 0.00 4.11
32 33 5.756347 GCTTTTTAACAGATTTTCCGGGTTT 59.244 36.000 0.00 0.00 0.00 3.27
33 34 6.259167 GCTTTTTAACAGATTTTCCGGGTTTT 59.741 34.615 0.00 0.00 0.00 2.43
34 35 7.201661 GCTTTTTAACAGATTTTCCGGGTTTTT 60.202 33.333 0.00 0.00 0.00 1.94
35 36 7.773864 TTTTAACAGATTTTCCGGGTTTTTC 57.226 32.000 0.00 0.00 0.00 2.29
36 37 6.718522 TTAACAGATTTTCCGGGTTTTTCT 57.281 33.333 0.00 0.00 0.00 2.52
37 38 7.820578 TTAACAGATTTTCCGGGTTTTTCTA 57.179 32.000 0.00 0.00 0.00 2.10
38 39 6.911250 AACAGATTTTCCGGGTTTTTCTAT 57.089 33.333 0.00 0.00 0.00 1.98
39 40 6.267496 ACAGATTTTCCGGGTTTTTCTATG 57.733 37.500 0.00 0.00 0.00 2.23
40 41 5.773176 ACAGATTTTCCGGGTTTTTCTATGT 59.227 36.000 0.00 0.00 0.00 2.29
41 42 6.266786 ACAGATTTTCCGGGTTTTTCTATGTT 59.733 34.615 0.00 0.00 0.00 2.71
42 43 7.151976 CAGATTTTCCGGGTTTTTCTATGTTT 58.848 34.615 0.00 0.00 0.00 2.83
43 44 7.328493 CAGATTTTCCGGGTTTTTCTATGTTTC 59.672 37.037 0.00 0.00 0.00 2.78
44 45 4.752661 TTCCGGGTTTTTCTATGTTTCG 57.247 40.909 0.00 0.00 0.00 3.46
45 46 3.075884 TCCGGGTTTTTCTATGTTTCGG 58.924 45.455 0.00 0.00 36.70 4.30
46 47 2.815503 CCGGGTTTTTCTATGTTTCGGT 59.184 45.455 0.00 0.00 0.00 4.69
47 48 3.253921 CCGGGTTTTTCTATGTTTCGGTT 59.746 43.478 0.00 0.00 0.00 4.44
48 49 4.261698 CCGGGTTTTTCTATGTTTCGGTTT 60.262 41.667 0.00 0.00 0.00 3.27
49 50 5.283294 CGGGTTTTTCTATGTTTCGGTTTT 58.717 37.500 0.00 0.00 0.00 2.43
50 51 5.749588 CGGGTTTTTCTATGTTTCGGTTTTT 59.250 36.000 0.00 0.00 0.00 1.94
51 52 6.074729 CGGGTTTTTCTATGTTTCGGTTTTTC 60.075 38.462 0.00 0.00 0.00 2.29
52 53 6.757478 GGGTTTTTCTATGTTTCGGTTTTTCA 59.243 34.615 0.00 0.00 0.00 2.69
53 54 7.254185 GGGTTTTTCTATGTTTCGGTTTTTCAC 60.254 37.037 0.00 0.00 0.00 3.18
54 55 7.254185 GGTTTTTCTATGTTTCGGTTTTTCACC 60.254 37.037 0.00 0.00 43.16 4.02
63 64 1.977056 GGTTTTTCACCGGTCTTCCT 58.023 50.000 2.59 0.00 35.12 3.36
64 65 2.304092 GGTTTTTCACCGGTCTTCCTT 58.696 47.619 2.59 0.00 35.12 3.36
65 66 3.479489 GGTTTTTCACCGGTCTTCCTTA 58.521 45.455 2.59 0.00 35.12 2.69
66 67 3.251729 GGTTTTTCACCGGTCTTCCTTAC 59.748 47.826 2.59 0.00 35.12 2.34
67 68 2.845363 TTTCACCGGTCTTCCTTACC 57.155 50.000 2.59 0.00 0.00 2.85
68 69 2.019807 TTCACCGGTCTTCCTTACCT 57.980 50.000 2.59 0.00 34.66 3.08
69 70 2.019807 TCACCGGTCTTCCTTACCTT 57.980 50.000 2.59 0.00 34.66 3.50
70 71 2.332117 TCACCGGTCTTCCTTACCTTT 58.668 47.619 2.59 0.00 34.66 3.11
71 72 2.707257 TCACCGGTCTTCCTTACCTTTT 59.293 45.455 2.59 0.00 34.66 2.27
72 73 2.812011 CACCGGTCTTCCTTACCTTTTG 59.188 50.000 2.59 0.00 34.66 2.44
74 75 2.039348 CCGGTCTTCCTTACCTTTTGGA 59.961 50.000 0.00 0.00 44.07 3.53
75 76 3.308188 CCGGTCTTCCTTACCTTTTGGAT 60.308 47.826 0.00 0.00 44.07 3.41
76 77 4.080751 CCGGTCTTCCTTACCTTTTGGATA 60.081 45.833 0.00 0.00 44.07 2.59
77 78 5.493809 CGGTCTTCCTTACCTTTTGGATAA 58.506 41.667 0.00 0.00 44.07 1.75
78 79 5.941647 CGGTCTTCCTTACCTTTTGGATAAA 59.058 40.000 0.00 0.00 44.07 1.40
79 80 6.431852 CGGTCTTCCTTACCTTTTGGATAAAA 59.568 38.462 0.00 0.00 44.07 1.52
80 81 7.040271 CGGTCTTCCTTACCTTTTGGATAAAAA 60.040 37.037 0.00 0.00 44.07 1.94
81 82 8.812972 GGTCTTCCTTACCTTTTGGATAAAAAT 58.187 33.333 0.00 0.00 44.07 1.82
