Multiple sequence alignment - TraesCS6B01G423300

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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 TraesCS6B01G423300 chr6B 100.000 1289 0 0 868 2156 693215969 693214681 0.000000e+00 2381
1 TraesCS6B01G423300 chr6B 96.220 582 15 5 1576 2155 165086934 165086358 0.000000e+00 946
2 TraesCS6B01G423300 chr6B 95.890 584 18 6 1577 2156 669477447 669478028 0.000000e+00 941
3 TraesCS6B01G423300 chr6B 95.869 581 21 3 1578 2156 693207158 693206579 0.000000e+00 937
4 TraesCS6B01G423300 chr6B 100.000 323 0 0 1 323 693216836 693216514 3.960000e-167 597
5 TraesCS6B01G423300 chr6B 100.000 285 0 0 383 667 693216454 693216170 5.270000e-146 527
6 TraesCS6B01G423300 chr6B 98.258 287 3 1 383 667 58790365 58790079 3.190000e-138 501
7 TraesCS6B01G423300 chr6B 94.753 324 10 3 3 323 58790437 58790118 4.130000e-137 497
8 TraesCS6B01G423300 chr6B 96.324 136 4 1 868 1003 31674768 31674902 2.790000e-54 222
9 TraesCS6B01G423300 chr6B 82.424 165 6 9 1420 1576 693216697 693216548 2.910000e-24 122
10 TraesCS6B01G423300 chr5B 95.897 585 23 1 1573 2156 669938377 669938961 0.000000e+00 946
11 TraesCS6B01G423300 chr5B 95.890 584 19 4 1576 2156 586785039 586785620 0.000000e+00 941
12 TraesCS6B01G423300 chr5B 91.533 437 17 10 1144 1576 678128798 678129218 3.080000e-163 584
13 TraesCS6B01G423300 chr5B 90.887 406 16 10 1148 1545 678128905 678129297 1.900000e-145 525
14 TraesCS6B01G423300 chr5B 99.296 284 2 0 384 667 580582515 580582232 4.100000e-142 514
15 TraesCS6B01G423300 chr5B 89.016 437 19 11 1148 1576 678128856 678129271 4.100000e-142 514
16 TraesCS6B01G423300 chr5B 94.753 324 10 3 3 323 493344356 493344037 4.130000e-137 497
17 TraesCS6B01G423300 chr5B 94.720 322 12 2 3 323 580582588 580582271 1.490000e-136 496
18 TraesCS6B01G423300 chr5B 96.296 135 4 1 868 1002 499409419 499409552 1.000000e-53 220
19 TraesCS6B01G423300 chr5B 96.269 134 4 1 870 1002 697406840 697406707 3.600000e-53 219
20 TraesCS6B01G423300 chr4B 95.904 586 20 3 1573 2156 579841378 579841961 0.000000e+00 946
21 TraesCS6B01G423300 chr4B 95.883 583 20 3 1577 2156 294738463 294739044 0.000000e+00 941
22 TraesCS6B01G423300 chr4B 99.333 150 1 0 998 1147 70585003 70584854 2.730000e-69 272
23 TraesCS6B01G423300 chr4B 96.324 136 4 1 868 1003 28290592 28290726 2.790000e-54 222
24 TraesCS6B01G423300 chr4B 95.620 137 2 1 870 1002 421552129 421552265 1.300000e-52 217
25 TraesCS6B01G423300 chr4B 95.620 137 2 1 870 1002 556288905 556288769 1.300000e-52 217
26 TraesCS6B01G423300 chr2B 95.876 582 22 2 1576 2156 683639466 683640046 0.000000e+00 941
27 TraesCS6B01G423300 chr2B 97.037 135 3 1 868 1002 57584862 57584995 2.150000e-55 226
28 TraesCS6B01G423300 chr3B 95.719 584 19 5 1575 2156 644014487 644013908 0.000000e+00 935
29 TraesCS6B01G423300 chr3B 88.584 438 21 12 1144 1576 42925031 42924618 2.470000e-139 505
30 TraesCS6B01G423300 chr3B 95.016 321 10 2 3 323 711281392 711281078 1.150000e-137 499
31 TraesCS6B01G423300 chr3B 96.992 133 3 1 868 1000 7313157 7313026 2.790000e-54 222
32 TraesCS6B01G423300 chr1B 93.216 398 14 7 1148 1540 635863326 635862937 6.670000e-160 573
33 TraesCS6B01G423300 chr1B 90.787 445 11 12 1143 1575 635863385 635862959 3.110000e-158 568
34 TraesCS6B01G423300 chr1B 100.000 285 0 0 383 667 567958266 567958550 5.270000e-146 527
35 TraesCS6B01G423300 chr1B 98.596 285 2 1 383 667 24173284 24173002 8.880000e-139 503
36 TraesCS6B01G423300 chr1B 88.584 438 15 17 1144 1576 47982318 47981911 1.150000e-137 499
37 TraesCS6B01G423300 chr1B 94.720 322 12 2 3 323 567958194 567958511 1.490000e-136 496
38 TraesCS6B01G423300 chr1B 94.720 322 10 3 3 323 24173356 24173041 5.350000e-136 494
39 TraesCS6B01G423300 chrUn 91.034 435 14 12 1148 1575 380779201 380779617 4.020000e-157 564
40 TraesCS6B01G423300 chrUn 90.575 435 17 12 1148 1576 380779145 380779561 2.420000e-154 555
41 TraesCS6B01G423300 chrUn 98.246 285 3 1 383 667 3260942 3260660 4.130000e-137 497
42 TraesCS6B01G423300 chrUn 98.246 285 3 1 383 667 36787075 36786793 4.130000e-137 497
43 TraesCS6B01G423300 chrUn 98.246 285 3 1 383 667 49978006 49977724 4.130000e-137 497
44 TraesCS6B01G423300 chrUn 94.720 322 10 3 3 323 36787147 36786832 5.350000e-136 494
45 TraesCS6B01G423300 chrUn 99.333 150 1 0 998 1147 93409145 93408996 2.730000e-69 272
46 TraesCS6B01G423300 chrUn 99.333 150 1 0 998 1147 346596008 346595859 2.730000e-69 272
47 TraesCS6B01G423300 chrUn 99.333 150 1 0 998 1147 372771167 372771018 2.730000e-69 272
48 TraesCS6B01G423300 chrUn 99.333 150 1 0 998 1147 444245926 444245777 2.730000e-69 272
49 TraesCS6B01G423300 chrUn 97.037 135 3 1 868 1002 38869897 38869764 2.150000e-55 226
