Multiple sequence alignment - TraesCS2B01G442000

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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 TraesCS2B01G442000 chr2B 100.000 5232 0 0 1 5232 634593513 634598744 0.000000e+00 9662
1 TraesCS2B01G442000 chr2B 89.189 925 57 22 4341 5232 68886044 68886958 0.000000e+00 1114
2 TraesCS2B01G442000 chr2B 88.035 794 70 19 4453 5232 637127324 637126542 0.000000e+00 917
3 TraesCS2B01G442000 chr2B 85.541 906 91 27 4357 5232 133922607 133923502 0.000000e+00 911
4 TraesCS2B01G442000 chr3B 94.329 4250 174 20 170 4360 533095534 533099775 0.000000e+00 6451
5 TraesCS2B01G442000 chr3B 95.630 801 30 5 4432 5232 424205009 424205804 0.000000e+00 1280
6 TraesCS2B01G442000 chr3B 85.459 894 94 19 4362 5232 524054022 524053142 0.000000e+00 898
7 TraesCS2B01G442000 chr3B 83.612 897 107 28 4357 5232 357041361 357040484 0.000000e+00 806
8 TraesCS2B01G442000 chr3B 86.239 327 35 8 1282 1605 168432767 168433086 3.880000e-91 346
9 TraesCS2B01G442000 chr3B 98.235 170 3 0 1 170 736615943 736615774 1.100000e-76 298
10 TraesCS2B01G442000 chr3B 87.293 181 22 1 4176 4355 168433458 168433638 6.870000e-49 206
11 TraesCS2B01G442000 chr3B 87.151 179 23 0 4177 4355 453980750 453980572 2.470000e-48 204
12 TraesCS2B01G442000 chr3B 86.592 179 24 0 4177 4355 477976705 477976883 1.150000e-46 198
13 TraesCS2B01G442000 chr7B 93.821 4224 200 27 171 4366 575750429 575746239 0.000000e+00 6298
14 TraesCS2B01G442000 chr7B 94.038 4193 176 21 209 4363 24227272 24223116 0.000000e+00 6290
15 TraesCS2B01G442000 chr7B 94.621 818 36 6 4415 5232 384542871 384542062 0.000000e+00 1260
16 TraesCS2B01G442000 chr7B 98.235 170 3 0 1 170 133309641 133309810 1.100000e-76 298
17 TraesCS2B01G442000 chr7B 98.235 170 3 0 1 170 175445950 175446119 1.100000e-76 298
18 TraesCS2B01G442000 chr7B 98.235 170 3 0 1 170 286506142 286506311 1.100000e-76 298
19 TraesCS2B01G442000 chr7B 98.225 169 3 0 2 170 3264307 3264139 3.960000e-76 296
20 TraesCS2B01G442000 chr7B 98.225 169 3 0 2 170 199734475 199734643 3.960000e-76 296
21 TraesCS2B01G442000 chr2A 90.279 4269 227 75 171 4360 273010967 273006808 0.000000e+00 5411
22 TraesCS2B01G442000 chr2A 89.995 4268 228 73 171 4357 354237736 354241885 0.000000e+00 5332
23 TraesCS2B01G442000 chr4B 91.699 3614 179 42 814 4360 8634863 8631304 0.000000e+00 4900
24 TraesCS2B01G442000 chr4B 95.387 802 31 6 4432 5232 372795576 372796372 0.000000e+00 1271
25 TraesCS2B01G442000 chr4B 83.931 641 55 21 171 793 8635452 8634842 2.110000e-158 569
26 TraesCS2B01G442000 chr4B 98.225 169 3 0 2 170 34223983 34224151 3.960000e-76 296