137 140 0.590230 CACGGTTTTGCTTTCGCGAA 60.590 50.000 19.38 19.38 39.65 4.70
222 226 0.040067 GAGAGGCACGGTTTTGCTTG 60.040 55.000 0.00 0.00 42.56 4.01
225 229 2.278531 GCACGGTTTTGCTTGCGT 60.279 55.556 0.00 0.00 39.59 5.24
236 254 2.049156 CTTGCGTGTGCCTCTCGA 60.049 61.111 5.01 0.00 41.78 4.04
307 336 1.672356 GCGAGAGGCATGGTTGTGT 60.672 57.895 0.00 0.00 42.87 3.72
325 354 3.215597 TTTTCGCGAGAGGCACGGA 62.216 57.895 9.59 0.00 43.84 4.69
396 459 2.069273 ACGATTTTGCTTCCGTGAGAG 58.931 47.619 0.00 0.00 33.69 3.20
420 483 0.721718 GGTTGTGATTTCGCGAGAGG 59.278 55.000 9.59 0.00 43.69 3.69
423 486 1.014044 TGTGATTTCGCGAGAGGCAC 61.014 55.000 21.07 21.07 43.84 5.01
469 554 0.883370 GAAACTCGTGCTCCCGGTTT 60.883 55.000 0.00 0.00 35.46 3.27
471 556 2.035237 AACTCGTGCTCCCGGTTTGA 62.035 55.000 0.00 0.00 0.00 2.69
565 656 0.721718 GCGAGGAATCAAACGGTGAG 59.278 55.000 0.00 0.00 40.43 3.51
635 727 9.947669 TTGAATAAACGGATTTACGAAAAGAAA 57.052 25.926 0.00 0.00 33.09 2.52
636 728 9.947669 TGAATAAACGGATTTACGAAAAGAAAA 57.052 25.926 0.00 0.00 33.09 2.29
659 751 0.818040 AACTCCCAGGTTGCGACAAC 60.818 55.000 6.39 12.44 0.00 3.32
661 753 0.535102 CTCCCAGGTTGCGACAACTT 60.535 55.000 17.89 10.77 0.00 2.66
670 778 1.008538 GCGACAACTTGCAACCTGG 60.009 57.895 0.00 0.00 0.00 4.45
674 782 2.159310 CGACAACTTGCAACCTGGAAAA 60.159 45.455 0.00 0.00 0.00 2.29
675 783 3.674682 CGACAACTTGCAACCTGGAAAAA 60.675 43.478 0.00 0.00 0.00 1.94
678 786 3.473923 ACTTGCAACCTGGAAAAATGG 57.526 42.857 0.00 0.00 0.00 3.16
679 787 2.104622 ACTTGCAACCTGGAAAAATGGG 59.895 45.455 0.00 0.00 0.00 4.00
708 816 5.245531 TCTTTGCAACGAATACTCCTCAAT 58.754 37.500 2.67 0.00 0.00 2.57
711 819 7.552687 TCTTTGCAACGAATACTCCTCAATTAT 59.447 33.333 2.67 0.00 0.00 1.28
721 829 8.682936 AATACTCCTCAATTATTGATTTCGCT 57.317 30.769 8.17 0.00 39.30 4.93
722 830 6.610741 ACTCCTCAATTATTGATTTCGCTC 57.389 37.500 8.17 0.00 39.30 5.03
723 831 6.352516 ACTCCTCAATTATTGATTTCGCTCT 58.647 36.000 8.17 0.00 39.30 4.09
724 832 6.825721 ACTCCTCAATTATTGATTTCGCTCTT 59.174 34.615 8.17 0.00 39.30 2.85
725 833 7.011857 ACTCCTCAATTATTGATTTCGCTCTTC 59.988 37.037 8.17 0.00 39.30 2.87
726 834 7.050377 TCCTCAATTATTGATTTCGCTCTTCT 58.950 34.615 8.17 0.00 39.30 2.85
727 835 7.225538 TCCTCAATTATTGATTTCGCTCTTCTC 59.774 37.037 8.17 0.00 39.30 2.87
728 836 7.251704 TCAATTATTGATTTCGCTCTTCTCC 57.748 36.000 3.20 0.00 34.08 3.71
729 837 6.260936 TCAATTATTGATTTCGCTCTTCTCCC 59.739 38.462 3.20 0.00 34.08 4.30
730 838 2.010145 TTGATTTCGCTCTTCTCCCG 57.990 50.000 0.00 0.00 0.00 5.14
731 839 0.895530 TGATTTCGCTCTTCTCCCGT 59.104 50.000 0.00 0.00 0.00 5.28
732 840 1.135083 TGATTTCGCTCTTCTCCCGTC 60.135 52.381 0.00 0.00 0.00 4.79
733 841 0.895530 ATTTCGCTCTTCTCCCGTCA 59.104 50.000 0.00 0.00 0.00 4.35
734 842 0.677288 TTTCGCTCTTCTCCCGTCAA 59.323 50.000 0.00 0.00 0.00 3.18
735 843 0.243907 TTCGCTCTTCTCCCGTCAAG 59.756 55.000 0.00 0.00 0.00 3.02
736 844 0.608308 TCGCTCTTCTCCCGTCAAGA 60.608 55.000 0.00 0.00 0.00 3.02
737 845 0.456995 CGCTCTTCTCCCGTCAAGAC 60.457 60.000 0.00 0.00 0.00 3.01
750 858 2.408050 GTCAAGACGAGTGCAGATTGT 58.592 47.619 0.00 0.00 0.00 2.71
751 859 2.802816 GTCAAGACGAGTGCAGATTGTT 59.197 45.455 0.00 0.00 0.00 2.83