50 TraesCS6B01G423300 chrUn 96.296 135 4 1 868 1002 309155444 309155311 1.000000e-53 220
51 TraesCS6B01G423300 chrUn 96.296 135 4 1 868 1002 380779263 380779396 1.000000e-53 220
52 TraesCS6B01G423300 chrUn 95.620 137 2 1 870 1002 321000854 321000990 1.300000e-52 217
53 TraesCS6B01G423300 chrUn 95.620 137 2 1 870 1002 380824212 380824076 1.300000e-52 217
54 TraesCS6B01G423300 chrUn 95.620 137 2 1 870 1002 434100359 434100495 1.300000e-52 217
55 TraesCS6B01G423300 chrUn 95.522 134 5 1 870 1002 77108441 77108574 1.680000e-51 213
56 TraesCS6B01G423300 chrUn 95.522 134 5 1 870 1002 77108544 77108677 1.680000e-51 213
57 TraesCS6B01G423300 chrUn 94.891 137 3 1 870 1002 309155549 309155413 6.030000e-51 211
58 TraesCS6B01G423300 chrUn 94.891 137 2 2 870 1002 380779159 380779294 2.170000e-50 209
59 TraesCS6B01G423300 chr7B 100.000 285 0 0 383 667 634196452 634196168 5.270000e-146 527
60 TraesCS6B01G423300 chr7B 95.963 322 8 2 3 323 634196524 634196207 3.170000e-143 518
61 TraesCS6B01G423300 chr7B 96.324 136 4 1 868 1003 614311338 614311472 2.790000e-54 222
62 TraesCS6B01G423300 chr7B 95.652 138 3 3 868 1002 704177509 704177646 3.600000e-53 219
63 TraesCS6B01G423300 chr7B 94.964 139 5 2 870 1007 576011243 576011380 1.300000e-52 217
64 TraesCS6B01G423300 chr4A 98.947 285 1 2 383 667 731278269 731278551 1.910000e-140 508
65 TraesCS6B01G423300 chr4A 94.720 322 10 4 3 323 731278197 731278512 5.350000e-136 494
66 TraesCS6B01G423300 chr4A 99.333 150 1 0 998 1147 73809414 73809563 2.730000e-69 272
67 TraesCS6B01G423300 chr4A 97.037 135 3 1 868 1002 717409226 717409093 2.150000e-55 226
68 TraesCS6B01G423300 chr6D 99.333 150 1 0 998 1147 168255412 168255561 2.730000e-69 272
69 TraesCS6B01G423300 chr5D 99.333 150 1 0 998 1147 503277740 503277591 2.730000e-69 272
70 TraesCS6B01G423300 chr2D 99.333 150 1 0 998 1147 272793407 272793258 2.730000e-69 272
71 TraesCS6B01G423300 chr4D 98.630 73 1 0 998 1070 198417705 198417633 1.740000e-26 130
72 TraesCS6B01G423300 chr4D 100.000 64 0 0 998 1061 386828560 386828623 3.760000e-23 119


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 TraesCS6B01G423300 chr6B 693214681 693216836 2155 True 906.75 2381 95.606 1 2156 4 chr6B.!!$R4 2155
1 TraesCS6B01G423300 chr6B 165086358 165086934 576 True 946.00 946 96.220 1576 2155 1 chr6B.!!$R1 579
2 TraesCS6B01G423300 chr6B 669477447 669478028 581 False 941.00 941 95.890 1577 2156 1 chr6B.!!$F2 579
3 TraesCS6B01G423300 chr6B 693206579 693207158 579 True 937.00 937 95.869 1578 2156 1 chr6B.!!$R2 578
4 TraesCS6B01G423300 chr5B 669938377 669938961 584 False 946.00 946 95.897 1573 2156 1 chr5B.!!$F3 583
5 TraesCS6B01G423300 chr5B 586785039 586785620 581 False 941.00 941 95.890 1576 2156 1 chr5B.!!$F2 580
6 TraesCS6B01G423300 chr4B 579841378 579841961 583 False 946.00 946 95.904 1573 2156 1 chr4B.!!$F4 583
7 TraesCS6B01G423300 chr4B 294738463 294739044 581 False 941.00 941 95.883 1577 2156 1 chr4B.!!$F2 579
8 TraesCS6B01G423300 chr2B 683639466 683640046 580 False 941.00 941 95.876 1576 2156 1 chr2B.!!$F2 580
9 TraesCS6B01G423300 chr3B 644013908 644014487 579 True 935.00 935 95.719 1575 2156 1 chr3B.!!$R3 581

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
31 32 0.317160 CCACGCTGGTCTTCACAGTA 59.683 55.0 0.0 0.0 38.22 2.74 F
1094 1095 0.320697 ACTTGCCTGTCTACGGTTCC 59.679 55.0 0.0 0.0 0.00 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1100 1101 0.249398 AACACCTATCCCGAGCACAC 59.751 55.000 0.0 0.0 0.0 3.82 R
1926 1929 1.077212 CCTCGTCCTCCTCCCGTAA 60.077 63.158 0.0 0.0 0.0 3.18 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 4.320456 CACTGGCCACGCTGGTCT 62.320 66.667 0.00 0.00 44.07 3.85
24 25 3.560251 ACTGGCCACGCTGGTCTT 61.560 61.111 0.00 0.00 44.07 3.01
25 26 2.743928 CTGGCCACGCTGGTCTTC 60.744 66.667 0.00 0.00 44.07 2.87
26 27 3.535629 CTGGCCACGCTGGTCTTCA 62.536 63.158 0.00 2.54 44.07 3.02
27 28 3.050275 GGCCACGCTGGTCTTCAC 61.050 66.667 0.00 0.00 39.55 3.18
28 29 2.280797 GCCACGCTGGTCTTCACA 60.281 61.111 6.02 0.00 40.46 3.58
29 30 2.320587 GCCACGCTGGTCTTCACAG 61.321 63.158 6.02 0.00 40.46 3.66
30 31 1.069765 CCACGCTGGTCTTCACAGT 59.930 57.895 0.00 0.00 38.22 3.55
31 32 0.317160 CCACGCTGGTCTTCACAGTA 59.683 55.000 0.00 0.00 38.22 2.74
32 33 1.270094 CCACGCTGGTCTTCACAGTAA 60.270 52.381 0.00 0.00 38.22 2.24
33 34 2.612972 CCACGCTGGTCTTCACAGTAAT 60.613 50.000 0.00 0.00 38.22 1.89
34 35 2.668457 CACGCTGGTCTTCACAGTAATC 59.332 50.000 0.00 0.00 38.22 1.75
35 36 1.920574 CGCTGGTCTTCACAGTAATCG 59.079 52.381 0.00 0.00 38.22 3.34
36 37 1.661112 GCTGGTCTTCACAGTAATCGC 59.339 52.381 0.00 0.00 38.22 4.58
