Multiple sequence alignment - TraesCS7B01G088000

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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 TraesCS7B01G088000 chr7B 100.000 3099 0 0 1 3099 103304832 103301734 0.000000e+00 5723.0
1 TraesCS7B01G088000 chr7B 86.291 693 76 5 2369 3045 629565267 629565956 0.000000e+00 736.0
2 TraesCS7B01G088000 chr7B 80.000 685 97 16 2399 3045 5313044 5313726 1.300000e-128 470.0
3 TraesCS7B01G088000 chr7B 78.323 632 112 21 189 807 362029278 362028659 4.850000e-103 385.0
4 TraesCS7B01G088000 chr7B 89.615 260 26 1 547 806 103322378 103322120 2.300000e-86 329.0
5 TraesCS7B01G088000 chr7B 96.429 56 2 0 3044 3099 5313746 5313801 3.290000e-15 93.5
6 TraesCS7B01G088000 chr7D 89.971 1017 47 26 1020 1998 137901693 137900694 0.000000e+00 1262.0
7 TraesCS7B01G088000 chr7D 87.299 622 73 5 186 806 527922503 527923119 0.000000e+00 706.0
8 TraesCS7B01G088000 chr7D 83.866 626 94 6 186 807 436746288 436746910 9.570000e-165 590.0
9 TraesCS7B01G088000 chr7D 80.195 717 99 24 2369 3045 227286210 227285497 5.970000e-137 497.0
10 TraesCS7B01G088000 chr7D 92.582 337 21 3 2036 2368 137900693 137900357 6.010000e-132 481.0
11 TraesCS7B01G088000 chr7D 86.111 108 15 0 60 167 436746088 436746195 1.950000e-22 117.0
12 TraesCS7B01G088000 chr7A 88.519 1080 65 25 1195 2265 137916888 137915859 0.000000e+00 1253.0
13 TraesCS7B01G088000 chr7A 92.821 390 27 1 296 684 137928569 137928180 5.800000e-157 564.0
14 TraesCS7B01G088000 chr7A 90.984 244 15 4 680 922 137919387 137919150 3.860000e-84 322.0
15 TraesCS7B01G088000 chr7A 92.070 227 18 0 76 302 137937565 137937339 1.390000e-83 320.0
16 TraesCS7B01G088000 chr7A 88.846 260 29 0 547 806 138000168 137999909 1.390000e-83 320.0
17 TraesCS7B01G088000 chr7A 87.218 266 12 8 946 1194 137917181 137916921 1.820000e-72 283.0
18 TraesCS7B01G088000 chr7A 92.188 128 5 3 795 922 137919061 137918939 3.180000e-40 176.0
19 TraesCS7B01G088000 chr4D 87.906 678 65 4 2378 3038 117738562 117737885 0.000000e+00 782.0
20 TraesCS7B01G088000 chr4D 78.873 710 107 30 2369 3045 478221483 478220784 1.020000e-119 440.0
21 TraesCS7B01G088000 chr4D 92.857 56 4 0 3044 3099 117737855 117737800 7.120000e-12 82.4
22 TraesCS7B01G088000 chr3A 86.246 698 76 5 2364 3045 697498239 697498932 0.000000e+00 739.0
23 TraesCS7B01G088000 chr3A 85.744 477 48 8 2588 3045 488251693 488251218 1.290000e-133 486.0
24 TraesCS7B01G088000 chr4A 85.694 692 77 10 2373 3045 709271798 709271110 0.000000e+00 710.0
25 TraesCS7B01G088000 chr4A 85.000 400 54 4 2373 2769 468212395 468212791 4.810000e-108 401.0
26 TraesCS7B01G088000 chr4A 85.502 269 38 1 2770 3038 709269295 709269028 2.350000e-71 279.0
27 TraesCS7B01G088000 chr4A 96.296 54 2 0 3044 3097 709271087 709271034 4.260000e-14 89.8
28 TraesCS7B01G088000 chr5D 86.453 561 67 8 186 741 168821544 168820988 9.500000e-170 606.0
29 TraesCS7B01G088000 chr5D 80.057 697 106 23 2369 3038 434698725 434699415 1.290000e-133 486.0
30 TraesCS7B01G088000 chr5D 84.264 197 25 5 548 741 168833510 168833317 1.470000e-43 187.0
31 TraesCS7B01G088000 chr5D 73.506 502 118 12 186 680 281892314 281892807 3.180000e-40 176.0
32 TraesCS7B01G088000 chr2D 87.250 400 48 2 2372 2769 17065425 17065823 1.310000e-123 453.0
33 TraesCS7B01G088000 chr2D 83.130 492 66 5 2369 2844 72370016 72370506 1.710000e-117 433.0
34 TraesCS7B01G088000 chr2D 85.714 399 55 2 2367 2764 72626859 72627256 1.330000e-113 420.0
35 TraesCS7B01G088000 chr2A 78.999 719 106 22 2368 3045 704012618 704011904 1.690000e-122 449.0
36 TraesCS7B01G088000 chrUn 79.730 666 93 20 2419 3045 264417201 264416539 7.890000e-121 444.0
37 TraesCS7B01G088000 chrUn 94.643 56 3 0 3044 3099 71437823 71437768 1.530000e-13 87.9
38 TraesCS7B01G088000 chrUn 94.643 56 3 0 3044 3099 264416516 264416461 1.530000e-13 87.9
39 TraesCS7B01G088000 chrUn 94.643 56 3 0 3044 3099 295578855 295578800 1.530000e-13 87.9
40 TraesCS7B01G088000 chr5B 79.113 699 101 26 2369 3024 40971257 40970561 1.020000e-119 440.0
41 TraesCS7B01G088000 chr6D 84.826 402 57 4 2370 2769 103462904 103462505 4.810000e-108 401.0
42 TraesCS7B01G088000 chr6B 86.082 194 27 0 2839 3032 7842224 7842031 3.130000e-50 209.0
43 TraesCS7B01G088000 chr3B 74.104 502 115 11 186 680 511129601 511129108 3.150000e-45 193.0