752 860 3.248602 GTCAAGACGAGTGCAGATTGTTT 59.751 43.478 0.00 0.00 0.00 2.83
753 861 3.876914 TCAAGACGAGTGCAGATTGTTTT 59.123 39.130 0.00 0.00 0.00 2.43
754 862 4.335315 TCAAGACGAGTGCAGATTGTTTTT 59.665 37.500 0.00 0.00 0.00 1.94
791 899 3.975168 TTTTTAAGAGGGAGAGGTCGG 57.025 47.619 0.00 0.00 0.00 4.79
792 900 1.861982 TTTAAGAGGGAGAGGTCGGG 58.138 55.000 0.00 0.00 0.00 5.14
793 901 0.708802 TTAAGAGGGAGAGGTCGGGT 59.291 55.000 0.00 0.00 0.00 5.28
794 902 0.708802 TAAGAGGGAGAGGTCGGGTT 59.291 55.000 0.00 0.00 0.00 4.11
795 903 0.178900 AAGAGGGAGAGGTCGGGTTT 60.179 55.000 0.00 0.00 0.00 3.27
796 904 0.178900 AGAGGGAGAGGTCGGGTTTT 60.179 55.000 0.00 0.00 0.00 2.43
797 905 0.691332 GAGGGAGAGGTCGGGTTTTT 59.309 55.000 0.00 0.00 0.00 1.94
865 973 2.685534 TTGTTATCGGGCCAGGGGG 61.686 63.158 4.39 0.00 37.18 5.40
881 989 1.312815 GGGGCTATCACACATTCTGC 58.687 55.000 0.00 0.00 0.00 4.26
883 991 0.940126 GGCTATCACACATTCTGCCG 59.060 55.000 0.00 0.00 0.00 5.69
884 992 1.656652 GCTATCACACATTCTGCCGT 58.343 50.000 0.00 0.00 0.00 5.68
885 993 1.328680 GCTATCACACATTCTGCCGTG 59.671 52.381 0.00 0.00 39.10 4.94
886 994 2.892374 CTATCACACATTCTGCCGTGA 58.108 47.619 0.00 0.00 37.46 4.35
887 995 1.730501 ATCACACATTCTGCCGTGAG 58.269 50.000 0.00 0.00 36.80 3.51
888 996 0.950555 TCACACATTCTGCCGTGAGC 60.951 55.000 0.00 0.00 44.14 4.26
961 1075 3.056891 GTCAGTAGAGCAGAGCAGTCTTT 60.057 47.826 0.00 0.00 0.00 2.52
962 1076 3.056962 TCAGTAGAGCAGAGCAGTCTTTG 60.057 47.826 0.00 0.00 0.00 2.77
973 1087 2.276732 CAGTCTTTGCCTCCCTCAAA 57.723 50.000 0.00 0.00 33.04 2.69
974 1088 2.586425 CAGTCTTTGCCTCCCTCAAAA 58.414 47.619 0.00 0.00 33.60 2.44
975 1089 2.958355 CAGTCTTTGCCTCCCTCAAAAA 59.042 45.455 0.00 0.00 33.60 1.94
976 1090 2.959030 AGTCTTTGCCTCCCTCAAAAAC 59.041 45.455 0.00 0.00 33.60 2.43
977 1091 2.693074 GTCTTTGCCTCCCTCAAAAACA 59.307 45.455 0.00 0.00 33.60 2.83
978 1092 3.132111 GTCTTTGCCTCCCTCAAAAACAA 59.868 43.478 0.00 0.00 33.60 2.83
979 1093 3.772025 TCTTTGCCTCCCTCAAAAACAAA 59.228 39.130 0.00 0.00 33.60 2.83
980 1094 4.223923 TCTTTGCCTCCCTCAAAAACAAAA 59.776 37.500 0.00 0.00 33.60 2.44
981 1095 4.559862 TTGCCTCCCTCAAAAACAAAAA 57.440 36.364 0.00 0.00 0.00 1.94
982 1096 3.867857 TGCCTCCCTCAAAAACAAAAAC 58.132 40.909 0.00 0.00 0.00 2.43
983 1097 3.261897 TGCCTCCCTCAAAAACAAAAACA 59.738 39.130 0.00 0.00 0.00 2.83
984 1098 4.257731 GCCTCCCTCAAAAACAAAAACAA 58.742 39.130 0.00 0.00 0.00 2.83
985 1099 4.697828 GCCTCCCTCAAAAACAAAAACAAA 59.302 37.500 0.00 0.00 0.00 2.83
986 1100 5.182190 GCCTCCCTCAAAAACAAAAACAAAA 59.818 36.000 0.00 0.00 0.00 2.44
987 1101 6.294231 GCCTCCCTCAAAAACAAAAACAAAAA 60.294 34.615 0.00 0.00 0.00 1.94
1033 1147 0.603975 GGAAAGCTCTGGTTCTGCGT 60.604 55.000 0.00 0.00 0.00 5.24
1056 1171 0.526211 GCTCCAACCAAATTCCGACC 59.474 55.000 0.00 0.00 0.00 4.79
1101 1222 3.256960 TGGGCCTCCTTCCACCAC 61.257 66.667 4.53 0.00 0.00 4.16
1105 1226 2.261671 CCTCCTTCCACCACGTCG 59.738 66.667 0.00 0.00 0.00 5.12
1236 1359 3.461773 CCCATCGTCGCCACCTCT 61.462 66.667 0.00 0.00 0.00 3.69
1238 1361 1.065928 CCATCGTCGCCACCTCTAC 59.934 63.158 0.00 0.00 0.00 2.59