37 38 2.930887 GCTGGTCTTCACAGTAATCGCA 60.931 50.000 0.00 0.00 38.22 5.10
38 39 2.668457 CTGGTCTTCACAGTAATCGCAC 59.332 50.000 0.00 0.00 0.00 5.34
39 40 2.036604 TGGTCTTCACAGTAATCGCACA 59.963 45.455 0.00 0.00 0.00 4.57
40 41 3.262420 GGTCTTCACAGTAATCGCACAT 58.738 45.455 0.00 0.00 0.00 3.21
41 42 4.081917 TGGTCTTCACAGTAATCGCACATA 60.082 41.667 0.00 0.00 0.00 2.29
42 43 4.868171 GGTCTTCACAGTAATCGCACATAA 59.132 41.667 0.00 0.00 0.00 1.90
43 44 5.523916 GGTCTTCACAGTAATCGCACATAAT 59.476 40.000 0.00 0.00 0.00 1.28
44 45 6.414079 GTCTTCACAGTAATCGCACATAATG 58.586 40.000 0.00 0.00 0.00 1.90
45 46 6.255670 GTCTTCACAGTAATCGCACATAATGA 59.744 38.462 0.00 0.00 0.00 2.57
46 47 6.816140 TCTTCACAGTAATCGCACATAATGAA 59.184 34.615 0.00 0.00 0.00 2.57
47 48 6.976636 TCACAGTAATCGCACATAATGAAA 57.023 33.333 0.00 0.00 0.00 2.69
48 49 7.552458 TCACAGTAATCGCACATAATGAAAT 57.448 32.000 0.00 0.00 0.00 2.17
49 50 7.984391 TCACAGTAATCGCACATAATGAAATT 58.016 30.769 0.00 0.00 41.28 1.82
50 51 8.458052 TCACAGTAATCGCACATAATGAAATTT 58.542 29.630 0.00 0.00 37.87 1.82
51 52 9.075519 CACAGTAATCGCACATAATGAAATTTT 57.924 29.630 0.00 0.00 37.87 1.82
52 53 9.638239 ACAGTAATCGCACATAATGAAATTTTT 57.362 25.926 0.00 0.00 37.87 1.94
78 79 4.028852 TCGTCAGACGACATTTCCTATG 57.971 45.455 21.92 0.00 46.73 2.23
79 80 2.535984 CGTCAGACGACATTTCCTATGC 59.464 50.000 18.63 0.00 46.05 3.14
80 81 3.735208 CGTCAGACGACATTTCCTATGCT 60.735 47.826 18.63 0.00 46.05 3.79
81 82 3.799420 GTCAGACGACATTTCCTATGCTC 59.201 47.826 0.00 0.00 42.13 4.26
82 83 3.447229 TCAGACGACATTTCCTATGCTCA 59.553 43.478 0.00 0.00 0.00 4.26
83 84 4.100035 TCAGACGACATTTCCTATGCTCAT 59.900 41.667 0.00 0.00 0.00 2.90
84 85 5.301805 TCAGACGACATTTCCTATGCTCATA 59.698 40.000 0.00 0.00 0.00 2.15
85 86 6.015095 TCAGACGACATTTCCTATGCTCATAT 60.015 38.462 0.00 0.00 0.00 1.78
86 87 6.648310 CAGACGACATTTCCTATGCTCATATT 59.352 38.462 0.00 0.00 0.00 1.28
87 88 7.814587 CAGACGACATTTCCTATGCTCATATTA 59.185 37.037 0.00 0.00 0.00 0.98
88 89 8.031864 AGACGACATTTCCTATGCTCATATTAG 58.968 37.037 0.00 0.00 0.00 1.73
89 90 7.099764 ACGACATTTCCTATGCTCATATTAGG 58.900 38.462 0.00 0.00 0.00 2.69
90 91 6.036517 CGACATTTCCTATGCTCATATTAGGC 59.963 42.308 0.00 0.00 0.00 3.93
91 92 6.782986 ACATTTCCTATGCTCATATTAGGCA 58.217 36.000 0.00 0.00 40.32 4.75
92 93 7.233632 ACATTTCCTATGCTCATATTAGGCAA 58.766 34.615 0.00 0.00 39.46 4.52
93 94 7.725397 ACATTTCCTATGCTCATATTAGGCAAA 59.275 33.333 0.00 0.00 39.46 3.68
94 95 8.579006 CATTTCCTATGCTCATATTAGGCAAAA 58.421 33.333 0.00 0.00 39.46 2.44
95 96 7.510549 TTCCTATGCTCATATTAGGCAAAAC 57.489 36.000 0.00 0.00 39.46 2.43
96 97 6.600388 TCCTATGCTCATATTAGGCAAAACA 58.400 36.000 0.00 0.00 39.46 2.83
97 98 7.233632 TCCTATGCTCATATTAGGCAAAACAT 58.766 34.615 0.00 0.00 39.46 2.71
98 99 7.725397 TCCTATGCTCATATTAGGCAAAACATT 59.275 33.333 0.00 0.00 39.46 2.71
99 100 9.013229 CCTATGCTCATATTAGGCAAAACATTA 57.987 33.333 0.00 0.00 39.46 1.90
102 103 9.918630 ATGCTCATATTAGGCAAAACATTAATC 57.081 29.630 0.00 0.00 39.46 1.75
103 104 8.911965 TGCTCATATTAGGCAAAACATTAATCA 58.088 29.630 0.00 0.00 32.79 2.57
104 105 9.185192 GCTCATATTAGGCAAAACATTAATCAC 57.815 33.333 0.00 0.00 0.00 3.06
307 308 8.821147 TTAATTCAACTAGTTCGAACTAAGCA 57.179 30.769 31.72 18.61 40.70 3.91
308 309 7.907214 AATTCAACTAGTTCGAACTAAGCAT 57.093 32.000 31.72 19.71 40.70 3.79
309 310 8.997621 AATTCAACTAGTTCGAACTAAGCATA 57.002 30.769 31.72 20.06 40.70 3.14
310 311 9.601217 AATTCAACTAGTTCGAACTAAGCATAT 57.399 29.630 31.72 21.08 40.70 1.78
312 313 9.512435 TTCAACTAGTTCGAACTAAGCATATAC 57.488 33.333 31.72 3.55 40.70 1.47
313 314 8.900781 TCAACTAGTTCGAACTAAGCATATACT 58.099 33.333 31.72 10.73 40.70 2.12
411 412 9.114952 TGTTCATATTAGGCGAAACATTAATCA 57.885 29.630 0.00 0.00 0.00 2.57
412 413 9.382244 GTTCATATTAGGCGAAACATTAATCAC 57.618 33.333 0.00 0.00 0.00 3.06
413 414 8.902540 TCATATTAGGCGAAACATTAATCACT 57.097 30.769 0.00 0.00 0.00 3.41
414 415 9.337396 TCATATTAGGCGAAACATTAATCACTT 57.663 29.630 0.00 0.00 0.00 3.16
417 418 8.732746 ATTAGGCGAAACATTAATCACTTACT 57.267 30.769 0.00 0.00 0.00 2.24
418 419 9.826574 ATTAGGCGAAACATTAATCACTTACTA 57.173 29.630 0.00 0.00 0.00 1.82
419 420 9.656040 TTAGGCGAAACATTAATCACTTACTAA 57.344 29.630 0.00 0.00 0.00 2.24
420 421 8.732746 AGGCGAAACATTAATCACTTACTAAT 57.267 30.769 0.00 0.00 0.00 1.73
421 422 9.174166 AGGCGAAACATTAATCACTTACTAATT 57.826 29.630 0.00 0.00 0.00 1.40
422 423 9.434559 GGCGAAACATTAATCACTTACTAATTC 57.565 33.333 0.00 0.00 0.00 2.17
423 424 9.982291 GCGAAACATTAATCACTTACTAATTCA 57.018 29.630 0.00 0.00 0.00 2.57
1025 1026 4.903045 TTCCTCTGGAATTACGACCTTT 57.097 40.909 0.00 0.00 36.71 3.11