27 TraesCS2B01G442000 chr6B 92.924 3420 143 41 1015 4361 644281106 644277713 0.000000e+00 4883
28 TraesCS2B01G442000 chr6B 92.849 895 39 7 4357 5232 364126417 364127305 0.000000e+00 1275
29 TraesCS2B01G442000 chr6B 94.775 823 29 9 4419 5232 175663434 175664251 0.000000e+00 1269
30 TraesCS2B01G442000 chr4D 84.211 1881 269 19 1427 3300 267753461 267755320 0.000000e+00 1803
31 TraesCS2B01G442000 chr4D 86.322 329 34 7 1279 1605 57009187 57009506 1.080000e-91 348
32 TraesCS2B01G442000 chr7A 89.110 1304 76 27 3102 4366 228031340 228032616 0.000000e+00 1561
33 TraesCS2B01G442000 chr7A 87.460 949 55 24 3450 4361 228031273 228030352 0.000000e+00 1035
34 TraesCS2B01G442000 chr7A 88.042 577 45 15 4357 4914 593072499 593071928 0.000000e+00 662
35 TraesCS2B01G442000 chrUn 95.036 826 32 7 4414 5232 63891612 63892435 0.000000e+00 1290
36 TraesCS2B01G442000 chr5B 95.755 801 26 6 4432 5232 179905796 179906588 0.000000e+00 1284
37 TraesCS2B01G442000 chr5B 95.854 796 28 5 4438 5232 338975270 338976061 0.000000e+00 1282
38 TraesCS2B01G442000 chr5B 98.235 170 3 0 1 170 460568699 460568868 1.100000e-76 298
39 TraesCS2B01G442000 chr1B 95.636 802 27 6 4432 5232 629977460 629976666 0.000000e+00 1280
40 TraesCS2B01G442000 chr1B 97.143 175 5 0 1 175 673942907 673942733 3.960000e-76 296
41 TraesCS2B01G442000 chr1B 90.678 118 11 0 4245 4362 251382760 251382877 1.950000e-34 158
42 TraesCS2B01G442000 chr3A 85.777 907 84 28 4357 5232 168975832 168976724 0.000000e+00 918
43 TraesCS2B01G442000 chr5D 85.496 917 87 30 4350 5232 242512128 242511224 0.000000e+00 915


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 TraesCS2B01G442000 chr2B 634593513 634598744 5231 False 9662.0 9662 100.000 1 5232 1 chr2B.!!$F3 5231
1 TraesCS2B01G442000 chr2B 68886044 68886958 914 False 1114.0 1114 89.189 4341 5232 1 chr2B.!!$F1 891
2 TraesCS2B01G442000 chr2B 637126542 637127324 782 True 917.0 917 88.035 4453 5232 1 chr2B.!!$R1 779
3 TraesCS2B01G442000 chr2B 133922607 133923502 895 False 911.0 911 85.541 4357 5232 1 chr2B.!!$F2 875
4 TraesCS2B01G442000 chr3B 533095534 533099775 4241 False 6451.0 6451 94.329 170 4360 1 chr3B.!!$F3 4190
5 TraesCS2B01G442000 chr3B 424205009 424205804 795 False 1280.0 1280 95.630 4432 5232 1 chr3B.!!$F1 800
6 TraesCS2B01G442000 chr3B 524053142 524054022 880 True 898.0 898 85.459 4362 5232 1 chr3B.!!$R3 870
7 TraesCS2B01G442000 chr3B 357040484 357041361 877 True 806.0 806 83.612 4357 5232 1 chr3B.!!$R1 875
8 TraesCS2B01G442000 chr3B 168432767 168433638 871 False 276.0 346 86.766 1282 4355 2 chr3B.!!$F4 3073
9 TraesCS2B01G442000 chr7B 575746239 575750429 4190 True 6298.0 6298 93.821 171 4366 1 chr7B.!!$R4 4195