1382 1523 1.824329 CTAGAGCGGCGGAGAAGGA 60.824 63.158 9.78 0.00 0.00 3.36
1384 1525 4.856607 GAGCGGCGGAGAAGGACG 62.857 72.222 9.78 0.00 0.00 4.79
1655 1796 0.037232 GTCGCCAAAGAGGTACAGCT 60.037 55.000 0.00 0.00 40.61 4.24
1658 1799 1.657822 GCCAAAGAGGTACAGCTAGC 58.342 55.000 6.62 6.62 40.61 3.42
1659 1800 1.208293 GCCAAAGAGGTACAGCTAGCT 59.792 52.381 12.68 12.68 40.61 3.32
1660 1801 2.431057 GCCAAAGAGGTACAGCTAGCTA 59.569 50.000 18.86 0.00 40.61 3.32
1661 1802 3.738590 GCCAAAGAGGTACAGCTAGCTAC 60.739 52.174 18.86 13.18 40.61 3.58
1687 1828 1.101331 GCAGCTCCATTCCCTTTCTG 58.899 55.000 0.00 0.00 0.00 3.02
1729 1870 3.813166 GCTGTTGCTCAACTAGTACCAAA 59.187 43.478 13.16 0.00 41.67 3.28
1760 1901 9.132521 GTCAGGAAATTCAGTTTTACATGAATG 57.867 33.333 0.00 0.00 43.56 2.67
1768 1909 7.218228 TCAGTTTTACATGAATGAACTGCAT 57.782 32.000 20.52 0.00 44.10 3.96
1775 1916 4.945543 ACATGAATGAACTGCATGCTCTTA 59.054 37.500 20.33 1.93 42.28 2.10
1797 1938 8.768397 TCTTAATAATCTTCCAAACTAGCCAGA 58.232 33.333 0.00 0.00 0.00 3.86
1799 1940 2.743636 TCTTCCAAACTAGCCAGACG 57.256 50.000 0.00 0.00 0.00 4.18
1843 2008 5.690865 TGGGGTGATTAAACCATCTATGAC 58.309 41.667 0.00 0.00 42.47 3.06
1857 2022 2.164422 TCTATGACTTCACTCACCTGCG 59.836 50.000 0.00 0.00 0.00 5.18
1991 2156 4.874966 GGAGATGTCAAGAACAAGATCCTG 59.125 45.833 0.00 0.00 42.37 3.86
2000 2165 1.645710 ACAAGATCCTGGACGACCTT 58.354 50.000 0.00 0.00 37.04 3.50
2012 2177 1.735198 CGACCTTAACGCCGCAGAA 60.735 57.895 0.00 0.00 0.00 3.02
2015 2180 1.741770 CCTTAACGCCGCAGAAGCT 60.742 57.895 0.00 0.00 39.10 3.74
2030 2197 4.022329 GCAGAAGCTTACCTCTAGATCTCC 60.022 50.000 0.00 0.00 37.91 3.71
2035 2202 3.006430 GCTTACCTCTAGATCTCCTTGCC 59.994 52.174 0.00 0.00 0.00 4.52
2053 2220 2.949714 CCTAGCGGCATTGTATTTCG 57.050 50.000 1.45 0.00 0.00 3.46
2062 2229 3.243267 GGCATTGTATTTCGGGCGTAAAT 60.243 43.478 1.97 1.97 0.00 1.40
2075 2242 5.005586 TCGGGCGTAAATTTCGTTATACTTG 59.994 40.000 0.00 0.00 0.00 3.16
2076 2243 5.220453 CGGGCGTAAATTTCGTTATACTTGT 60.220 40.000 0.00 0.00 0.00 3.16
2077 2244 5.961263 GGGCGTAAATTTCGTTATACTTGTG 59.039 40.000 0.00 0.00 0.00 3.33
2078 2245 5.961263 GGCGTAAATTTCGTTATACTTGTGG 59.039 40.000 0.00 0.00 0.00 4.17
2079 2246 6.183360 GGCGTAAATTTCGTTATACTTGTGGA 60.183 38.462 0.00 0.00 0.00 4.02
2080 2247 6.679919 GCGTAAATTTCGTTATACTTGTGGAC 59.320 38.462 0.00 0.00 0.00 4.02
2101 2268 1.136336 GTGTCCTTTTGATGCGACGTC 60.136 52.381 5.18 5.18 0.00 4.34
2107 2275 2.078849 TTTGATGCGACGTCATGAGT 57.921 45.000 17.16 0.00 0.00 3.41
2108 2276 2.931512 TTGATGCGACGTCATGAGTA 57.068 45.000 17.16 0.00 0.00 2.59
2109 2277 2.931512 TGATGCGACGTCATGAGTAA 57.068 45.000 17.16 0.00 0.00 2.24
2111 2279 3.780902 TGATGCGACGTCATGAGTAAAT 58.219 40.909 17.16 0.00 0.00 1.40
2113 2281 5.344884 TGATGCGACGTCATGAGTAAATAA 58.655 37.500 17.16 0.00 0.00 1.40
2115 2283 6.478673 TGATGCGACGTCATGAGTAAATAAAT 59.521 34.615 17.16 0.00 0.00 1.40
2117 2285 7.940178 TGCGACGTCATGAGTAAATAAATAT 57.060 32.000 17.16 0.00 0.00 1.28
2118 2286 8.360325 TGCGACGTCATGAGTAAATAAATATT 57.640 30.769 17.16 0.00 0.00 1.28
2120 2288 9.092322 GCGACGTCATGAGTAAATAAATATTTG 57.908 33.333 17.16 0.00 36.62 2.32