1027 1028 5.334724 TCCTCTGGAATTACGACCTTTAC 57.665 43.478 0.00 0.00 0.00 2.01
1028 1029 4.161001 TCCTCTGGAATTACGACCTTTACC 59.839 45.833 0.00 0.00 0.00 2.85
1029 1030 4.081309 CCTCTGGAATTACGACCTTTACCA 60.081 45.833 0.00 0.00 0.00 3.25
1030 1031 4.824289 TCTGGAATTACGACCTTTACCAC 58.176 43.478 0.00 0.00 0.00 4.16
1031 1032 4.283978 TCTGGAATTACGACCTTTACCACA 59.716 41.667 0.00 0.00 0.00 4.17
1032 1033 4.970711 TGGAATTACGACCTTTACCACAA 58.029 39.130 0.00 0.00 0.00 3.33
1033 1034 4.756135 TGGAATTACGACCTTTACCACAAC 59.244 41.667 0.00 0.00 0.00 3.32
1034 1035 4.143052 GGAATTACGACCTTTACCACAACG 60.143 45.833 0.00 0.00 0.00 4.10
1035 1036 2.437200 TACGACCTTTACCACAACGG 57.563 50.000 0.00 0.00 42.50 4.44
1050 1051 2.588877 CGGTGCCGTCCATGGATC 60.589 66.667 19.62 10.80 34.35 3.36
1051 1052 2.589540 GGTGCCGTCCATGGATCA 59.410 61.111 19.62 13.48 0.00 2.92
1052 1053 1.077787 GGTGCCGTCCATGGATCAA 60.078 57.895 19.62 1.22 0.00 2.57
1053 1054 0.679640 GGTGCCGTCCATGGATCAAA 60.680 55.000 19.62 1.62 0.00 2.69
1054 1055 1.392589 GTGCCGTCCATGGATCAAAT 58.607 50.000 19.62 0.00 0.00 2.32
1055 1056 1.750778 GTGCCGTCCATGGATCAAATT 59.249 47.619 19.62 0.00 0.00 1.82
1056 1057 2.948979 GTGCCGTCCATGGATCAAATTA 59.051 45.455 19.62 0.00 0.00 1.40
1057 1058 3.569701 GTGCCGTCCATGGATCAAATTAT 59.430 43.478 19.62 0.00 0.00 1.28
1058 1059 4.037923 GTGCCGTCCATGGATCAAATTATT 59.962 41.667 19.62 0.00 0.00 1.40
1059 1060 4.648762 TGCCGTCCATGGATCAAATTATTT 59.351 37.500 19.62 0.00 0.00 1.40
1060 1061 5.221224 TGCCGTCCATGGATCAAATTATTTC 60.221 40.000 19.62 0.00 0.00 2.17
1061 1062 5.451908 CCGTCCATGGATCAAATTATTTCG 58.548 41.667 19.62 11.61 0.00 3.46
1062 1063 5.008613 CCGTCCATGGATCAAATTATTTCGT 59.991 40.000 19.62 0.00 0.00 3.85
1063 1064 5.909054 CGTCCATGGATCAAATTATTTCGTG 59.091 40.000 19.62 0.00 0.00 4.35
1064 1065 6.208644 GTCCATGGATCAAATTATTTCGTGG 58.791 40.000 19.62 8.28 0.00 4.94
1065 1066 6.039270 GTCCATGGATCAAATTATTTCGTGGA 59.961 38.462 19.62 11.58 0.00 4.02
1066 1067 6.777091 TCCATGGATCAAATTATTTCGTGGAT 59.223 34.615 11.44 2.25 0.00 3.41
1067 1068 7.287466 TCCATGGATCAAATTATTTCGTGGATT 59.713 33.333 11.44 0.00 0.00 3.01
1068 1069 7.383029 CCATGGATCAAATTATTTCGTGGATTG 59.617 37.037 5.56 0.00 0.00 2.67
1069 1070 6.804677 TGGATCAAATTATTTCGTGGATTGG 58.195 36.000 0.00 0.00 0.00 3.16
1070 1071 6.605194 TGGATCAAATTATTTCGTGGATTGGA 59.395 34.615 0.00 0.00 0.00 3.53
1071 1072 7.287466 TGGATCAAATTATTTCGTGGATTGGAT 59.713 33.333 0.00 0.00 0.00 3.41
1072 1073 8.143835 GGATCAAATTATTTCGTGGATTGGATT 58.856 33.333 0.00 0.00 0.00 3.01
1073 1074 9.533253 GATCAAATTATTTCGTGGATTGGATTT 57.467 29.630 0.00 0.00 0.00 2.17
1074 1075 8.925161 TCAAATTATTTCGTGGATTGGATTTC 57.075 30.769 0.00 0.00 0.00 2.17
1075 1076 8.526978 TCAAATTATTTCGTGGATTGGATTTCA 58.473 29.630 0.00 0.00 0.00 2.69
1076 1077 8.594687 CAAATTATTTCGTGGATTGGATTTCAC 58.405 33.333 0.00 0.00 0.00 3.18
1077 1078 7.645058 ATTATTTCGTGGATTGGATTTCACT 57.355 32.000 0.00 0.00 0.00 3.41
1078 1079 5.982890 ATTTCGTGGATTGGATTTCACTT 57.017 34.783 0.00 0.00 0.00 3.16
1079 1080 4.764679 TTCGTGGATTGGATTTCACTTG 57.235 40.909 0.00 0.00 0.00 3.16
1080 1081 2.487762 TCGTGGATTGGATTTCACTTGC 59.512 45.455 0.00 0.00 0.00 4.01
1081 1082 2.415893 CGTGGATTGGATTTCACTTGCC 60.416 50.000 0.00 0.00 0.00 4.52
1082 1083 2.827921 GTGGATTGGATTTCACTTGCCT 59.172 45.455 0.00 0.00 0.00 4.75
1083 1084 2.827322 TGGATTGGATTTCACTTGCCTG 59.173 45.455 0.00 0.00 0.00 4.85
1084 1085 2.827921 GGATTGGATTTCACTTGCCTGT 59.172 45.455 0.00 0.00 0.00 4.00
1085 1086 3.119352 GGATTGGATTTCACTTGCCTGTC 60.119 47.826 0.00 0.00 0.00 3.51
1086 1087 2.957402 TGGATTTCACTTGCCTGTCT 57.043 45.000 0.00 0.00 0.00 3.41
1087 1088 4.365514 TTGGATTTCACTTGCCTGTCTA 57.634 40.909 0.00 0.00 0.00 2.59
1088 1089 3.674997 TGGATTTCACTTGCCTGTCTAC 58.325 45.455 0.00 0.00 0.00 2.59
1089 1090 2.673368 GGATTTCACTTGCCTGTCTACG 59.327 50.000 0.00 0.00 0.00 3.51
1090 1091 2.163818 TTTCACTTGCCTGTCTACGG 57.836 50.000 0.00 0.00 0.00 4.02
1091 1092 1.045407 TTCACTTGCCTGTCTACGGT 58.955 50.000 0.00 0.00 0.00 4.83
1092 1093 1.045407 TCACTTGCCTGTCTACGGTT 58.955 50.000 0.00 0.00 0.00 4.44
1093 1094 1.000506 TCACTTGCCTGTCTACGGTTC 59.999 52.381 0.00 0.00 0.00 3.62
1094 1095 0.320697 ACTTGCCTGTCTACGGTTCC 59.679 55.000 0.00 0.00 0.00 3.62
1095 1096 0.391263 CTTGCCTGTCTACGGTTCCC 60.391 60.000 0.00 0.00 0.00 3.97
1096 1097 0.834687 TTGCCTGTCTACGGTTCCCT 60.835 55.000 0.00 0.00 0.00 4.20
1097 1098 0.834687 TGCCTGTCTACGGTTCCCTT 60.835 55.000 0.00 0.00 0.00 3.95
1098 1099 0.391263 GCCTGTCTACGGTTCCCTTG 60.391 60.000 0.00 0.00 0.00 3.61
1099 1100 0.391263 CCTGTCTACGGTTCCCTTGC 60.391 60.000 0.00 0.00 0.00 4.01
1100 1101 0.736325 CTGTCTACGGTTCCCTTGCG 60.736 60.000 0.00 0.00 0.00 4.85