44 TraesCS7B01G088000 chr1B 78.333 180 39 0 452 631 448270262 448270441 1.950000e-22 117.0


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 TraesCS7B01G088000 chr7B 103301734 103304832 3098 True 5723.00 5723 100.00000 1 3099 1 chr7B.!!$R1 3098
1 TraesCS7B01G088000 chr7B 629565267 629565956 689 False 736.00 736 86.29100 2369 3045 1 chr7B.!!$F1 676
2 TraesCS7B01G088000 chr7B 362028659 362029278 619 True 385.00 385 78.32300 189 807 1 chr7B.!!$R3 618
3 TraesCS7B01G088000 chr7B 5313044 5313801 757 False 281.75 470 88.21450 2399 3099 2 chr7B.!!$F2 700
4 TraesCS7B01G088000 chr7D 137900357 137901693 1336 True 871.50 1262 91.27650 1020 2368 2 chr7D.!!$R2 1348
5 TraesCS7B01G088000 chr7D 527922503 527923119 616 False 706.00 706 87.29900 186 806 1 chr7D.!!$F1 620
6 TraesCS7B01G088000 chr7D 227285497 227286210 713 True 497.00 497 80.19500 2369 3045 1 chr7D.!!$R1 676
7 TraesCS7B01G088000 chr7D 436746088 436746910 822 False 353.50 590 84.98850 60 807 2 chr7D.!!$F2 747
8 TraesCS7B01G088000 chr7A 137915859 137919387 3528 True 508.50 1253 89.72725 680 2265 4 chr7A.!!$R4 1585
9 TraesCS7B01G088000 chr4D 478220784 478221483 699 True 440.00 440 78.87300 2369 3045 1 chr4D.!!$R1 676
10 TraesCS7B01G088000 chr4D 117737800 117738562 762 True 432.20 782 90.38150 2378 3099 2 chr4D.!!$R2 721
11 TraesCS7B01G088000 chr3A 697498239 697498932 693 False 739.00 739 86.24600 2364 3045 1 chr3A.!!$F1 681
12 TraesCS7B01G088000 chr4A 709269028 709271798 2770 True 359.60 710 89.16400 2373 3097 3 chr4A.!!$R1 724
13 TraesCS7B01G088000 chr5D 168820988 168821544 556 True 606.00 606 86.45300 186 741 1 chr5D.!!$R1 555
14 TraesCS7B01G088000 chr5D 434698725 434699415 690 False 486.00 486 80.05700 2369 3038 1 chr5D.!!$F2 669
15 TraesCS7B01G088000 chr2A 704011904 704012618 714 True 449.00 449 78.99900 2368 3045 1 chr2A.!!$R1 677
16 TraesCS7B01G088000 chrUn 264416461 264417201 740 True 265.95 444 87.18650 2419 3099 2 chrUn.!!$R3 680
17 TraesCS7B01G088000 chr5B 40970561 40971257 696 True 440.00 440 79.11300 2369 3024 1 chr5B.!!$R1 655

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
53 54 0.036010 CTTCGTTGAGGGTCTGCCAT 60.036 55.0 0.00 0.0 36.17 4.40 F
56 57 0.036010 CGTTGAGGGTCTGCCATCTT 60.036 55.0 0.11 0.0 45.21 2.40 F
177 178 0.378257 AGCGAGCGCATACAAAATGG 59.622 50.0 17.68 0.0 44.88 3.16 F
1998 4086 0.099613 ATGTGACTCGCTACGCTCTG 59.900 55.0 0.00 0.0 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1170 3216 0.030908 GGGTCATCGCCTTACTCTCG 59.969 60.0 0.00 0.00 0.00 4.04 R
1336 3420 0.033228 GGCATCTCTATCTGCACGCT 59.967 55.0 0.00 0.00 40.18 5.07 R
2019 4107 0.239879 AATTGCCGCACTAAACACCG 59.760 50.0 0.00 0.00 0.00 4.94 R
2965 5109 0.034477 ATTTGTCTCCCGGGCGAAAT 60.034 50.0 16.43 9.72 0.00 2.17 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.388841 TTCCTTCTCACCCTCGGC 58.611 61.111 0.00 0.00 0.00 5.54
18 19 1.535444 TTCCTTCTCACCCTCGGCA 60.535 57.895 0.00 0.00 0.00 5.69
19 20 1.827399 TTCCTTCTCACCCTCGGCAC 61.827 60.000 0.00 0.00 0.00 5.01
20 21 2.583441 CCTTCTCACCCTCGGCACA 61.583 63.158 0.00 0.00 0.00 4.57
21 22 1.374758 CTTCTCACCCTCGGCACAC 60.375 63.158 0.00 0.00 0.00 3.82
22 23 3.220999 TTCTCACCCTCGGCACACG 62.221 63.158 0.00 0.00 46.11 4.49
32 33 3.578456 GGCACACGATCAGTTGGG 58.422 61.111 0.00 0.00 0.00 4.12
33 34 1.003839 GGCACACGATCAGTTGGGA 60.004 57.895 0.00 0.00 0.00 4.37
34 35 1.298859 GGCACACGATCAGTTGGGAC 61.299 60.000 0.00 0.00 0.00 4.46
35 36 0.320771 GCACACGATCAGTTGGGACT 60.321 55.000 0.00 0.00 36.25 3.85
36 37 1.878102 GCACACGATCAGTTGGGACTT 60.878 52.381 0.00 0.00 32.54 3.01
37 38 2.069273 CACACGATCAGTTGGGACTTC 58.931 52.381 0.00 0.00 32.54 3.01
38 39 1.336887 ACACGATCAGTTGGGACTTCG 60.337 52.381 0.00 0.00 40.34 3.79
39 40 0.966920 ACGATCAGTTGGGACTTCGT 59.033 50.000 0.00 1.67 41.84 3.85
40 41 1.343465 ACGATCAGTTGGGACTTCGTT 59.657 47.619 0.00 0.00 43.24 3.85
41 42 1.726791 CGATCAGTTGGGACTTCGTTG 59.273 52.381 0.00 0.00 33.54 4.10
42 43 2.609491 CGATCAGTTGGGACTTCGTTGA 60.609 50.000 0.00 0.00 33.54 3.18
43 44 2.526304 TCAGTTGGGACTTCGTTGAG 57.474 50.000 0.00 0.00 32.54 3.02
44 45 1.070134 TCAGTTGGGACTTCGTTGAGG 59.930 52.381 0.00 0.00 32.54 3.86
45 46 0.396811 AGTTGGGACTTCGTTGAGGG 59.603 55.000 0.00 0.00 29.87 4.30
46 47 0.108019 GTTGGGACTTCGTTGAGGGT 59.892 55.000 0.00 0.00 0.00 4.34