10 TraesCS2B01G442000 chr7B 24223116 24227272 4156 True 6290.0 6290 94.038 209 4363 1 chr7B.!!$R2 4154
11 TraesCS2B01G442000 chr7B 384542062 384542871 809 True 1260.0 1260 94.621 4415 5232 1 chr7B.!!$R3 817
12 TraesCS2B01G442000 chr2A 273006808 273010967 4159 True 5411.0 5411 90.279 171 4360 1 chr2A.!!$R1 4189
13 TraesCS2B01G442000 chr2A 354237736 354241885 4149 False 5332.0 5332 89.995 171 4357 1 chr2A.!!$F1 4186
14 TraesCS2B01G442000 chr4B 8631304 8635452 4148 True 2734.5 4900 87.815 171 4360 2 chr4B.!!$R1 4189
15 TraesCS2B01G442000 chr4B 372795576 372796372 796 False 1271.0 1271 95.387 4432 5232 1 chr4B.!!$F2 800
16 TraesCS2B01G442000 chr6B 644277713 644281106 3393 True 4883.0 4883 92.924 1015 4361 1 chr6B.!!$R1 3346
17 TraesCS2B01G442000 chr6B 364126417 364127305 888 False 1275.0 1275 92.849 4357 5232 1 chr6B.!!$F2 875
18 TraesCS2B01G442000 chr6B 175663434 175664251 817 False 1269.0 1269 94.775 4419 5232 1 chr6B.!!$F1 813
19 TraesCS2B01G442000 chr4D 267753461 267755320 1859 False 1803.0 1803 84.211 1427 3300 1 chr4D.!!$F2 1873
20 TraesCS2B01G442000 chr7A 228031340 228032616 1276 False 1561.0 1561 89.110 3102 4366 1 chr7A.!!$F1 1264
21 TraesCS2B01G442000 chr7A 228030352 228031273 921 True 1035.0 1035 87.460 3450 4361 1 chr7A.!!$R1 911
22 TraesCS2B01G442000 chr7A 593071928 593072499 571 True 662.0 662 88.042 4357 4914 1 chr7A.!!$R2 557
23 TraesCS2B01G442000 chrUn 63891612 63892435 823 False 1290.0 1290 95.036 4414 5232 1 chrUn.!!$F1 818
24 TraesCS2B01G442000 chr5B 179905796 179906588 792 False 1284.0 1284 95.755 4432 5232 1 chr5B.!!$F1 800
25 TraesCS2B01G442000 chr5B 338975270 338976061 791 False 1282.0 1282 95.854 4438 5232 1 chr5B.!!$F2 794
26 TraesCS2B01G442000 chr1B 629976666 629977460 794 True 1280.0 1280 95.636 4432 5232 1 chr1B.!!$R1 800
27 TraesCS2B01G442000 chr3A 168975832 168976724 892 False 918.0 918 85.777 4357 5232 1 chr3A.!!$F1 875
28 TraesCS2B01G442000 chr5D 242511224 242512128 904 True 915.0 915 85.496 4350 5232 1 chr5D.!!$R1 882

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
546 567 0.401395 CTCAACCCCCATAGCCCCTA 60.401 60.0 0.00 0.00 0.0 3.53 F
2084 2246 0.462581 GATGCTTGGACAGATCGCCA 60.463 55.0 1.51 1.51 0.0 5.69 F
2206 2368 0.167470 CAGCTTGGTCATGTCTTGCG 59.833 55.0 0.00 0.00 0.0 4.85 F
3722 3905 0.118144 AGGAAGAGGAGGAAGTGGCT 59.882 55.0 0.00 0.00 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2128 2290 0.038166 ATGGCACGGAGGAAACACAT 59.962 50.000 0.00 0.0 0.00 3.21 R
3188 3362 0.250252 TGCAGAAGTTCCATGCACGA 60.250 50.000 14.03 0.0 44.56 4.35 R
3788 3971 2.755655 TCCAGTCAGATCGAAGACTTCC 59.244 50.000 13.73 0.0 42.87 3.46 R