1101 1102 1.291272 GTCTACGGTTCCCTTGCGT 59.709 57.895 0.00 0.00 0.00 5.24
1102 1103 1.012486 GTCTACGGTTCCCTTGCGTG 61.012 60.000 0.00 0.00 0.00 5.34
1103 1104 1.005394 CTACGGTTCCCTTGCGTGT 60.005 57.895 0.00 0.00 0.00 4.49
1104 1105 1.289109 CTACGGTTCCCTTGCGTGTG 61.289 60.000 0.00 0.00 0.00 3.82
1105 1106 4.025401 CGGTTCCCTTGCGTGTGC 62.025 66.667 0.00 0.00 43.20 4.57
1106 1107 2.594592 GGTTCCCTTGCGTGTGCT 60.595 61.111 0.00 0.00 43.34 4.40
1107 1108 2.617274 GGTTCCCTTGCGTGTGCTC 61.617 63.158 0.00 0.00 43.34 4.26
1108 1109 2.664851 TTCCCTTGCGTGTGCTCG 60.665 61.111 0.00 0.00 43.34 5.03
1109 1110 4.680237 TCCCTTGCGTGTGCTCGG 62.680 66.667 0.00 0.00 43.34 4.63
1111 1112 4.680237 CCTTGCGTGTGCTCGGGA 62.680 66.667 0.00 0.00 43.34 5.14
1112 1113 2.434884 CTTGCGTGTGCTCGGGAT 60.435 61.111 0.00 0.00 43.34 3.85
1113 1114 1.153647 CTTGCGTGTGCTCGGGATA 60.154 57.895 0.00 0.00 43.34 2.59
1114 1115 1.148157 CTTGCGTGTGCTCGGGATAG 61.148 60.000 0.00 0.00 43.34 2.08
1115 1116 2.279517 GCGTGTGCTCGGGATAGG 60.280 66.667 0.00 0.00 38.39 2.57
1116 1117 3.077519 GCGTGTGCTCGGGATAGGT 62.078 63.158 0.00 0.00 38.39 3.08
1117 1118 1.226974 CGTGTGCTCGGGATAGGTG 60.227 63.158 0.00 0.00 0.00 4.00
1118 1119 1.898154 GTGTGCTCGGGATAGGTGT 59.102 57.895 0.00 0.00 0.00 4.16
1119 1120 0.249398 GTGTGCTCGGGATAGGTGTT 59.751 55.000 0.00 0.00 0.00 3.32
1120 1121 0.981183 TGTGCTCGGGATAGGTGTTT 59.019 50.000 0.00 0.00 0.00 2.83
1121 1122 1.349688 TGTGCTCGGGATAGGTGTTTT 59.650 47.619 0.00 0.00 0.00 2.43
1122 1123 1.737793 GTGCTCGGGATAGGTGTTTTG 59.262 52.381 0.00 0.00 0.00 2.44
1123 1124 1.349688 TGCTCGGGATAGGTGTTTTGT 59.650 47.619 0.00 0.00 0.00 2.83
1124 1125 2.568062 TGCTCGGGATAGGTGTTTTGTA 59.432 45.455 0.00 0.00 0.00 2.41
1125 1126 3.199071 TGCTCGGGATAGGTGTTTTGTAT 59.801 43.478 0.00 0.00 0.00 2.29
1126 1127 4.406326 TGCTCGGGATAGGTGTTTTGTATA 59.594 41.667 0.00 0.00 0.00 1.47
1127 1128 5.104859 TGCTCGGGATAGGTGTTTTGTATAA 60.105 40.000 0.00 0.00 0.00 0.98
1128 1129 5.818857 GCTCGGGATAGGTGTTTTGTATAAA 59.181 40.000 0.00 0.00 0.00 1.40
1129 1130 6.485648 GCTCGGGATAGGTGTTTTGTATAAAT 59.514 38.462 0.00 0.00 0.00 1.40
1130 1131 7.519970 GCTCGGGATAGGTGTTTTGTATAAATG 60.520 40.741 0.00 0.00 0.00 2.32
1131 1132 7.340256 TCGGGATAGGTGTTTTGTATAAATGT 58.660 34.615 0.00 0.00 0.00 2.71
1132 1133 7.830201 TCGGGATAGGTGTTTTGTATAAATGTT 59.170 33.333 0.00 0.00 0.00 2.71
1133 1134 8.463607 CGGGATAGGTGTTTTGTATAAATGTTT 58.536 33.333 0.00 0.00 0.00 2.83
1134 1135 9.797556 GGGATAGGTGTTTTGTATAAATGTTTC 57.202 33.333 0.00 0.00 0.00 2.78
1138 1139 7.142680 AGGTGTTTTGTATAAATGTTTCACCG 58.857 34.615 0.00 0.00 43.96 4.94
1139 1140 6.919115 GGTGTTTTGTATAAATGTTTCACCGT 59.081 34.615 0.00 0.00 33.66 4.83
1140 1141 8.074972 GGTGTTTTGTATAAATGTTTCACCGTA 58.925 33.333 0.00 0.00 33.66 4.02
1141 1142 9.615295 GTGTTTTGTATAAATGTTTCACCGTAT 57.385 29.630 0.00 0.00 0.00 3.06
1219 1220 9.950680 AATTCAACTAGTTCAACTAAACATGTG 57.049 29.630 4.77 0.00 29.00 3.21
1220 1221 6.954944 TCAACTAGTTCAACTAAACATGTGC 58.045 36.000 4.77 0.00 29.00 4.57
1221 1222 6.765989 TCAACTAGTTCAACTAAACATGTGCT 59.234 34.615 4.77 0.00 29.00 4.40
1222 1223 7.929245 TCAACTAGTTCAACTAAACATGTGCTA 59.071 33.333 4.77 0.00 29.00 3.49
1223 1224 8.556194 CAACTAGTTCAACTAAACATGTGCTAA 58.444 33.333 4.77 0.00 29.00 3.09
1224 1225 8.671384 ACTAGTTCAACTAAACATGTGCTAAA 57.329 30.769 0.00 0.00 29.00 1.85
1225 1226 9.116067 ACTAGTTCAACTAAACATGTGCTAAAA 57.884 29.630 0.00 0.00 29.00 1.52
1226 1227 9.944663 CTAGTTCAACTAAACATGTGCTAAAAA 57.055 29.630 0.00 0.00 29.00 1.94
1271 1272 9.826574 TCAACTAGTTCAAACTAAACATACACT 57.173 29.630 4.77 0.00 40.70 3.55
1323 1324 9.555727 TTCAACTAGTTCAACTAAGCATTTACT 57.444 29.630 4.77 0.00 29.00 2.24
1324 1325 9.555727 TCAACTAGTTCAACTAAGCATTTACTT 57.444 29.630 4.77 0.00 29.00 2.24
1379 1380 9.555727 TTCAACTAGTTCAACTAAGCATTTACT 57.444 29.630 4.77 0.00 29.00 2.24
1380 1381 9.555727 TCAACTAGTTCAACTAAGCATTTACTT 57.444 29.630 4.77 0.00 29.00 2.24
1433 1434 8.947055 AATTCAACAAGTTCAACTAAGCATTT 57.053 26.923 0.00 0.00 0.00 2.32
1435 1436 8.850454 TTCAACAAGTTCAACTAAGCATTTAC 57.150 30.769 0.00 0.00 0.00 2.01
1436 1437 7.129622 TCAACAAGTTCAACTAAGCATTTACG 58.870 34.615 0.00 0.00 0.00 3.18
1437 1438 6.854496 ACAAGTTCAACTAAGCATTTACGA 57.146 33.333 0.00 0.00 0.00 3.43
1438 1439 7.254227 ACAAGTTCAACTAAGCATTTACGAA 57.746 32.000 0.00 0.00 0.00 3.85
1439 1440 7.699566 ACAAGTTCAACTAAGCATTTACGAAA 58.300 30.769 0.00 0.00 0.00 3.46
1440 1441 8.185505 ACAAGTTCAACTAAGCATTTACGAAAA 58.814 29.630 0.00 0.00 0.00 2.29
1441 1442 9.015577 CAAGTTCAACTAAGCATTTACGAAAAA 57.984 29.630 0.00 0.00 0.00 1.94