47 48 0.395312 TTGGGACTTCGTTGAGGGTC 59.605 55.000 0.00 0.00 0.00 4.46
48 49 0.471211 TGGGACTTCGTTGAGGGTCT 60.471 55.000 0.00 0.00 0.00 3.85
49 50 0.037232 GGGACTTCGTTGAGGGTCTG 60.037 60.000 0.00 0.00 0.00 3.51
50 51 0.670854 GGACTTCGTTGAGGGTCTGC 60.671 60.000 0.00 0.00 0.00 4.26
51 52 0.670854 GACTTCGTTGAGGGTCTGCC 60.671 60.000 0.00 0.00 0.00 4.85
52 53 1.371183 CTTCGTTGAGGGTCTGCCA 59.629 57.895 0.00 0.00 36.17 4.92
53 54 0.036010 CTTCGTTGAGGGTCTGCCAT 60.036 55.000 0.00 0.00 36.17 4.40
54 55 0.036388 TTCGTTGAGGGTCTGCCATC 60.036 55.000 0.00 0.00 45.20 3.51
55 56 0.904865 TCGTTGAGGGTCTGCCATCT 60.905 55.000 0.11 0.00 45.21 2.90
56 57 0.036010 CGTTGAGGGTCTGCCATCTT 60.036 55.000 0.11 0.00 45.21 2.40
57 58 1.743996 GTTGAGGGTCTGCCATCTTC 58.256 55.000 0.11 0.00 45.21 2.87
58 59 1.003580 GTTGAGGGTCTGCCATCTTCA 59.996 52.381 0.11 0.00 45.21 3.02
59 60 0.615331 TGAGGGTCTGCCATCTTCAC 59.385 55.000 0.11 0.00 45.21 3.18
60 61 0.615331 GAGGGTCTGCCATCTTCACA 59.385 55.000 0.00 0.00 41.97 3.58
61 62 1.211457 GAGGGTCTGCCATCTTCACAT 59.789 52.381 0.00 0.00 41.97 3.21
65 66 2.355513 GGTCTGCCATCTTCACATGAGT 60.356 50.000 0.00 0.00 34.09 3.41
70 71 4.338012 TGCCATCTTCACATGAGTTGATT 58.662 39.130 0.00 0.00 0.00 2.57
100 101 1.065564 GCCTCCATGACTGAGCTTCTT 60.066 52.381 0.00 0.00 0.00 2.52
103 104 1.205655 TCCATGACTGAGCTTCTTCGG 59.794 52.381 0.00 0.00 0.00 4.30
110 111 2.359230 AGCTTCTTCGGCAGCACC 60.359 61.111 0.00 0.00 38.61 5.01
116 117 0.613260 TCTTCGGCAGCACCTACAAT 59.387 50.000 0.00 0.00 35.61 2.71
124 125 2.703416 CAGCACCTACAATGAGCTCAA 58.297 47.619 22.50 2.60 32.35 3.02
129 130 4.256110 CACCTACAATGAGCTCAACATCA 58.744 43.478 22.50 4.42 0.00 3.07
131 132 3.624861 CCTACAATGAGCTCAACATCACC 59.375 47.826 22.50 0.00 0.00 4.02
137 138 2.634453 TGAGCTCAACATCACCTGAAGA 59.366 45.455 15.67 0.00 0.00 2.87
142 143 3.732212 TCAACATCACCTGAAGACACAG 58.268 45.455 0.00 0.00 37.61 3.66
169 170 3.716539 AAGCCGAAGCGAGCGCATA 62.717 57.895 17.68 0.00 46.67 3.14
170 171 3.989595 GCCGAAGCGAGCGCATAC 61.990 66.667 17.68 6.75 44.88 2.39
171 172 2.582226 CCGAAGCGAGCGCATACA 60.582 61.111 17.68 0.00 44.88 2.29
172 173 2.164663 CCGAAGCGAGCGCATACAA 61.165 57.895 17.68 0.00 44.88 2.41
173 174 1.692148 CCGAAGCGAGCGCATACAAA 61.692 55.000 17.68 0.00 44.88 2.83
175 176 1.267532 CGAAGCGAGCGCATACAAAAT 60.268 47.619 17.68 0.00 44.88 1.82
177 178 0.378257 AGCGAGCGCATACAAAATGG 59.622 50.000 17.68 0.00 44.88 3.16
179 180 1.002468 GCGAGCGCATACAAAATGGAT 60.002 47.619 11.47 0.00 41.49 3.41
180 181 2.541588 GCGAGCGCATACAAAATGGATT 60.542 45.455 11.47 0.00 41.49 3.01
181 182 3.694734 CGAGCGCATACAAAATGGATTT 58.305 40.909 11.47 0.00 0.00 2.17
216 291 2.196749 CTTATACTGTGCTGAGCCGTG 58.803 52.381 0.23 0.00 0.00 4.94
269 344 1.066573 ACGAGCTCCAGGATTCACAAG 60.067 52.381 8.47 0.00 0.00 3.16
284 359 2.230508 TCACAAGGTGATACACGTCTCC 59.769 50.000 0.00 0.00 37.67 3.71
320 395 4.872293 CCTCCCAAGGCCAATGTT 57.128 55.556 5.01 0.00 35.37 2.71
327 402 1.962807 CCAAGGCCAATGTTGAGTCAA 59.037 47.619 5.01 0.08 0.00 3.18
346 422 3.056179 TCAAATATCAGTGTGCGACTCCA 60.056 43.478 0.00 0.00 29.75 3.86
349 425 1.524008 ATCAGTGTGCGACTCCACGA 61.524 55.000 0.00 0.00 38.55 4.35
353 429 2.178521 GTGCGACTCCACGATCGT 59.821 61.111 16.60 16.60 40.49 3.73
355 431 1.443702 TGCGACTCCACGATCGTTG 60.444 57.895 20.14 16.15 40.49 4.10
388 464 2.193536 AGCGGCAGTGGTGAAAACC 61.194 57.895 1.45 0.00 0.00 3.27
392 468 1.398692 GGCAGTGGTGAAAACCAGAA 58.601 50.000 0.00 0.00 41.00 3.02
393 469 1.338020 GGCAGTGGTGAAAACCAGAAG 59.662 52.381 0.00 0.00 41.00 2.85
423 499 2.252072 GACGGCAAGCCCATACCTCA 62.252 60.000 5.34 0.00 0.00 3.86
478 554 2.032860 ATGATTCGTGGGAGGAGGCG 62.033 60.000 0.00 0.00 0.00 5.52
484 560 1.601419 CGTGGGAGGAGGCGTTTCTA 61.601 60.000 0.00 0.00 0.00 2.10
561 637 0.738389 GGGAATGTTATGTGGTGGCG 59.262 55.000 0.00 0.00 0.00 5.69
607 683 1.153647 CCGACGCAATCACCAGCTA 60.154 57.895 0.00 0.00 0.00 3.32
658 734 2.401766 GCATGGAGACGCAACCAGG 61.402 63.158 0.00 0.00 39.62 4.45
674 750 3.388913 ACCAGGAAGGAGGAAGATAAGG 58.611 50.000 0.00 0.00 41.22 2.69
714 791 1.480954 AGGGTCGTCGAGCAACATAAT 59.519 47.619 24.40 0.25 0.00 1.28
774 851 7.720442 TCTTGTATCCTGATTCTGTATCTGTG 58.280 38.462 0.00 0.00 34.17 3.66
848 1136 6.650372 GCTTAACGAGACAATGATTATGACC 58.350 40.000 0.00 0.00 0.00 4.02