2121 2289 9.092322 CGACGTCATGAGTAAATAAATATTTGC 57.908 33.333 17.16 7.15 38.18 3.68
2175 3878 4.514441 CAGATGTAACCCTGATTGATGCTC 59.486 45.833 0.00 0.00 32.37 4.26
2200 3903 1.151721 AGGCCCCATCCCCTATGAG 60.152 63.158 0.00 0.00 37.86 2.90
2287 3990 1.199097 AGCTTTTTCGCCCATACAACG 59.801 47.619 0.00 0.00 0.00 4.10
2300 4003 3.804325 CCATACAACGAGCATCTTACAGG 59.196 47.826 0.00 0.00 0.00 4.00
2315 4032 4.761739 TCTTACAGGCAATGAGGTTCAAAG 59.238 41.667 0.00 0.00 0.00 2.77
2835 4555 1.153349 GGCTGTCCTGTCCGAATCC 60.153 63.158 0.00 0.00 0.00 3.01
2969 4697 6.131961 TCATCATCCATGTCTGTCTCTCTTA 58.868 40.000 0.00 0.00 33.66 2.10
3065 4793 2.295253 AATCTTGAGACCCGCGTAAG 57.705 50.000 4.92 0.00 43.44 2.34
3066 4794 1.183549 ATCTTGAGACCCGCGTAAGT 58.816 50.000 4.92 0.00 41.68 2.24
3095 4823 0.034756 ACTGCGGTACAACTCATGCA 59.965 50.000 0.00 0.00 0.00 3.96
3096 4824 1.339055 ACTGCGGTACAACTCATGCAT 60.339 47.619 0.00 0.00 0.00 3.96
3097 4825 1.063027 CTGCGGTACAACTCATGCATG 59.937 52.381 21.07 21.07 0.00 4.06
3101 4829 2.286595 CGGTACAACTCATGCATGCATC 60.287 50.000 30.07 15.76 33.90 3.91
3139 4876 3.792736 TACAGCCATGGCCCGGAC 61.793 66.667 33.14 4.73 43.17 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.201652 CCCGGAAAATCTGTTAAAAAGCAAAAA 60.202 33.333 0.73 0.00 0.00 1.94
4 5 6.258947 CCCGGAAAATCTGTTAAAAAGCAAAA 59.741 34.615 0.73 0.00 0.00 2.44
5 6 5.755861 CCCGGAAAATCTGTTAAAAAGCAAA 59.244 36.000 0.73 0.00 0.00 3.68
6 7 5.163395 ACCCGGAAAATCTGTTAAAAAGCAA 60.163 36.000 0.73 0.00 0.00 3.91
7 8 4.342665 ACCCGGAAAATCTGTTAAAAAGCA 59.657 37.500 0.73 0.00 0.00 3.91
8 9 4.878439 ACCCGGAAAATCTGTTAAAAAGC 58.122 39.130 0.73 0.00 0.00 3.51
9 10 7.780008 AAAACCCGGAAAATCTGTTAAAAAG 57.220 32.000 0.73 0.00 0.00 2.27
10 11 8.041919 AGAAAAACCCGGAAAATCTGTTAAAAA 58.958 29.630 0.73 0.00 0.00 1.94
11 12 7.557724 AGAAAAACCCGGAAAATCTGTTAAAA 58.442 30.769 0.73 0.00 0.00 1.52
12 13 7.114866 AGAAAAACCCGGAAAATCTGTTAAA 57.885 32.000 0.73 0.00 0.00 1.52
13 14 6.718522 AGAAAAACCCGGAAAATCTGTTAA 57.281 33.333 0.73 0.00 0.00 2.01
14 15 7.449086 ACATAGAAAAACCCGGAAAATCTGTTA 59.551 33.333 0.73 0.00 0.00 2.41
15 16 6.266786 ACATAGAAAAACCCGGAAAATCTGTT 59.733 34.615 0.73 0.00 0.00 3.16
16 17 5.773176 ACATAGAAAAACCCGGAAAATCTGT 59.227 36.000 0.73 0.00 0.00 3.41
17 18 6.267496 ACATAGAAAAACCCGGAAAATCTG 57.733 37.500 0.73 0.00 0.00 2.90
18 19 6.911250 AACATAGAAAAACCCGGAAAATCT 57.089 33.333 0.73 2.28 0.00 2.40
19 20 6.307077 CGAAACATAGAAAAACCCGGAAAATC 59.693 38.462 0.73 0.00 0.00 2.17
20 21 6.153756 CGAAACATAGAAAAACCCGGAAAAT 58.846 36.000 0.73 0.00 0.00 1.82
21 22 5.507650 CCGAAACATAGAAAAACCCGGAAAA 60.508 40.000 0.73 0.00 36.86 2.29
22 23 4.023021 CCGAAACATAGAAAAACCCGGAAA 60.023 41.667 0.73 0.00 36.86 3.13
23 24 3.502979 CCGAAACATAGAAAAACCCGGAA 59.497 43.478 0.73 0.00 36.86 4.30
24 25 3.075884 CCGAAACATAGAAAAACCCGGA 58.924 45.455 0.73 0.00 36.86 5.14
25 26 2.815503 ACCGAAACATAGAAAAACCCGG 59.184 45.455 0.00 0.00 40.15 5.73
26 27 4.492791 AACCGAAACATAGAAAAACCCG 57.507 40.909 0.00 0.00 0.00 5.28
27 28 6.757478 TGAAAAACCGAAACATAGAAAAACCC 59.243 34.615 0.00 0.00 0.00 4.11
28 29 7.254185 GGTGAAAAACCGAAACATAGAAAAACC 60.254 37.037 0.00 0.00 39.81 3.27