1442 1443 9.744468 AAGTTCAACTAAGCATTTACGAAAAAT 57.256 25.926 0.00 0.00 0.00 1.82
1680 1682 4.139162 AGGGGAGATGCATCTACATACT 57.861 45.455 34.51 26.14 39.61 2.12
1785 1787 4.675029 CCGAACGGACGGCACCTT 62.675 66.667 7.53 0.00 46.20 3.50
1823 1826 1.286260 GTCAGCGTGACGTCTCCTT 59.714 57.895 17.92 0.00 37.67 3.36
1824 1827 0.318784 GTCAGCGTGACGTCTCCTTT 60.319 55.000 17.92 0.00 37.67 3.11
1877 1880 1.227089 GACGATCCAGCAGCACGAT 60.227 57.895 0.00 0.00 0.00 3.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.832237 AAGACCAGCGTGGCCAGTG 62.832 63.158 5.11 2.20 42.67 3.66
7 8 3.537206 GAAGACCAGCGTGGCCAGT 62.537 63.158 5.11 0.00 42.67 4.00
8 9 2.743928 GAAGACCAGCGTGGCCAG 60.744 66.667 5.11 0.84 42.67 4.85
9 10 3.555324 TGAAGACCAGCGTGGCCA 61.555 61.111 0.00 0.00 42.67 5.36
10 11 3.050275 GTGAAGACCAGCGTGGCC 61.050 66.667 0.00 0.00 42.67 5.36
11 12 2.280797 TGTGAAGACCAGCGTGGC 60.281 61.111 4.23 0.00 42.67 5.01
12 13 0.317160 TACTGTGAAGACCAGCGTGG 59.683 55.000 2.92 2.92 45.02 4.94
13 14 2.148916 TTACTGTGAAGACCAGCGTG 57.851 50.000 0.00 0.00 33.09 5.34
14 15 2.671351 CGATTACTGTGAAGACCAGCGT 60.671 50.000 0.00 0.00 33.09 5.07
15 16 1.920574 CGATTACTGTGAAGACCAGCG 59.079 52.381 0.00 0.00 33.09 5.18
16 17 1.661112 GCGATTACTGTGAAGACCAGC 59.339 52.381 0.00 0.00 33.09 4.85
17 18 2.668457 GTGCGATTACTGTGAAGACCAG 59.332 50.000 0.00 0.00 36.01 4.00
18 19 2.036604 TGTGCGATTACTGTGAAGACCA 59.963 45.455 0.00 0.00 0.00 4.02
19 20 2.683968 TGTGCGATTACTGTGAAGACC 58.316 47.619 0.00 0.00 0.00 3.85
20 21 6.255670 TCATTATGTGCGATTACTGTGAAGAC 59.744 38.462 0.00 0.00 0.00 3.01
21 22 6.337356 TCATTATGTGCGATTACTGTGAAGA 58.663 36.000 0.00 0.00 0.00 2.87
22 23 6.588348 TCATTATGTGCGATTACTGTGAAG 57.412 37.500 0.00 0.00 0.00 3.02
23 24 6.976636 TTCATTATGTGCGATTACTGTGAA 57.023 33.333 0.00 0.00 0.00 3.18
24 25 6.976636 TTTCATTATGTGCGATTACTGTGA 57.023 33.333 0.00 0.00 0.00 3.58
25 26 8.619146 AAATTTCATTATGTGCGATTACTGTG 57.381 30.769 0.00 0.00 0.00 3.66
26 27 9.638239 AAAAATTTCATTATGTGCGATTACTGT 57.362 25.926 0.00 0.00 0.00 3.55
59 60 3.786635 AGCATAGGAAATGTCGTCTGAC 58.213 45.455 0.00 0.00 45.71 3.51
60 61 3.447229 TGAGCATAGGAAATGTCGTCTGA 59.553 43.478 0.00 0.00 0.00 3.27
61 62 3.785486 TGAGCATAGGAAATGTCGTCTG 58.215 45.455 0.00 0.00 0.00 3.51
62 63 4.679373 ATGAGCATAGGAAATGTCGTCT 57.321 40.909 0.00 0.00 0.00 4.18
63 64 7.276658 CCTAATATGAGCATAGGAAATGTCGTC 59.723 40.741 0.00 0.00 38.81 4.20
64 65 7.099764 CCTAATATGAGCATAGGAAATGTCGT 58.900 38.462 0.00 0.00 38.81 4.34
65 66 6.036517 GCCTAATATGAGCATAGGAAATGTCG 59.963 42.308 2.34 0.00 38.81 4.35
66 67 6.881065 TGCCTAATATGAGCATAGGAAATGTC 59.119 38.462 2.34 0.00 38.81 3.06
67 68 6.782986 TGCCTAATATGAGCATAGGAAATGT 58.217 36.000 2.34 0.00 38.81 2.71
68 69 7.692460 TTGCCTAATATGAGCATAGGAAATG 57.308 36.000 2.34 0.00 38.81 2.32
69 70 8.579863 GTTTTGCCTAATATGAGCATAGGAAAT 58.420 33.333 2.34 0.00 38.81 2.17
70 71 7.559533 TGTTTTGCCTAATATGAGCATAGGAAA 59.440 33.333 2.34 0.00 38.81 3.13
71 72 7.059788 TGTTTTGCCTAATATGAGCATAGGAA 58.940 34.615 2.34 0.00 38.81 3.36
72 73 6.600388 TGTTTTGCCTAATATGAGCATAGGA 58.400 36.000 2.34 0.00 38.81 2.94
73 74 6.882610 TGTTTTGCCTAATATGAGCATAGG 57.117 37.500 0.00 0.00 39.38 2.57
76 77 9.918630 GATTAATGTTTTGCCTAATATGAGCAT 57.081 29.630 0.00 0.00 36.20 3.79
77 78 8.911965 TGATTAATGTTTTGCCTAATATGAGCA 58.088 29.630 0.00 0.00 33.97 4.26
78 79 9.185192 GTGATTAATGTTTTGCCTAATATGAGC 57.815 33.333 0.00 0.00 0.00 4.26
281 282 9.431887 TGCTTAGTTCGAACTAGTTGAATTAAT 57.568 29.630 30.76 9.99 42.04 1.40
282 283 8.821147 TGCTTAGTTCGAACTAGTTGAATTAA 57.179 30.769 30.76 18.89 42.04 1.40
283 284 8.997621 ATGCTTAGTTCGAACTAGTTGAATTA 57.002 30.769 30.76 16.92 42.04 1.40
284 285 7.907214 ATGCTTAGTTCGAACTAGTTGAATT 57.093 32.000 30.76 14.73 42.04 2.17
286 287 9.512435 GTATATGCTTAGTTCGAACTAGTTGAA 57.488 33.333 30.76 21.75 42.04 2.69
287 288 8.900781 AGTATATGCTTAGTTCGAACTAGTTGA 58.099 33.333 30.76 19.07 42.04 3.18
385 386 9.114952 TGATTAATGTTTCGCCTAATATGAACA 57.885 29.630 0.00 0.00 0.00 3.18
386 387 9.382244 GTGATTAATGTTTCGCCTAATATGAAC 57.618 33.333 0.00 0.00 0.00 3.18
387 388 9.337396 AGTGATTAATGTTTCGCCTAATATGAA 57.663 29.630 0.00 0.00 0.00 2.57
388 389 8.902540 AGTGATTAATGTTTCGCCTAATATGA 57.097 30.769 0.00 0.00 0.00 2.15
391 392 9.826574 AGTAAGTGATTAATGTTTCGCCTAATA 57.173 29.630 0.00 0.00 0.00 0.98
392 393 8.732746 AGTAAGTGATTAATGTTTCGCCTAAT 57.267 30.769 0.00 0.00 0.00 1.73
393 394 9.656040 TTAGTAAGTGATTAATGTTTCGCCTAA 57.344 29.630 0.00 0.00 0.00 2.69
394 395 9.826574 ATTAGTAAGTGATTAATGTTTCGCCTA 57.173 29.630 0.00 0.00 0.00 3.93
395 396 8.732746 ATTAGTAAGTGATTAATGTTTCGCCT 57.267 30.769 0.00 0.00 0.00 5.52