855 1143 5.513233 AGACAATGATTATGACCTGCCTTT 58.487 37.500 0.00 0.00 0.00 3.11
856 1144 5.591877 AGACAATGATTATGACCTGCCTTTC 59.408 40.000 0.00 0.00 0.00 2.62
857 1145 4.336433 ACAATGATTATGACCTGCCTTTCG 59.664 41.667 0.00 0.00 0.00 3.46
858 1146 2.288666 TGATTATGACCTGCCTTTCGC 58.711 47.619 0.00 0.00 38.31 4.70
859 1147 2.092968 TGATTATGACCTGCCTTTCGCT 60.093 45.455 0.00 0.00 38.78 4.93
879 1167 4.905866 CGCTCATTCCAACGCTTATAATTG 59.094 41.667 0.00 0.00 0.00 2.32
885 1173 5.229921 TCCAACGCTTATAATTGTTGCTC 57.770 39.130 17.93 0.00 40.17 4.26
918 1206 6.528537 TTGTCCATGGATCTGGTTTTATTG 57.471 37.500 19.62 0.00 37.57 1.90
920 1208 6.015918 TGTCCATGGATCTGGTTTTATTGTT 58.984 36.000 19.62 0.00 37.57 2.83
921 1209 7.178573 TGTCCATGGATCTGGTTTTATTGTTA 58.821 34.615 19.62 0.00 37.57 2.41
923 1211 9.349713 GTCCATGGATCTGGTTTTATTGTTATA 57.650 33.333 19.62 0.00 37.57 0.98
999 3037 8.030692 TCTTGACAATCTTGAAATTAGCAATGG 58.969 33.333 0.00 0.00 0.00 3.16
1036 3080 5.462729 TGCGAAATACGTAACAGACTTGAAA 59.537 36.000 0.00 0.00 44.60 2.69
1069 3113 2.254350 GCTTTTTCGGGCGTGGTC 59.746 61.111 0.00 0.00 0.00 4.02
1070 3114 2.554272 CTTTTTCGGGCGTGGTCG 59.446 61.111 0.00 0.00 40.37 4.79
1071 3115 1.957186 CTTTTTCGGGCGTGGTCGA 60.957 57.895 0.00 0.00 39.71 4.20
1125 3169 5.337652 CGTCCCTTTTATGGAGACTTCTTCT 60.338 44.000 0.00 0.00 37.23 2.85
1147 3193 2.647299 TCCTGGCTTCTCACCCATTTTA 59.353 45.455 0.00 0.00 0.00 1.52
1170 3216 1.739562 CAGCAAGTCTCCTGCGGAC 60.740 63.158 0.00 0.00 0.00 4.79
1194 3240 3.967987 AGAGTAAGGCGATGACCCTATTT 59.032 43.478 0.00 0.00 30.93 1.40
1196 3242 5.601313 AGAGTAAGGCGATGACCCTATTTTA 59.399 40.000 0.00 0.00 30.93 1.52
1204 3283 5.511545 GCGATGACCCTATTTTATCTCAGGT 60.512 44.000 0.00 0.00 0.00 4.00
1255 3334 7.285401 ACTTCTTTTTCTGCCTAAATCAGTTGA 59.715 33.333 0.00 0.00 33.48 3.18
1263 3342 7.526608 TCTGCCTAAATCAGTTGAAATTAACG 58.473 34.615 0.00 0.00 35.73 3.18
1264 3343 7.174253 TCTGCCTAAATCAGTTGAAATTAACGT 59.826 33.333 0.00 0.00 35.73 3.99
1265 3344 7.302524 TGCCTAAATCAGTTGAAATTAACGTC 58.697 34.615 0.00 0.00 35.73 4.34
1267 3346 8.021396 GCCTAAATCAGTTGAAATTAACGTCTT 58.979 33.333 0.00 0.00 35.73 3.01
1268 3347 9.893305 CCTAAATCAGTTGAAATTAACGTCTTT 57.107 29.630 0.00 0.00 35.73 2.52
1272 3356 7.485418 TCAGTTGAAATTAACGTCTTTGCTA 57.515 32.000 0.00 0.00 35.73 3.49
1308 3392 8.056407 AGCAAGATAAGGTAGACAAAAATTCC 57.944 34.615 0.00 0.00 0.00 3.01
1316 3400 4.082733 GGTAGACAAAAATTCCACCAGAGC 60.083 45.833 0.00 0.00 0.00 4.09
1317 3401 3.837355 AGACAAAAATTCCACCAGAGCT 58.163 40.909 0.00 0.00 0.00 4.09
1320 3404 3.319122 ACAAAAATTCCACCAGAGCTGTC 59.681 43.478 0.00 0.00 0.00 3.51
1323 3407 0.687354 ATTCCACCAGAGCTGTCGTT 59.313 50.000 0.00 0.00 0.00 3.85
1335 3419 2.886124 GTCGTTAGGGAGCTGCGC 60.886 66.667 0.00 0.00 0.00 6.09
1336 3420 3.378602 TCGTTAGGGAGCTGCGCA 61.379 61.111 10.98 10.98 0.00 6.09
1337 3421 2.887568 CGTTAGGGAGCTGCGCAG 60.888 66.667 32.83 32.83 0.00 5.18
1468 3554 3.254060 GCGAGCTGTTCATGTCTCTTAA 58.746 45.455 0.00 0.00 0.00 1.85
1486 3572 2.435586 CTGCAACGAGGCTGAGGG 60.436 66.667 0.00 0.00 35.02 4.30
1490 3578 0.889186 GCAACGAGGCTGAGGGAAAA 60.889 55.000 0.00 0.00 0.00 2.29
1497 3585 0.318441 GGCTGAGGGAAAACTTTGGC 59.682 55.000 0.00 0.00 0.00 4.52
1666 3754 2.275318 GAGCCGATCAAGAAACAGGAG 58.725 52.381 0.00 0.00 0.00 3.69
1734 3822 1.938585 AAGGATGAGACGGTCAAGGA 58.061 50.000 11.27 0.00 39.19 3.36
1738 3826 2.233922 GGATGAGACGGTCAAGGAGAAA 59.766 50.000 11.27 0.00 39.19 2.52
1739 3827 3.516615 GATGAGACGGTCAAGGAGAAAG 58.483 50.000 11.27 0.00 39.19 2.62
1741 3829 2.558795 TGAGACGGTCAAGGAGAAAGAG 59.441 50.000 11.27 0.00 29.64 2.85
1742 3830 2.820787 GAGACGGTCAAGGAGAAAGAGA 59.179 50.000 11.27 0.00 0.00 3.10
1785 3873 4.643387 GGCCAAGGTCGTGCAGGT 62.643 66.667 6.26 0.00 0.00 4.00
1786 3874 3.357079 GCCAAGGTCGTGCAGGTG 61.357 66.667 6.26 0.00 0.00 4.00
1787 3875 3.357079 CCAAGGTCGTGCAGGTGC 61.357 66.667 6.26 0.00 42.50 5.01
1788 3876 3.357079 CAAGGTCGTGCAGGTGCC 61.357 66.667 6.26 10.01 41.18 5.01
1989 4077 2.730672 GCACCGTCATGTGACTCGC 61.731 63.158 11.03 6.98 42.66 5.03
1998 4086 0.099613 ATGTGACTCGCTACGCTCTG 59.900 55.000 0.00 0.00 0.00 3.35
1999 4087 1.870016 GTGACTCGCTACGCTCTGC 60.870 63.158 0.00 0.00 0.00 4.26