29 30 7.614908 GGTGAAAAACCGAAACATAGAAAAAC 58.385 34.615 0.00 0.00 39.81 2.43
30 31 7.758613 GGTGAAAAACCGAAACATAGAAAAA 57.241 32.000 0.00 0.00 39.81 1.94
44 45 1.977056 AGGAAGACCGGTGAAAAACC 58.023 50.000 14.63 6.78 46.60 3.27
45 46 3.251729 GGTAAGGAAGACCGGTGAAAAAC 59.748 47.826 14.63 0.00 41.83 2.43
46 47 3.136992 AGGTAAGGAAGACCGGTGAAAAA 59.863 43.478 14.63 0.00 42.21 1.94
47 48 2.707257 AGGTAAGGAAGACCGGTGAAAA 59.293 45.455 14.63 0.00 42.21 2.29
48 49 2.332117 AGGTAAGGAAGACCGGTGAAA 58.668 47.619 14.63 0.00 42.21 2.69
49 50 2.019807 AGGTAAGGAAGACCGGTGAA 57.980 50.000 14.63 0.00 42.21 3.18
50 51 2.019807 AAGGTAAGGAAGACCGGTGA 57.980 50.000 14.63 0.00 42.21 4.02
51 52 2.812011 CAAAAGGTAAGGAAGACCGGTG 59.188 50.000 14.63 0.00 42.21 4.94
52 53 2.224695 CCAAAAGGTAAGGAAGACCGGT 60.225 50.000 6.92 6.92 42.21 5.28
53 54 2.039348 TCCAAAAGGTAAGGAAGACCGG 59.961 50.000 0.00 0.00 42.21 5.28
54 55 3.412237 TCCAAAAGGTAAGGAAGACCG 57.588 47.619 0.00 0.00 42.21 4.79
55 56 7.770366 TTTTATCCAAAAGGTAAGGAAGACC 57.230 36.000 0.00 0.00 34.62 3.85
98 99 5.333798 CCGTGACTCTCGCAAAATAAAAAGA 60.334 40.000 0.00 0.00 0.00 2.52
99 100 4.846137 CCGTGACTCTCGCAAAATAAAAAG 59.154 41.667 0.00 0.00 0.00 2.27
137 140 0.247736 GAGAGGCACGACCATGACTT 59.752 55.000 0.00 0.00 38.40 3.01
192 196 2.042843 GCCTCTCTCGGAAGGGGA 60.043 66.667 7.94 0.00 0.00 4.81
193 197 2.364317 TGCCTCTCTCGGAAGGGG 60.364 66.667 0.00 0.00 0.00 4.79
194 198 2.896443 GTGCCTCTCTCGGAAGGG 59.104 66.667 0.00 0.00 0.00 3.95
202 206 0.179018 AAGCAAAACCGTGCCTCTCT 60.179 50.000 0.00 0.00 46.14 3.10
222 226 1.204312 GTTTTCGAGAGGCACACGC 59.796 57.895 0.00 0.00 33.00 5.34
325 354 4.355925 GTTTTCGAGGAGGCACGT 57.644 55.556 0.00 0.00 0.00 4.49
396 459 1.442017 GCGAAATCACAACCGTGCC 60.442 57.895 0.00 0.00 43.28 5.01
401 464 0.721718 CCTCTCGCGAAATCACAACC 59.278 55.000 11.33 0.00 0.00 3.77
438 523 1.270678 ACGAGTTTCTTCCCTTTCCGG 60.271 52.381 0.00 0.00 0.00 5.14
450 535 0.883370 AAACCGGGAGCACGAGTTTC 60.883 55.000 6.32 0.00 34.52 2.78
455 540 0.250553 AAATCAAACCGGGAGCACGA 60.251 50.000 6.32 0.00 35.47 4.35
528 614 4.389077 CCTCGCGTTCTTCAAAACTAGATT 59.611 41.667 5.77 0.00 0.00 2.40
565 656 1.389106 CGTCCAAATCTCGAACCGTTC 59.611 52.381 0.76 0.76 0.00 3.95
659 751 2.368221 TCCCATTTTTCCAGGTTGCAAG 59.632 45.455 0.00 0.00 0.00 4.01
661 753 1.969923 CTCCCATTTTTCCAGGTTGCA 59.030 47.619 0.00 0.00 0.00 4.08
670 778 5.138125 TGCAAAGATCACTCCCATTTTTC 57.862 39.130 0.00 0.00 0.00 2.29
674 782 2.489329 CGTTGCAAAGATCACTCCCATT 59.511 45.455 6.52 0.00 0.00 3.16
675 783 2.086869 CGTTGCAAAGATCACTCCCAT 58.913 47.619 6.52 0.00 0.00 4.00
678 786 4.631813 AGTATTCGTTGCAAAGATCACTCC 59.368 41.667 15.88 2.22 0.00 3.85
679 787 5.220491 GGAGTATTCGTTGCAAAGATCACTC 60.220 44.000 28.80 28.80 31.91 3.51
708 816 4.119862 CGGGAGAAGAGCGAAATCAATAA 58.880 43.478 0.00 0.00 0.00 1.40
711 819 1.275291 ACGGGAGAAGAGCGAAATCAA 59.725 47.619 0.00 0.00 0.00 2.57
721 829 1.166129 CTCGTCTTGACGGGAGAAGA 58.834 55.000 17.03 0.00 35.21 2.87
722 830 0.882474 ACTCGTCTTGACGGGAGAAG 59.118 55.000 26.79 16.15 37.01 2.85
723 831 0.596577 CACTCGTCTTGACGGGAGAA 59.403 55.000 26.79 5.79 37.01 2.87