396 397 9.434559 GAATTAGTAAGTGATTAATGTTTCGCC 57.565 33.333 0.00 0.00 0.00 5.54
397 398 9.982291 TGAATTAGTAAGTGATTAATGTTTCGC 57.018 29.630 0.00 0.00 0.00 4.70
1004 1005 4.903045 AAAGGTCGTAATTCCAGAGGAA 57.097 40.909 0.30 0.30 46.39 3.36
1005 1006 4.161001 GGTAAAGGTCGTAATTCCAGAGGA 59.839 45.833 0.00 0.00 0.00 3.71
1006 1007 4.081309 TGGTAAAGGTCGTAATTCCAGAGG 60.081 45.833 0.00 0.00 0.00 3.69
1007 1008 4.868734 GTGGTAAAGGTCGTAATTCCAGAG 59.131 45.833 0.00 0.00 0.00 3.35
1008 1009 4.283978 TGTGGTAAAGGTCGTAATTCCAGA 59.716 41.667 0.00 0.00 0.00 3.86
1009 1010 4.571919 TGTGGTAAAGGTCGTAATTCCAG 58.428 43.478 0.00 0.00 0.00 3.86
1010 1011 4.620589 TGTGGTAAAGGTCGTAATTCCA 57.379 40.909 0.00 0.00 0.00 3.53
1011 1012 4.143052 CGTTGTGGTAAAGGTCGTAATTCC 60.143 45.833 0.00 0.00 0.00 3.01
1012 1013 4.143052 CCGTTGTGGTAAAGGTCGTAATTC 60.143 45.833 0.00 0.00 0.00 2.17
1013 1014 3.747529 CCGTTGTGGTAAAGGTCGTAATT 59.252 43.478 0.00 0.00 0.00 1.40
1014 1015 3.328505 CCGTTGTGGTAAAGGTCGTAAT 58.671 45.455 0.00 0.00 0.00 1.89
1015 1016 2.753296 CCGTTGTGGTAAAGGTCGTAA 58.247 47.619 0.00 0.00 0.00 3.18
1016 1017 2.437200 CCGTTGTGGTAAAGGTCGTA 57.563 50.000 0.00 0.00 0.00 3.43
1017 1018 3.294079 CCGTTGTGGTAAAGGTCGT 57.706 52.632 0.00 0.00 0.00 4.34
1033 1034 2.588877 GATCCATGGACGGCACCG 60.589 66.667 18.99 7.71 46.03 4.94
1034 1035 0.679640 TTTGATCCATGGACGGCACC 60.680 55.000 18.99 3.00 0.00 5.01
1035 1036 1.392589 ATTTGATCCATGGACGGCAC 58.607 50.000 18.99 7.14 0.00 5.01
1036 1037 2.142356 AATTTGATCCATGGACGGCA 57.858 45.000 18.99 13.06 0.00 5.69
1037 1038 4.853924 AATAATTTGATCCATGGACGGC 57.146 40.909 18.99 10.36 0.00 5.68
1038 1039 5.008613 ACGAAATAATTTGATCCATGGACGG 59.991 40.000 18.99 0.00 0.00 4.79
1039 1040 5.909054 CACGAAATAATTTGATCCATGGACG 59.091 40.000 18.99 13.70 0.00 4.79
1040 1041 6.039270 TCCACGAAATAATTTGATCCATGGAC 59.961 38.462 18.99 11.83 0.00 4.02
1041 1042 6.125719 TCCACGAAATAATTTGATCCATGGA 58.874 36.000 18.88 18.88 0.00 3.41
1042 1043 6.389830 TCCACGAAATAATTTGATCCATGG 57.610 37.500 4.97 4.97 0.00 3.66
1043 1044 7.383029 CCAATCCACGAAATAATTTGATCCATG 59.617 37.037 0.00 0.00 0.00 3.66
1044 1045 7.287466 TCCAATCCACGAAATAATTTGATCCAT 59.713 33.333 0.00 0.00 0.00 3.41
1045 1046 6.605194 TCCAATCCACGAAATAATTTGATCCA 59.395 34.615 0.00 0.00 0.00 3.41
1046 1047 7.038154 TCCAATCCACGAAATAATTTGATCC 57.962 36.000 0.00 0.00 0.00 3.36
1047 1048 9.533253 AAATCCAATCCACGAAATAATTTGATC 57.467 29.630 0.00 0.00 0.00 2.92
1048 1049 9.533253 GAAATCCAATCCACGAAATAATTTGAT 57.467 29.630 0.00 0.00 0.00 2.57
1049 1050 8.526978 TGAAATCCAATCCACGAAATAATTTGA 58.473 29.630 0.00 0.00 0.00 2.69
1050 1051 8.594687 GTGAAATCCAATCCACGAAATAATTTG 58.405 33.333 0.00 0.00 0.00 2.32
1051 1052 8.531146 AGTGAAATCCAATCCACGAAATAATTT 58.469 29.630 0.00 0.00 34.93 1.82
1052 1053 8.066612 AGTGAAATCCAATCCACGAAATAATT 57.933 30.769 0.00 0.00 34.93 1.40
1053 1054 7.645058 AGTGAAATCCAATCCACGAAATAAT 57.355 32.000 0.00 0.00 34.93 1.28
1054 1055 7.312154 CAAGTGAAATCCAATCCACGAAATAA 58.688 34.615 0.00 0.00 34.93 1.40
1055 1056 6.624861 GCAAGTGAAATCCAATCCACGAAATA 60.625 38.462 0.00 0.00 34.93 1.40
1056 1057 5.713025 CAAGTGAAATCCAATCCACGAAAT 58.287 37.500 0.00 0.00 34.93 2.17
1057 1058 4.558496 GCAAGTGAAATCCAATCCACGAAA 60.558 41.667 0.00 0.00 34.93 3.46
1058 1059 3.057596 GCAAGTGAAATCCAATCCACGAA 60.058 43.478 0.00 0.00 34.93 3.85
1059 1060 2.487762 GCAAGTGAAATCCAATCCACGA 59.512 45.455 0.00 0.00 34.93 4.35
1060 1061 2.415893 GGCAAGTGAAATCCAATCCACG 60.416 50.000 0.00 0.00 34.93 4.94
1061 1062 2.827921 AGGCAAGTGAAATCCAATCCAC 59.172 45.455 0.00 0.00 0.00 4.02
1062 1063 2.827322 CAGGCAAGTGAAATCCAATCCA 59.173 45.455 0.00 0.00 0.00 3.41
1063 1064 2.827921 ACAGGCAAGTGAAATCCAATCC 59.172 45.455 0.00 0.00 0.00 3.01
1064 1065 3.760684 AGACAGGCAAGTGAAATCCAATC 59.239 43.478 0.00 0.00 0.00 2.67
1065 1066 3.771216 AGACAGGCAAGTGAAATCCAAT 58.229 40.909 0.00 0.00 0.00 3.16
1066 1067 3.228188 AGACAGGCAAGTGAAATCCAA 57.772 42.857 0.00 0.00 0.00 3.53
1067 1068 2.957402 AGACAGGCAAGTGAAATCCA 57.043 45.000 0.00 0.00 0.00 3.41
1068 1069 2.673368 CGTAGACAGGCAAGTGAAATCC 59.327 50.000 0.00 0.00 0.00 3.01
1069 1070 2.673368 CCGTAGACAGGCAAGTGAAATC 59.327 50.000 0.00 0.00 0.00 2.17
1070 1071 2.038557 ACCGTAGACAGGCAAGTGAAAT 59.961 45.455 0.00 0.00 0.00 2.17
1071 1072 1.414919 ACCGTAGACAGGCAAGTGAAA 59.585 47.619 0.00 0.00 0.00 2.69
1072 1073 1.045407 ACCGTAGACAGGCAAGTGAA 58.955 50.000 0.00 0.00 0.00 3.18
1073 1074 1.000506 GAACCGTAGACAGGCAAGTGA 59.999 52.381 0.00 0.00 0.00 3.41
1074 1075 1.429463 GAACCGTAGACAGGCAAGTG 58.571 55.000 0.00 0.00 0.00 3.16
1075 1076 0.320697 GGAACCGTAGACAGGCAAGT 59.679 55.000 0.00 0.00 0.00 3.16