2000 4088 2.278271 GACTCGCTACGCTCTGCC 60.278 66.667 0.00 0.00 0.00 4.85
2003 4091 3.477224 CTCGCTACGCTCTGCCTCC 62.477 68.421 0.00 0.00 0.00 4.30
2004 4092 3.826754 CGCTACGCTCTGCCTCCA 61.827 66.667 0.00 0.00 0.00 3.86
2034 4122 2.667199 ACCGGTGTTTAGTGCGGC 60.667 61.111 6.12 0.00 0.00 6.53
2060 4148 2.357009 CCTCGTGTATAAGCACCGTACT 59.643 50.000 0.00 0.00 36.08 2.73
2066 4154 2.979814 ATAAGCACCGTACTGATGCA 57.020 45.000 13.31 0.00 40.85 3.96
2073 4161 3.457234 CACCGTACTGATGCACATGTAT 58.543 45.455 0.00 0.00 0.00 2.29
2162 4250 1.444553 GAGGAAGACGTCAGTGGCG 60.445 63.158 17.03 17.03 0.00 5.69
2173 4261 2.997315 AGTGGCGGCAGAGCACTA 60.997 61.111 13.91 0.00 39.27 2.74
2204 4293 4.688511 TTATGTTGCATTCCGTTACACC 57.311 40.909 0.00 0.00 0.00 4.16
2234 4323 4.343814 TCTTCACCAACCCCATTTTCTTTC 59.656 41.667 0.00 0.00 0.00 2.62
2285 4374 3.915437 AACCTCATGCGTTCGAAAAAT 57.085 38.095 0.00 0.00 0.00 1.82
2305 4394 4.657814 ATGGTGTGTTTAGGATGGACTT 57.342 40.909 0.00 0.00 0.00 3.01
2351 4443 1.686355 AACACCCGCACAAATCTTCA 58.314 45.000 0.00 0.00 0.00 3.02
2397 4491 1.208165 AAAGGAGGATTGACCCGGCT 61.208 55.000 0.00 0.00 40.05 5.52
2402 4496 1.201429 AGGATTGACCCGGCTTCTGT 61.201 55.000 0.00 0.00 40.05 3.41
2405 4499 2.367567 GGATTGACCCGGCTTCTGTATA 59.632 50.000 0.00 0.00 0.00 1.47
2539 4633 0.469917 ATGAAGGGGTGCCGATAGTG 59.530 55.000 0.00 0.00 0.00 2.74
2558 4652 1.014352 GCGAGCCGAATACCAAACAT 58.986 50.000 0.00 0.00 0.00 2.71
2586 4680 4.083003 CGCACCAAAGCCTAACATCTAAAA 60.083 41.667 0.00 0.00 0.00 1.52
2692 4817 1.685517 TCGATCCATCTTCAGAGCAGG 59.314 52.381 0.00 0.00 0.00 4.85
2741 4870 3.676605 TCGATGCCACCACGACGT 61.677 61.111 0.00 0.00 0.00 4.34
2765 4894 3.272364 AATGCCTTCCTCCTGCGCA 62.272 57.895 10.98 10.98 0.00 6.09
2788 4932 2.597805 ACGCCGAGACTCCACTGT 60.598 61.111 0.00 0.00 0.00 3.55
2790 4934 2.920645 CGCCGAGACTCCACTGTGT 61.921 63.158 7.08 0.00 0.00 3.72
2806 4950 0.671781 GTGTCACGCTGCCAAGATCT 60.672 55.000 0.00 0.00 0.00 2.75
2814 4958 2.892425 GCCAAGATCTGTCGGCGG 60.892 66.667 7.21 0.00 34.26 6.13
2909 5053 4.335647 CACAGCTCCCAAGGCGGT 62.336 66.667 0.00 0.00 38.51 5.68
2965 5109 2.203877 ACCCACCGCAGTTAGGGA 60.204 61.111 2.53 0.00 44.30 4.20
2970 5114 1.006832 CACCGCAGTTAGGGATTTCG 58.993 55.000 0.00 0.00 0.00 3.46
2988 5132 1.749258 GCCCGGGAGACAAATGACC 60.749 63.158 29.31 0.00 0.00 4.02
2999 5143 1.953686 ACAAATGACCCGGTTGAAGTG 59.046 47.619 8.59 0.00 0.00 3.16
3024 5168 0.453793 AGATCTGACAAGCGTCTCCG 59.546 55.000 0.00 0.00 43.06 4.63
3026 5170 1.400846 GATCTGACAAGCGTCTCCGTA 59.599 52.381 0.00 0.00 43.06 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.266055 GTGCCGAGGGTGAGAAGG 59.734 66.667 0.00 0.00 0.00 3.46
6 7 3.680786 TCGTGTGCCGAGGGTGAG 61.681 66.667 0.00 0.00 41.60 3.51
14 15 2.390599 CCCAACTGATCGTGTGCCG 61.391 63.158 0.00 0.00 38.13 5.69
15 16 1.003839 TCCCAACTGATCGTGTGCC 60.004 57.895 0.00 0.00 0.00 5.01
16 17 0.320771 AGTCCCAACTGATCGTGTGC 60.321 55.000 0.00 0.00 33.32 4.57
17 18 2.069273 GAAGTCCCAACTGATCGTGTG 58.931 52.381 0.00 0.00 35.36 3.82
18 19 1.336887 CGAAGTCCCAACTGATCGTGT 60.337 52.381 0.00 0.00 35.36 4.49
19 20 1.336887 ACGAAGTCCCAACTGATCGTG 60.337 52.381 4.92 0.00 43.68 4.35
20 21 0.966920 ACGAAGTCCCAACTGATCGT 59.033 50.000 0.00 0.00 41.70 3.73
21 22 1.726791 CAACGAAGTCCCAACTGATCG 59.273 52.381 0.00 0.00 45.00 3.69
22 23 2.996621 CTCAACGAAGTCCCAACTGATC 59.003 50.000 0.00 0.00 45.00 2.92
23 24 2.289694 CCTCAACGAAGTCCCAACTGAT 60.290 50.000 0.00 0.00 45.00 2.90
24 25 1.070134 CCTCAACGAAGTCCCAACTGA 59.930 52.381 0.00 0.00 45.00 3.41
25 26 1.512926 CCTCAACGAAGTCCCAACTG 58.487 55.000 0.00 0.00 45.00 3.16
26 27 0.396811 CCCTCAACGAAGTCCCAACT 59.603 55.000 0.00 0.00 45.00 3.16
27 28 0.108019 ACCCTCAACGAAGTCCCAAC 59.892 55.000 0.00 0.00 45.00 3.77
28 29 0.395312 GACCCTCAACGAAGTCCCAA 59.605 55.000 0.00 0.00 45.00 4.12
29 30 0.471211 AGACCCTCAACGAAGTCCCA 60.471 55.000 0.00 0.00 45.00 4.37
30 31 0.037232 CAGACCCTCAACGAAGTCCC 60.037 60.000 0.00 0.00 45.00 4.46
31 32 0.670854 GCAGACCCTCAACGAAGTCC 60.671 60.000 0.00 0.00 45.00 3.85
32 33 0.670854 GGCAGACCCTCAACGAAGTC 60.671 60.000 0.00 0.00 45.00 3.01
33 34 1.407656 TGGCAGACCCTCAACGAAGT 61.408 55.000 0.00 0.00 37.57 3.01
34 35 0.036010 ATGGCAGACCCTCAACGAAG 60.036 55.000 0.00 0.00 33.59 3.79