4671 5183 3.832527 AGAAACTAAGTGGGTGTGCATT 58.167 40.909 0.00 0.0 0.00 3.56 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
21 22 4.799564 GGCCACCTTCATAATTTTCACA 57.200 40.909 0.00 0.00 0.00 3.58
22 23 4.494484 GGCCACCTTCATAATTTTCACAC 58.506 43.478 0.00 0.00 0.00 3.82
23 24 4.021544 GGCCACCTTCATAATTTTCACACA 60.022 41.667 0.00 0.00 0.00 3.72
24 25 5.337491 GGCCACCTTCATAATTTTCACACAT 60.337 40.000 0.00 0.00 0.00 3.21
25 26 5.577945 GCCACCTTCATAATTTTCACACATG 59.422 40.000 0.00 0.00 0.00 3.21
26 27 6.690530 CCACCTTCATAATTTTCACACATGT 58.309 36.000 0.00 0.00 0.00 3.21
27 28 6.808212 CCACCTTCATAATTTTCACACATGTC 59.192 38.462 0.00 0.00 0.00 3.06
28 29 7.369607 CACCTTCATAATTTTCACACATGTCA 58.630 34.615 0.00 0.00 0.00 3.58
29 30 7.326789 CACCTTCATAATTTTCACACATGTCAC 59.673 37.037 0.00 0.00 0.00 3.67
30 31 7.231317 ACCTTCATAATTTTCACACATGTCACT 59.769 33.333 0.00 0.00 0.00 3.41
31 32 7.752239 CCTTCATAATTTTCACACATGTCACTC 59.248 37.037 0.00 0.00 0.00 3.51
32 33 7.984422 TCATAATTTTCACACATGTCACTCT 57.016 32.000 0.00 0.00 0.00 3.24
33 34 8.394971 TCATAATTTTCACACATGTCACTCTT 57.605 30.769 0.00 0.00 0.00 2.85
34 35 8.291740 TCATAATTTTCACACATGTCACTCTTG 58.708 33.333 0.00 0.00 0.00 3.02
35 36 6.698008 AATTTTCACACATGTCACTCTTGA 57.302 33.333 0.00 0.00 0.00 3.02
36 37 6.889301 ATTTTCACACATGTCACTCTTGAT 57.111 33.333 0.00 0.00 33.11 2.57
37 38 6.698008 TTTTCACACATGTCACTCTTGATT 57.302 33.333 0.00 0.00 33.11 2.57
38 39 5.929697 TTCACACATGTCACTCTTGATTC 57.070 39.130 0.00 0.00 33.11 2.52
39 40 4.959723 TCACACATGTCACTCTTGATTCA 58.040 39.130 0.00 0.00 33.11 2.57
40 41 5.554070 TCACACATGTCACTCTTGATTCAT 58.446 37.500 0.00 0.00 33.11 2.57
41 42 5.999600 TCACACATGTCACTCTTGATTCATT 59.000 36.000 0.00 0.00 33.11 2.57
42 43 6.072893 TCACACATGTCACTCTTGATTCATTG 60.073 38.462 0.00 0.00 33.11 2.82
43 44 5.093457 CACATGTCACTCTTGATTCATTGC 58.907 41.667 0.00 0.00 33.11 3.56
44 45 4.763279 ACATGTCACTCTTGATTCATTGCA 59.237 37.500 0.00 0.00 33.11 4.08
45 46 5.417894 ACATGTCACTCTTGATTCATTGCAT 59.582 36.000 0.00 0.00 33.11 3.96
46 47 6.600427 ACATGTCACTCTTGATTCATTGCATA 59.400 34.615 0.00 0.00 33.11 3.14
47 48 7.284716 ACATGTCACTCTTGATTCATTGCATAT 59.715 33.333 0.00 0.00 33.11 1.78
48 49 7.255491 TGTCACTCTTGATTCATTGCATATC 57.745 36.000 0.00 0.00 33.11 1.63
49 50 6.261603 TGTCACTCTTGATTCATTGCATATCC 59.738 38.462 0.00 0.00 33.11 2.59
50 51 5.766670 TCACTCTTGATTCATTGCATATCCC 59.233 40.000 0.00 0.00 0.00 3.85
51 52 4.758674 ACTCTTGATTCATTGCATATCCCG 59.241 41.667 0.00 0.00 0.00 5.14
52 53 4.074259 TCTTGATTCATTGCATATCCCGG 58.926 43.478 0.00 0.00 0.00 5.73