724 832 1.863662 GCACTCGTCTTGACGGGAGA 61.864 60.000 26.79 6.13 37.01 3.71
725 833 1.444553 GCACTCGTCTTGACGGGAG 60.445 63.158 26.79 20.41 37.01 4.30
726 834 2.142357 CTGCACTCGTCTTGACGGGA 62.142 60.000 26.79 10.24 37.01 5.14
727 835 1.734477 CTGCACTCGTCTTGACGGG 60.734 63.158 19.80 19.80 39.89 5.28
728 836 0.109086 ATCTGCACTCGTCTTGACGG 60.109 55.000 20.71 14.35 0.00 4.79
729 837 1.388093 CAATCTGCACTCGTCTTGACG 59.612 52.381 15.98 15.98 0.00 4.35
730 838 2.408050 ACAATCTGCACTCGTCTTGAC 58.592 47.619 0.00 0.00 0.00 3.18
731 839 2.820059 ACAATCTGCACTCGTCTTGA 57.180 45.000 0.00 0.00 0.00 3.02
732 840 3.885484 AAACAATCTGCACTCGTCTTG 57.115 42.857 0.00 0.00 0.00 3.02
733 841 4.900635 AAAAACAATCTGCACTCGTCTT 57.099 36.364 0.00 0.00 0.00 3.01
771 879 2.570302 CCCGACCTCTCCCTCTTAAAAA 59.430 50.000 0.00 0.00 0.00 1.94
772 880 2.185387 CCCGACCTCTCCCTCTTAAAA 58.815 52.381 0.00 0.00 0.00 1.52
773 881 1.078324 ACCCGACCTCTCCCTCTTAAA 59.922 52.381 0.00 0.00 0.00 1.52
774 882 0.708802 ACCCGACCTCTCCCTCTTAA 59.291 55.000 0.00 0.00 0.00 1.85
775 883 0.708802 AACCCGACCTCTCCCTCTTA 59.291 55.000 0.00 0.00 0.00 2.10
776 884 0.178900 AAACCCGACCTCTCCCTCTT 60.179 55.000 0.00 0.00 0.00 2.85
777 885 0.178900 AAAACCCGACCTCTCCCTCT 60.179 55.000 0.00 0.00 0.00 3.69
778 886 0.691332 AAAAACCCGACCTCTCCCTC 59.309 55.000 0.00 0.00 0.00 4.30
779 887 2.864208 AAAAACCCGACCTCTCCCT 58.136 52.632 0.00 0.00 0.00 4.20
815 923 2.300437 CTCACCCGACCTCTCTCTTTTT 59.700 50.000 0.00 0.00 0.00 1.94
816 924 1.896465 CTCACCCGACCTCTCTCTTTT 59.104 52.381 0.00 0.00 0.00 2.27
817 925 1.075698 TCTCACCCGACCTCTCTCTTT 59.924 52.381 0.00 0.00 0.00 2.52
818 926 0.699399 TCTCACCCGACCTCTCTCTT 59.301 55.000 0.00 0.00 0.00 2.85
819 927 0.254747 CTCTCACCCGACCTCTCTCT 59.745 60.000 0.00 0.00 0.00 3.10
820 928 1.381165 GCTCTCACCCGACCTCTCTC 61.381 65.000 0.00 0.00 0.00 3.20
821 929 1.379309 GCTCTCACCCGACCTCTCT 60.379 63.158 0.00 0.00 0.00 3.10
865 973 1.328680 CACGGCAGAATGTGTGATAGC 59.671 52.381 0.00 0.00 43.91 2.97
890 998 3.770040 TCGGACATGGGCTCACCG 61.770 66.667 7.77 7.77 44.64 4.94
891 999 2.125106 GTCGGACATGGGCTCACC 60.125 66.667 2.62 0.00 40.81 4.02
961 1075 3.261897 TGTTTTTGTTTTTGAGGGAGGCA 59.738 39.130 0.00 0.00 0.00 4.75
962 1076 3.867857 TGTTTTTGTTTTTGAGGGAGGC 58.132 40.909 0.00 0.00 0.00 4.70
963 1077 6.809630 TTTTGTTTTTGTTTTTGAGGGAGG 57.190 33.333 0.00 0.00 0.00 4.30
984 1098 2.789491 GCAAGACTGCTCTGCTTTTT 57.211 45.000 0.00 0.00 45.74 1.94
999 1113 4.268359 AGCTTTCCTTCCTTATCTGCAAG 58.732 43.478 0.00 0.00 0.00 4.01
1000 1114 4.018960 AGAGCTTTCCTTCCTTATCTGCAA 60.019 41.667 0.00 0.00 0.00 4.08
1001 1115 3.521126 AGAGCTTTCCTTCCTTATCTGCA 59.479 43.478 0.00 0.00 0.00 4.41
1033 1147 2.039216 TCGGAATTTGGTTGGAGCTGTA 59.961 45.455 0.00 0.00 0.00 2.74
1056 1171 1.817099 GATTGGTCTGCGCAGAGGG 60.817 63.158 38.98 14.70 38.27 4.30
1236 1359 1.469251 GCAAGAACGAGCGGATGAGTA 60.469 52.381 0.00 0.00 0.00 2.59
1238 1361 1.424493 GGCAAGAACGAGCGGATGAG 61.424 60.000 0.00 0.00 0.00 2.90
1365 1503 2.119655 GTCCTTCTCCGCCGCTCTA 61.120 63.158 0.00 0.00 0.00 2.43
1396 1537 4.489771 CACCCCCTCGCCACCATC 62.490 72.222 0.00 0.00 0.00 3.51