35 36 0.036388 GATGGCAGACCCTCAACGAA 60.036 55.000 0.00 0.00 31.28 3.85
36 37 0.904865 AGATGGCAGACCCTCAACGA 60.905 55.000 0.00 0.00 33.25 3.85
37 38 0.036010 AAGATGGCAGACCCTCAACG 60.036 55.000 0.00 0.00 33.25 4.10
38 39 1.003580 TGAAGATGGCAGACCCTCAAC 59.996 52.381 0.00 0.00 33.25 3.18
39 40 1.003580 GTGAAGATGGCAGACCCTCAA 59.996 52.381 0.00 0.00 33.25 3.02
40 41 0.615331 GTGAAGATGGCAGACCCTCA 59.385 55.000 0.00 0.00 33.25 3.86
41 42 0.615331 TGTGAAGATGGCAGACCCTC 59.385 55.000 0.00 0.00 33.59 4.30
42 43 1.064906 CATGTGAAGATGGCAGACCCT 60.065 52.381 0.00 0.00 33.59 4.34
43 44 1.065199 TCATGTGAAGATGGCAGACCC 60.065 52.381 0.00 0.00 33.59 4.46
44 45 2.286872 CTCATGTGAAGATGGCAGACC 58.713 52.381 0.00 0.00 0.00 3.85
45 46 2.983229 ACTCATGTGAAGATGGCAGAC 58.017 47.619 0.94 0.00 0.00 3.51
46 47 3.008266 TCAACTCATGTGAAGATGGCAGA 59.992 43.478 0.94 0.00 0.00 4.26
47 48 3.340928 TCAACTCATGTGAAGATGGCAG 58.659 45.455 0.94 0.00 0.00 4.85
48 49 3.421919 TCAACTCATGTGAAGATGGCA 57.578 42.857 0.94 0.00 0.00 4.92
49 50 4.397103 TCAATCAACTCATGTGAAGATGGC 59.603 41.667 0.94 0.00 0.00 4.40
50 51 6.317893 TCATCAATCAACTCATGTGAAGATGG 59.682 38.462 19.30 12.45 31.99 3.51
51 52 7.316544 TCATCAATCAACTCATGTGAAGATG 57.683 36.000 16.37 16.37 32.16 2.90
52 53 6.038382 GCTCATCAATCAACTCATGTGAAGAT 59.962 38.462 0.94 1.87 0.00 2.40
53 54 5.353400 GCTCATCAATCAACTCATGTGAAGA 59.647 40.000 0.94 0.00 0.00 2.87
54 55 5.570344 GCTCATCAATCAACTCATGTGAAG 58.430 41.667 0.94 0.00 0.00 3.02
55 56 4.093850 CGCTCATCAATCAACTCATGTGAA 59.906 41.667 0.94 0.00 0.00 3.18
56 57 3.619929 CGCTCATCAATCAACTCATGTGA 59.380 43.478 0.94 0.00 0.00 3.58
57 58 3.373130 ACGCTCATCAATCAACTCATGTG 59.627 43.478 0.00 0.00 0.00 3.21
58 59 3.373130 CACGCTCATCAATCAACTCATGT 59.627 43.478 0.00 0.00 0.00 3.21
59 60 3.787805 GCACGCTCATCAATCAACTCATG 60.788 47.826 0.00 0.00 0.00 3.07
60 61 2.353889 GCACGCTCATCAATCAACTCAT 59.646 45.455 0.00 0.00 0.00 2.90
61 62 1.733912 GCACGCTCATCAATCAACTCA 59.266 47.619 0.00 0.00 0.00 3.41
65 66 1.372582 GAGGCACGCTCATCAATCAA 58.627 50.000 0.00 0.00 0.00 2.57
70 71 1.153309 CATGGAGGCACGCTCATCA 60.153 57.895 0.00 0.00 0.00 3.07
100 101 0.108186 CTCATTGTAGGTGCTGCCGA 60.108 55.000 0.00 0.00 43.70 5.54
103 104 1.012841 GAGCTCATTGTAGGTGCTGC 58.987 55.000 9.40 0.00 33.83 5.25
110 111 4.331992 CAGGTGATGTTGAGCTCATTGTAG 59.668 45.833 19.04 0.00 0.00 2.74
116 117 2.634453 TCTTCAGGTGATGTTGAGCTCA 59.366 45.455 13.74 13.74 0.00 4.26
124 125 2.847327 CCTGTGTCTTCAGGTGATGT 57.153 50.000 4.75 0.00 46.92 3.06
131 132 4.142730 GCTTTTATCAGCCTGTGTCTTCAG 60.143 45.833 0.00 0.00 33.21 3.02
143 144 1.004504 CTCGCTTCGGCTTTTATCAGC 60.005 52.381 0.00 0.00 39.13 4.26
145 146 1.006832 GCTCGCTTCGGCTTTTATCA 58.993 50.000 0.00 0.00 39.13 2.15
157 158 1.202177 CCATTTTGTATGCGCTCGCTT 60.202 47.619 9.73 11.44 42.51 4.68
167 168 6.238266 CGTAGTACGGCAAATCCATTTTGTAT 60.238 38.462 15.02 0.00 38.89 2.29
168 169 5.063691 CGTAGTACGGCAAATCCATTTTGTA 59.936 40.000 15.02 0.00 38.89 2.41
169 170 4.142773 CGTAGTACGGCAAATCCATTTTGT 60.143 41.667 15.02 0.00 38.89 2.83
170 171 4.339429 CGTAGTACGGCAAATCCATTTTG 58.661 43.478 15.02 0.00 39.29 2.44
171 172 4.609691 CGTAGTACGGCAAATCCATTTT 57.390 40.909 15.02 0.00 38.08 1.82
216 291 0.965439 TTGTATGCAACTGCCCCAAC 59.035 50.000 0.00 0.00 41.18 3.77
249 324 0.976641 TTGTGAATCCTGGAGCTCGT 59.023 50.000 7.83 0.00 0.00 4.18
251 326 1.280421 ACCTTGTGAATCCTGGAGCTC 59.720 52.381 4.71 4.71 0.00 4.09
269 344 0.179108 GCTGGGAGACGTGTATCACC 60.179 60.000 0.00 0.00 0.00 4.02
316 391 5.163824 CGCACACTGATATTTGACTCAACAT 60.164 40.000 0.00 0.00 0.00 2.71
320 395 3.926527 GTCGCACACTGATATTTGACTCA 59.073 43.478 0.00 0.00 0.00 3.41
327 402 2.735444 CGTGGAGTCGCACACTGATATT 60.735 50.000 10.95 0.00 34.41 1.28
346 422 3.364889 TGAAGAAGACACAACGATCGT 57.635 42.857 16.60 16.60 0.00 3.73
349 425 3.804036 TGGTTGAAGAAGACACAACGAT 58.196 40.909 0.00 0.00 42.92 3.73
353 429 1.939934 CGCTGGTTGAAGAAGACACAA 59.060 47.619 0.00 0.00 0.00 3.33
355 431 0.868406 CCGCTGGTTGAAGAAGACAC 59.132 55.000 0.00 0.00 0.00 3.67
388 464 1.059994 GTCGCGCTGAATGCTTCTG 59.940 57.895 5.56 0.00 40.11 3.02
403 479 2.895372 GGTATGGGCTTGCCGTCG 60.895 66.667 5.49 0.00 0.00 5.12
405 481 2.297895 TGAGGTATGGGCTTGCCGT 61.298 57.895 5.49 0.00 0.00 5.68
440 516 3.746949 GATCTGCAGGGCGGTCTGG 62.747 68.421 15.13 0.00 36.18 3.86