53 54 3.507162 TGATTCATTGCATATCCCGGT 57.493 42.857 0.00 0.00 0.00 5.28
54 55 4.632327 TGATTCATTGCATATCCCGGTA 57.368 40.909 0.00 0.00 0.00 4.02
55 56 4.323417 TGATTCATTGCATATCCCGGTAC 58.677 43.478 0.00 0.00 0.00 3.34
56 57 3.847671 TTCATTGCATATCCCGGTACA 57.152 42.857 0.00 0.00 0.00 2.90
57 58 3.120321 TCATTGCATATCCCGGTACAC 57.880 47.619 0.00 0.00 0.00 2.90
58 59 2.151202 CATTGCATATCCCGGTACACC 58.849 52.381 0.00 0.00 0.00 4.16
81 82 4.116747 CCGGAGGCATTCATATAGAGTC 57.883 50.000 0.00 0.00 46.14 3.36
82 83 3.511540 CCGGAGGCATTCATATAGAGTCA 59.488 47.826 0.00 0.00 46.14 3.41
83 84 4.161189 CCGGAGGCATTCATATAGAGTCAT 59.839 45.833 0.00 0.00 46.14 3.06
84 85 5.360999 CCGGAGGCATTCATATAGAGTCATA 59.639 44.000 0.00 0.00 46.14 2.15
85 86 6.269315 CGGAGGCATTCATATAGAGTCATAC 58.731 44.000 0.00 0.00 0.00 2.39
86 87 6.096141 CGGAGGCATTCATATAGAGTCATACT 59.904 42.308 0.00 0.00 0.00 2.12
87 88 7.363355 CGGAGGCATTCATATAGAGTCATACTT 60.363 40.741 0.00 0.00 0.00 2.24
88 89 8.317679 GGAGGCATTCATATAGAGTCATACTTT 58.682 37.037 0.00 0.00 0.00 2.66
89 90 9.149225 GAGGCATTCATATAGAGTCATACTTTG 57.851 37.037 0.00 0.00 0.00 2.77
90 91 8.654997 AGGCATTCATATAGAGTCATACTTTGT 58.345 33.333 0.00 0.00 0.00 2.83
91 92 9.277783 GGCATTCATATAGAGTCATACTTTGTT 57.722 33.333 0.00 0.00 0.00 2.83
101 102 8.594881 AGAGTCATACTTTGTTCTAAGTGTTG 57.405 34.615 9.19 7.38 38.72 3.33
102 103 8.421784 AGAGTCATACTTTGTTCTAAGTGTTGA 58.578 33.333 9.19 9.02 38.72 3.18
103 104 8.594881 AGTCATACTTTGTTCTAAGTGTTGAG 57.405 34.615 9.19 0.00 38.72 3.02
104 105 8.204836 AGTCATACTTTGTTCTAAGTGTTGAGT 58.795 33.333 9.19 10.77 38.72 3.41
105 106 8.827677 GTCATACTTTGTTCTAAGTGTTGAGTT 58.172 33.333 9.19 0.00 38.72 3.01
106 107 8.826710 TCATACTTTGTTCTAAGTGTTGAGTTG 58.173 33.333 9.19 0.00 38.72 3.16
107 108 8.612619 CATACTTTGTTCTAAGTGTTGAGTTGT 58.387 33.333 9.19 0.00 38.72 3.32
108 109 9.826574 ATACTTTGTTCTAAGTGTTGAGTTGTA 57.173 29.630 9.19 0.00 38.72 2.41
109 110 8.556213 ACTTTGTTCTAAGTGTTGAGTTGTAA 57.444 30.769 0.00 0.00 37.00 2.41
110 111 9.174166 ACTTTGTTCTAAGTGTTGAGTTGTAAT 57.826 29.630 0.00 0.00 37.00 1.89
112 113 9.997482 TTTGTTCTAAGTGTTGAGTTGTAATTC 57.003 29.630 0.00 0.00 0.00 2.17
113 114 8.958119 TGTTCTAAGTGTTGAGTTGTAATTCT 57.042 30.769 0.00 0.00 0.00 2.40
114 115 9.042008 TGTTCTAAGTGTTGAGTTGTAATTCTC 57.958 33.333 0.00 0.00 0.00 2.87
115 116 7.869016 TCTAAGTGTTGAGTTGTAATTCTCG 57.131 36.000 0.00 0.00 33.88 4.04
116 117 7.654568 TCTAAGTGTTGAGTTGTAATTCTCGA 58.345 34.615 0.00 0.00 33.88 4.04
117 118 6.771188 AAGTGTTGAGTTGTAATTCTCGAG 57.229 37.500 5.93 5.93 33.88 4.04
118 119 5.844004 AGTGTTGAGTTGTAATTCTCGAGT 58.156 37.500 13.13 0.00 33.88 4.18