1076 1077 0.391263 GGGAACCGTAGACAGGCAAG 60.391 60.000 0.00 0.00 40.86 4.01
1077 1078 1.675219 GGGAACCGTAGACAGGCAA 59.325 57.895 0.00 0.00 40.86 4.52
1078 1079 3.384348 GGGAACCGTAGACAGGCA 58.616 61.111 0.00 0.00 40.86 4.75
1094 1095 2.572095 TATCCCGAGCACACGCAAGG 62.572 60.000 0.00 0.00 46.39 3.61
1095 1096 1.148157 CTATCCCGAGCACACGCAAG 61.148 60.000 0.00 0.00 42.27 4.01
1096 1097 1.153647 CTATCCCGAGCACACGCAA 60.154 57.895 0.00 0.00 42.27 4.85
1097 1098 2.494445 CTATCCCGAGCACACGCA 59.506 61.111 0.00 0.00 42.27 5.24
1098 1099 2.279517 CCTATCCCGAGCACACGC 60.280 66.667 0.00 0.00 38.99 5.34
1099 1100 1.226974 CACCTATCCCGAGCACACG 60.227 63.158 0.00 0.00 0.00 4.49
1100 1101 0.249398 AACACCTATCCCGAGCACAC 59.751 55.000 0.00 0.00 0.00 3.82
1101 1102 0.981183 AAACACCTATCCCGAGCACA 59.019 50.000 0.00 0.00 0.00 4.57
1102 1103 1.737793 CAAAACACCTATCCCGAGCAC 59.262 52.381 0.00 0.00 0.00 4.40
1103 1104 1.349688 ACAAAACACCTATCCCGAGCA 59.650 47.619 0.00 0.00 0.00 4.26
1104 1105 2.109425 ACAAAACACCTATCCCGAGC 57.891 50.000 0.00 0.00 0.00 5.03
1105 1106 7.497909 ACATTTATACAAAACACCTATCCCGAG 59.502 37.037 0.00 0.00 0.00 4.63
1106 1107 7.340256 ACATTTATACAAAACACCTATCCCGA 58.660 34.615 0.00 0.00 0.00 5.14
1107 1108 7.562454 ACATTTATACAAAACACCTATCCCG 57.438 36.000 0.00 0.00 0.00 5.14
1108 1109 9.797556 GAAACATTTATACAAAACACCTATCCC 57.202 33.333 0.00 0.00 0.00 3.85
1112 1113 8.291032 CGGTGAAACATTTATACAAAACACCTA 58.709 33.333 0.00 0.00 40.90 3.08
1113 1114 7.142680 CGGTGAAACATTTATACAAAACACCT 58.857 34.615 0.00 0.00 40.90 4.00
1114 1115 6.919115 ACGGTGAAACATTTATACAAAACACC 59.081 34.615 0.00 0.00 39.98 4.16
1115 1116 7.917720 ACGGTGAAACATTTATACAAAACAC 57.082 32.000 0.00 0.00 39.98 3.32
1193 1194 9.950680 CACATGTTTAGTTGAACTAGTTGAATT 57.049 29.630 14.14 10.47 31.47 2.17
1194 1195 8.076178 GCACATGTTTAGTTGAACTAGTTGAAT 58.924 33.333 14.14 3.37 31.47 2.57
1195 1196 7.282224 AGCACATGTTTAGTTGAACTAGTTGAA 59.718 33.333 14.14 8.35 31.47 2.69
1196 1197 6.765989 AGCACATGTTTAGTTGAACTAGTTGA 59.234 34.615 14.14 0.39 31.47 3.18
1197 1198 6.959361 AGCACATGTTTAGTTGAACTAGTTG 58.041 36.000 14.14 5.12 31.47 3.16
1198 1199 8.671384 TTAGCACATGTTTAGTTGAACTAGTT 57.329 30.769 8.13 8.13 31.47 2.24
1199 1200 8.671384 TTTAGCACATGTTTAGTTGAACTAGT 57.329 30.769 5.10 0.00 31.47 2.57
1200 1201 9.944663 TTTTTAGCACATGTTTAGTTGAACTAG 57.055 29.630 5.10 0.00 31.47 2.57
1245 1246 9.826574 AGTGTATGTTTAGTTTGAACTAGTTGA 57.173 29.630 14.14 0.39 42.04 3.18
1297 1298 9.555727 AGTAAATGCTTAGTTGAACTAGTTGAA 57.444 29.630 14.14 8.35 31.47 2.69
1298 1299 9.555727 AAGTAAATGCTTAGTTGAACTAGTTGA 57.444 29.630 14.14 0.39 31.47 3.18
1353 1354 9.555727 AGTAAATGCTTAGTTGAACTAGTTGAA 57.444 29.630 14.14 8.35 31.47 2.69
1354 1355 9.555727 AAGTAAATGCTTAGTTGAACTAGTTGA 57.444 29.630 14.14 0.39 31.47 3.18
1408 1409 8.947055 AAATGCTTAGTTGAACTTGTTGAATT 57.053 26.923 1.97 0.00 0.00 2.17
1409 1410 9.463443 GTAAATGCTTAGTTGAACTTGTTGAAT 57.537 29.630 1.97 0.00 0.00 2.57
1410 1411 7.642194 CGTAAATGCTTAGTTGAACTTGTTGAA 59.358 33.333 1.97 0.00 0.00 2.69
1411 1412 7.011576 TCGTAAATGCTTAGTTGAACTTGTTGA 59.988 33.333 1.97 0.00 0.00 3.18
1412 1413 7.129622 TCGTAAATGCTTAGTTGAACTTGTTG 58.870 34.615 1.97 0.00 0.00 3.33
1413 1414 7.254227 TCGTAAATGCTTAGTTGAACTTGTT 57.746 32.000 1.97 0.00 0.00 2.83
1414 1415 6.854496 TCGTAAATGCTTAGTTGAACTTGT 57.146 33.333 1.97 0.00 0.00 3.16
1415 1416 8.555166 TTTTCGTAAATGCTTAGTTGAACTTG 57.445 30.769 1.97 0.00 0.00 3.16
1416 1417 9.744468 ATTTTTCGTAAATGCTTAGTTGAACTT 57.256 25.926 1.97 0.00 0.00 2.66
1563 1564 8.990163 ACGTTCCCCAACAGAATTAATATAAT 57.010 30.769 0.00 0.00 32.14 1.28
1564 1565 8.679100 CAACGTTCCCCAACAGAATTAATATAA 58.321 33.333 0.00 0.00 32.14 0.98
1565 1566 7.201750 GCAACGTTCCCCAACAGAATTAATATA 60.202 37.037 0.00 0.00 32.14 0.86
1566 1567 6.405397 GCAACGTTCCCCAACAGAATTAATAT 60.405 38.462 0.00 0.00 32.14 1.28
1567 1568 5.106078 GCAACGTTCCCCAACAGAATTAATA 60.106 40.000 0.00 0.00 32.14 0.98
1568 1569 4.321675 GCAACGTTCCCCAACAGAATTAAT 60.322 41.667 0.00 0.00 32.14 1.40
1569 1570 3.004944 GCAACGTTCCCCAACAGAATTAA 59.995 43.478 0.00 0.00 32.14 1.40
1570 1571 2.554893 GCAACGTTCCCCAACAGAATTA 59.445 45.455 0.00 0.00 32.14 1.40
1571 1572 1.339929 GCAACGTTCCCCAACAGAATT 59.660 47.619 0.00 0.00 32.14 2.17
1680 1682 1.268386 CCGCTCGCGATCTACAAAGTA 60.268 52.381 10.36 0.00 42.83 2.24
1823 1826 1.272092 CCCCTTGCTGGATCAAGACAA 60.272 52.381 0.00 4.20 44.61 3.18
1824 1827 0.329261 CCCCTTGCTGGATCAAGACA 59.671 55.000 0.00 0.00 44.61 3.41
1926 1929 1.077212 CCTCGTCCTCCTCCCGTAA 60.077 63.158 0.00 0.00 0.00 3.18
1928 1931 3.659496 ACCTCGTCCTCCTCCCGT 61.659 66.667 0.00 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.