449 525 1.871676 CCACGAATCATGATCTGCAGG 59.128 52.381 15.13 6.72 0.00 4.85
478 554 3.246936 GGAACCGGCGATGTAATAGAAAC 59.753 47.826 9.30 0.00 0.00 2.78
484 560 4.870190 GGGAACCGGCGATGTAAT 57.130 55.556 9.30 0.00 40.86 1.89
539 615 2.954539 GCCACCACATAACATTCCCCAT 60.955 50.000 0.00 0.00 0.00 4.00
561 637 2.679082 TGGGTCATCTTCCTAGGCTAC 58.321 52.381 2.96 0.00 0.00 3.58
575 651 4.649705 TCGGGAGGCCTTGGGTCA 62.650 66.667 6.77 0.00 0.00 4.02
631 707 3.785859 TCTCCATGCTGGACGCCC 61.786 66.667 1.25 0.00 42.67 6.13
649 725 0.674895 CTTCCTCCTTCCTGGTTGCG 60.675 60.000 0.00 0.00 37.07 4.85
658 734 4.290942 TCACCTCCTTATCTTCCTCCTTC 58.709 47.826 0.00 0.00 0.00 3.46
674 750 3.056179 CCTCCTCTCTGTTCTTTCACCTC 60.056 52.174 0.00 0.00 0.00 3.85
774 851 2.418884 CCGCTAGGGTTTTTCCTCTCTC 60.419 54.545 6.02 0.00 38.30 3.20
843 1131 0.254178 ATGAGCGAAAGGCAGGTCAT 59.746 50.000 4.56 4.56 46.46 3.06
855 1143 2.309528 ATAAGCGTTGGAATGAGCGA 57.690 45.000 0.00 0.00 34.34 4.93
856 1144 4.732285 ATTATAAGCGTTGGAATGAGCG 57.268 40.909 0.00 0.00 34.34 5.03
857 1145 5.821204 ACAATTATAAGCGTTGGAATGAGC 58.179 37.500 3.12 0.00 0.00 4.26
858 1146 6.197096 GCAACAATTATAAGCGTTGGAATGAG 59.803 38.462 21.94 5.09 39.27 2.90
859 1147 6.033341 GCAACAATTATAAGCGTTGGAATGA 58.967 36.000 21.94 0.00 39.27 2.57
879 1167 2.000447 GACAATGGACTACCGAGCAAC 59.000 52.381 0.00 0.00 39.42 4.17
923 1211 9.621629 TCCAAGTTCCAACGATTAATAATACAT 57.378 29.630 0.00 0.00 0.00 2.29
982 3010 8.954950 TTTTGAAACCATTGCTAATTTCAAGA 57.045 26.923 10.00 4.78 46.24 3.02
983 3011 8.284693 CCTTTTGAAACCATTGCTAATTTCAAG 58.715 33.333 10.00 2.14 46.24 3.02
985 3013 7.504403 TCCTTTTGAAACCATTGCTAATTTCA 58.496 30.769 0.00 0.00 38.85 2.69
994 3032 4.305769 TCGCATTCCTTTTGAAACCATTG 58.694 39.130 0.00 0.00 36.33 2.82
999 3037 5.627780 ACGTATTTCGCATTCCTTTTGAAAC 59.372 36.000 0.00 0.00 44.19 2.78
1070 3114 3.414700 CTTGGCTGCACCGTCGTC 61.415 66.667 0.50 0.00 43.94 4.20
1071 3115 4.235762 ACTTGGCTGCACCGTCGT 62.236 61.111 0.50 0.00 43.94 4.34
1106 3150 6.597280 CCAGGAAGAAGAAGTCTCCATAAAAG 59.403 42.308 0.00 0.00 34.56 2.27
1125 3169 1.075601 AATGGGTGAGAAGCCAGGAA 58.924 50.000 2.81 0.00 0.00 3.36
1147 3193 0.108424 GCAGGAGACTTGCTGACGAT 60.108 55.000 0.00 0.00 44.79 3.73
1170 3216 0.030908 GGGTCATCGCCTTACTCTCG 59.969 60.000 0.00 0.00 0.00 4.04
1181 3227 6.015010 AGACCTGAGATAAAATAGGGTCATCG 60.015 42.308 11.05 0.00 42.69 3.84
1196 3242 8.547173 AGATCAATAAACAAGAAGACCTGAGAT 58.453 33.333 0.00 0.00 0.00 2.75
1241 3320 7.527457 AGACGTTAATTTCAACTGATTTAGGC 58.473 34.615 0.00 0.00 0.00 3.93
1255 3334 6.546395 CAGAGCATAGCAAAGACGTTAATTT 58.454 36.000 0.00 0.00 0.00 1.82
1263 3342 2.608546 CTCTGCAGAGCATAGCAAAGAC 59.391 50.000 29.79 0.00 40.73 3.01
1264 3343 2.902523 CTCTGCAGAGCATAGCAAAGA 58.097 47.619 29.79 0.00 40.73 2.52
1308 3392 0.108615 CCCTAACGACAGCTCTGGTG 60.109 60.000 1.66 0.00 37.06 4.17
1316 3400 1.517257 CGCAGCTCCCTAACGACAG 60.517 63.158 0.00 0.00 0.00 3.51
1317 3401 2.571757 CGCAGCTCCCTAACGACA 59.428 61.111 0.00 0.00 0.00 4.35
1335 3419 1.138337 GCATCTCTATCTGCACGCTG 58.862 55.000 0.00 0.00 38.28 5.18
1336 3420 0.033228 GGCATCTCTATCTGCACGCT 59.967 55.000 0.00 0.00 40.18 5.07
1337 3421 1.280886 CGGCATCTCTATCTGCACGC 61.281 60.000 0.00 0.00 40.18 5.34
1346 3430 2.597455 TGATGATGGTCGGCATCTCTA 58.403 47.619 0.00 0.00 41.08 2.43
1347 3431 1.417288 TGATGATGGTCGGCATCTCT 58.583 50.000 0.00 0.00 41.08 3.10
1348 3432 2.289257 TGATGATGATGGTCGGCATCTC 60.289 50.000 0.00 0.00 41.08 2.75
1349 3433 1.695788 TGATGATGATGGTCGGCATCT 59.304 47.619 0.00 0.00 41.08 2.90
1468 3554 2.345244 CCTCAGCCTCGTTGCAGT 59.655 61.111 2.08 0.00 0.00 4.40
1486 3572 3.551659 CCTTCTCTGCAGCCAAAGTTTTC 60.552 47.826 9.47 0.00 0.00 2.29
1490 3578 0.251077 CCCTTCTCTGCAGCCAAAGT 60.251 55.000 9.47 0.00 0.00 2.66
1497 3585 1.345741 TGAACTCACCCTTCTCTGCAG 59.654 52.381 7.63 7.63 0.00 4.41
1690 3778 3.012722 CCCGGGGGCTTCACCTTA 61.013 66.667 14.71 0.00 39.10 2.69
1734 3822 2.435059 GCGGCGGCTTCTCTTTCT 60.435 61.111 9.78 0.00 35.83 2.52
1769 3857 3.357079 CACCTGCACGACCTTGGC 61.357 66.667 0.00 0.00 0.00 4.52
1810 3898 1.311059 GAACGGGTAGGGGTAGGGA 59.689 63.158 0.00 0.00 0.00 4.20
1989 4077 2.103143 CGTGGAGGCAGAGCGTAG 59.897 66.667 0.00 0.00 0.00 3.51