1729 1870 8.062065 TGTAAAACTGAATTTCCTGACAAACT 57.938 30.769 0.00 0.00 0.00 2.66
1760 1901 7.012704 TGGAAGATTATTAAGAGCATGCAGTTC 59.987 37.037 21.98 9.02 0.00 3.01
1768 1909 7.499232 GGCTAGTTTGGAAGATTATTAAGAGCA 59.501 37.037 0.00 0.00 0.00 4.26
1775 1916 5.817816 CGTCTGGCTAGTTTGGAAGATTATT 59.182 40.000 0.00 0.00 0.00 1.40
1797 1938 9.040939 CCCAAATAAATCTTTTTCTTCAAACGT 57.959 29.630 0.00 0.00 0.00 3.99
1799 1940 9.337396 ACCCCAAATAAATCTTTTTCTTCAAAC 57.663 29.630 0.00 0.00 0.00 2.93
1821 1984 5.941788 AGTCATAGATGGTTTAATCACCCC 58.058 41.667 0.00 0.00 35.73 4.95
1857 2022 3.448660 GCATCCAATCCAATATTAGGGCC 59.551 47.826 0.00 0.00 0.00 5.80
1964 2129 1.348064 TGTTCTTGACATCTCCCGGT 58.652 50.000 0.00 0.00 32.00 5.28
1991 2156 3.184003 GCGGCGTTAAGGTCGTCC 61.184 66.667 21.53 4.25 37.35 4.79
2000 2165 0.738412 GGTAAGCTTCTGCGGCGTTA 60.738 55.000 9.37 0.00 45.42 3.18
2012 2177 3.895041 GCAAGGAGATCTAGAGGTAAGCT 59.105 47.826 0.00 0.00 0.00 3.74
2015 2180 4.544564 AGGCAAGGAGATCTAGAGGTAA 57.455 45.455 0.00 0.00 0.00 2.85
2035 2202 1.531149 CCCGAAATACAATGCCGCTAG 59.469 52.381 0.00 0.00 0.00 3.42
2053 2220 5.961263 CACAAGTATAACGAAATTTACGCCC 59.039 40.000 9.10 0.00 0.00 6.13
2062 2229 4.619973 ACACGTCCACAAGTATAACGAAA 58.380 39.130 0.00 0.00 37.13 3.46
2078 2245 1.136336 GTCGCATCAAAAGGACACGTC 60.136 52.381 0.00 0.00 0.00 4.34
2079 2246 0.865769 GTCGCATCAAAAGGACACGT 59.134 50.000 0.00 0.00 0.00 4.49
2080 2247 0.179250 CGTCGCATCAAAAGGACACG 60.179 55.000 0.00 0.00 0.00 4.49
2092 2259 6.844696 ATTTATTTACTCATGACGTCGCAT 57.155 33.333 11.62 0.00 0.00 4.73
2115 2283 8.613060 TGGCAAAACTGAATAAAATGCAAATA 57.387 26.923 0.00 0.00 34.14 1.40
2117 2285 6.932356 TGGCAAAACTGAATAAAATGCAAA 57.068 29.167 0.00 0.00 34.14 3.68
2118 2286 6.932356 TTGGCAAAACTGAATAAAATGCAA 57.068 29.167 0.00 0.00 34.14 4.08
2120 2288 5.796437 GCATTGGCAAAACTGAATAAAATGC 59.204 36.000 3.01 0.47 40.15 3.56
2154 3857 3.496130 CGAGCATCAATCAGGGTTACATC 59.504 47.826 0.00 0.00 33.17 3.06
2158 3861 1.475034 GGCGAGCATCAATCAGGGTTA 60.475 52.381 0.00 0.00 33.17 2.85
2200 3903 5.070685 AGGATGTTTTAACTGTGGAGGAAC 58.929 41.667 0.00 0.00 0.00 3.62
2287 3990 2.877168 CCTCATTGCCTGTAAGATGCTC 59.123 50.000 0.00 0.00 34.07 4.26
2300 4003 1.340889 TGCACCTTTGAACCTCATTGC 59.659 47.619 0.00 0.00 0.00 3.56
2315 4032 4.229876 GTTTCTGTCAATAGCTTTGCACC 58.770 43.478 0.00 0.00 0.00 5.01
2723 4443 7.718314 GGTAGAACGGGGATGATAGTTTTATTT 59.282 37.037 0.00 0.00 0.00 1.40
2835 4555 0.680618 TGCTGTTTTGGCCAGGATTG 59.319 50.000 5.11 0.00 0.00 2.67
2969 4697 3.349006 CAACGCAGCCTGCTTCGT 61.349 61.111 15.80 10.92 46.62 3.85
3059 4787 5.087397 CCGCAGTATTCTCTATACTTACGC 58.913 45.833 0.00 0.00 45.73 4.42
3065 4793 6.968250 AGTTGTACCGCAGTATTCTCTATAC 58.032 40.000 0.00 0.00 39.58 1.47
3066 4794 6.769341 TGAGTTGTACCGCAGTATTCTCTATA 59.231 38.462 0.00 0.00 0.00 1.31
3081 4809 2.947652 AGATGCATGCATGAGTTGTACC 59.052 45.455 36.73 18.60 36.70 3.34
3101 4829 9.543018 GCTGTACTTTTAAGTGTTTAGCAATAG 57.457 33.333 5.41 0.00 40.07 1.73


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

AutoCloner maintained by Alex Coulton.