2010 4098 0.319813 ACTAAACACCGGTGGTACGC 60.320 55.000 36.47 0.00 32.11 4.42
2011 4099 1.421382 CACTAAACACCGGTGGTACG 58.579 55.000 36.47 26.07 32.11 3.67
2012 4100 1.150827 GCACTAAACACCGGTGGTAC 58.849 55.000 36.47 16.72 32.11 3.34
2013 4101 0.319727 CGCACTAAACACCGGTGGTA 60.320 55.000 36.47 25.64 32.11 3.25
2014 4102 1.595929 CGCACTAAACACCGGTGGT 60.596 57.895 36.47 30.56 35.62 4.16
2015 4103 2.322081 CCGCACTAAACACCGGTGG 61.322 63.158 36.47 21.74 36.18 4.61
2016 4104 2.961669 GCCGCACTAAACACCGGTG 61.962 63.158 32.83 32.83 42.54 4.94
2017 4105 2.667199 GCCGCACTAAACACCGGT 60.667 61.111 0.00 0.00 42.54 5.28
2018 4106 1.582610 ATTGCCGCACTAAACACCGG 61.583 55.000 0.00 0.00 43.38 5.28
2019 4107 0.239879 AATTGCCGCACTAAACACCG 59.760 50.000 0.00 0.00 0.00 4.94
2020 4108 1.402325 GGAATTGCCGCACTAAACACC 60.402 52.381 0.00 0.00 0.00 4.16
2021 4109 1.539827 AGGAATTGCCGCACTAAACAC 59.460 47.619 0.00 0.00 43.43 3.32
2022 4110 1.810151 GAGGAATTGCCGCACTAAACA 59.190 47.619 0.00 0.00 43.43 2.83
2023 4111 1.202031 CGAGGAATTGCCGCACTAAAC 60.202 52.381 0.00 0.00 43.43 2.01
2024 4112 1.083489 CGAGGAATTGCCGCACTAAA 58.917 50.000 0.00 0.00 43.43 1.85
2034 4122 3.245284 CGGTGCTTATACACGAGGAATTG 59.755 47.826 0.00 0.00 41.65 2.32
2060 4148 2.977772 TCGGTCATACATGTGCATCA 57.022 45.000 9.11 0.00 0.00 3.07
2066 4154 1.070758 GCTGGGATCGGTCATACATGT 59.929 52.381 2.69 2.69 0.00 3.21
2073 4161 0.251916 ATTTTCGCTGGGATCGGTCA 59.748 50.000 0.00 0.00 0.00 4.02
2111 4199 7.771361 TGTTTCACAGTTTCACTTACAGGAATA 59.229 33.333 0.00 0.00 0.00 1.75
2116 4204 5.739161 GCTTGTTTCACAGTTTCACTTACAG 59.261 40.000 0.00 0.00 0.00 2.74
2137 4225 0.894184 TGACGTCTTCCTCCTCGCTT 60.894 55.000 17.92 0.00 0.00 4.68
2139 4227 1.137825 CTGACGTCTTCCTCCTCGC 59.862 63.158 17.92 0.00 0.00 5.03
2162 4250 1.376037 AAAGCGGTAGTGCTCTGCC 60.376 57.895 12.39 12.39 46.60 4.85
2173 4261 3.658757 ATGCAACATAAACAAAGCGGT 57.341 38.095 0.00 0.00 0.00 5.68
2234 4323 4.275936 AGTGAAAAATGAGAACACCCGAAG 59.724 41.667 0.00 0.00 32.76 3.79
2285 4374 5.570205 TTAAGTCCATCCTAAACACACCA 57.430 39.130 0.00 0.00 0.00 4.17
2336 4428 1.434555 TACGTGAAGATTTGTGCGGG 58.565 50.000 0.00 0.00 0.00 6.13
2389 4482 1.002087 CCCATATACAGAAGCCGGGTC 59.998 57.143 6.62 0.04 0.00 4.46
2397 4491 3.337358 CATGCATCGCCCATATACAGAA 58.663 45.455 0.00 0.00 0.00 3.02
2402 4496 1.741528 CTGCATGCATCGCCCATATA 58.258 50.000 22.97 0.00 0.00 0.86
2405 4499 3.602677 GCTGCATGCATCGCCCAT 61.603 61.111 22.97 0.00 42.31 4.00
2483 4577 2.760650 AGTGACAGATGTTGCCGAGATA 59.239 45.455 0.00 0.00 0.00 1.98
2539 4633 1.014352 ATGTTTGGTATTCGGCTCGC 58.986 50.000 0.00 0.00 0.00 5.03
2558 4652 2.224329 TGTTAGGCTTTGGTGCGAAGTA 60.224 45.455 0.00 0.00 0.00 2.24
2626 4732 1.595993 GAGTGCGCTGGACTGGTCTA 61.596 60.000 3.44 0.00 0.00 2.59
2692 4817 1.738099 AAGGTCGATGCGTCAGTGC 60.738 57.895 6.75 0.00 0.00 4.40
2741 4870 1.280133 CAGGAGGAAGGCATTGTCTGA 59.720 52.381 0.00 0.00 0.00 3.27
2765 4894 2.637383 GGAGTCTCGGCGTCCACTT 61.637 63.158 6.85 0.00 0.00 3.16
2788 4932 0.671472 CAGATCTTGGCAGCGTGACA 60.671 55.000 0.00 0.00 30.30 3.58
2790 4934 0.390340 GACAGATCTTGGCAGCGTGA 60.390 55.000 0.00 0.00 33.76 4.35
2814 4958 3.621794 GGTGTTTCATCATAAGCATCGC 58.378 45.455 0.00 0.00 0.00 4.58
2821 4965 3.006940 GTGGAGCGGTGTTTCATCATAA 58.993 45.455 0.00 0.00 0.00 1.90
2876 5020 1.087202 TGTGTGACTGTGGACAACGC 61.087 55.000 0.00 0.00 0.00 4.84
2879 5023 0.541392 AGCTGTGTGACTGTGGACAA 59.459 50.000 0.00 0.00 0.00 3.18
2909 5053 0.762418 TCGTTCCCTTCTTGAAGCCA 59.238 50.000 4.94 0.00 0.00 4.75
2911 5055 0.790814 CGTCGTTCCCTTCTTGAAGC 59.209 55.000 4.94 0.00 0.00 3.86
2965 5109 0.034477 ATTTGTCTCCCGGGCGAAAT 60.034 50.000 16.43 9.72 0.00 2.17
2970 5114 1.749258 GGTCATTTGTCTCCCGGGC 60.749 63.158 18.49 1.66 0.00 6.13
2988 5132 0.250295 TCTGCTTCCACTTCAACCGG 60.250 55.000 0.00 0.00 0.00 5.28
2999 5143 1.005340 CGCTTGTCAGATCTGCTTCC 58.995 55.000 18.36 6.25 0.00 3.46
3024 5168 1.732809 GGGCGTTGCTTTCTTCTCTAC 59.267 52.381 0.00 0.00 0.00 2.59
3026 5170 0.951040 CGGGCGTTGCTTTCTTCTCT 60.951 55.000 0.00 0.00 0.00 3.10
3059 5227 5.104360 TGAGGATTCAGATCGGGAAAAATCT 60.104 40.000 6.90 3.55 32.84 2.40
3065 5233 1.762957 GGTGAGGATTCAGATCGGGAA 59.237 52.381 5.51 5.51 32.98 3.97


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

AutoCloner maintained by Alex Coulton.