119 120 6.281405 AGTGTTGAGTTGTAATTCTCGAGTT 58.719 36.000 13.13 2.69 33.88 3.01
120 121 6.201044 AGTGTTGAGTTGTAATTCTCGAGTTG 59.799 38.462 13.13 0.00 33.88 3.16
121 122 6.018994 GTGTTGAGTTGTAATTCTCGAGTTGT 60.019 38.462 13.13 1.04 33.88 3.32
122 123 7.168637 GTGTTGAGTTGTAATTCTCGAGTTGTA 59.831 37.037 13.13 0.03 33.88 2.41
123 124 7.707464 TGTTGAGTTGTAATTCTCGAGTTGTAA 59.293 33.333 13.13 0.00 33.88 2.41
124 125 8.545420 GTTGAGTTGTAATTCTCGAGTTGTAAA 58.455 33.333 13.13 0.00 33.88 2.01
125 126 8.827177 TGAGTTGTAATTCTCGAGTTGTAAAT 57.173 30.769 13.13 1.13 33.88 1.40
126 127 9.268268 TGAGTTGTAATTCTCGAGTTGTAAATT 57.732 29.630 13.13 12.52 33.88 1.82
158 159 8.830201 AGTGTGATGATCTTCATTATTAGAGC 57.170 34.615 13.82 0.04 37.20 4.09
159 160 8.427276 AGTGTGATGATCTTCATTATTAGAGCA 58.573 33.333 13.82 0.00 40.61 4.26
160 161 9.217278 GTGTGATGATCTTCATTATTAGAGCAT 57.783 33.333 13.82 2.84 46.75 3.79
161 162 9.788889 TGTGATGATCTTCATTATTAGAGCATT 57.211 29.630 13.82 0.00 44.82 3.56
163 164 9.788889 TGATGATCTTCATTATTAGAGCATTGT 57.211 29.630 7.19 0.00 44.82 2.71
165 166 8.613060 TGATCTTCATTATTAGAGCATTGTCC 57.387 34.615 0.00 0.00 32.36 4.02
166 167 7.663081 TGATCTTCATTATTAGAGCATTGTCCC 59.337 37.037 0.00 0.00 32.36 4.46
167 168 6.899089 TCTTCATTATTAGAGCATTGTCCCA 58.101 36.000 0.00 0.00 0.00 4.37
168 169 7.345691 TCTTCATTATTAGAGCATTGTCCCAA 58.654 34.615 0.00 0.00 0.00 4.12
183 184 5.622346 TGTCCCAAGCAAGGTTTTAAATT 57.378 34.783 0.00 0.00 0.00 1.82
198 199 1.032014 AAATTGCGGGCGCTATGAAT 58.968 45.000 7.64 0.00 42.51 2.57
231 232 1.404986 GCTATTGCGGTAGTGTGTCCA 60.405 52.381 0.00 0.00 0.00 4.02
287 288 1.978080 TGTTTGGCATGATGCGGCT 60.978 52.632 11.75 0.00 46.21 5.52
291 292 3.962421 GGCATGATGCGGCTGCTC 61.962 66.667 20.27 13.88 46.21 4.26
462 483 2.669569 CCCCAGCGACACCACAAG 60.670 66.667 0.00 0.00 0.00 3.16
546 567 0.401395 CTCAACCCCCATAGCCCCTA 60.401 60.000 0.00 0.00 0.00 3.53
557 578 0.934813 TAGCCCCTACTCCCTTCCCT 60.935 60.000 0.00 0.00 0.00 4.20
623 653 3.691342 CGCACTTCCCTGGGTCGA 61.691 66.667 13.56 0.00 0.00 4.20
625 655 1.299976 GCACTTCCCTGGGTCGAAT 59.700 57.895 13.56 0.00 0.00 3.34
776 822 3.145551 GCTCCTTCCGGCTCCGTA 61.146 66.667 7.59 0.00 37.81 4.02
801 856 2.849120 CTTCCTGCTCTGTCCGGCTG 62.849 65.000 0.00 0.00 0.00 4.85
804 859 3.602513 CTGCTCTGTCCGGCTGCTT 62.603 63.158 0.00 0.00 0.00 3.91
830 928 2.999648 TCCGGCTGCTCTGCTCTT 61.000 61.111 0.00 0.00 0.00 2.85
842 940 0.826715 CTGCTCTTCTCCAATCGGGA 59.173 55.000 0.00 0.00 45.89 5.14
850 948 2.199117 TCCAATCGGGAAGGTCTCG 58.801 57.895 0.00 0.00 44.80 4.04
1168 1296 8.700051 AGTACAGTCTCTGCATTTTATCTGTAT 58.300 33.333 14.64 6.53 38.67 2.29
1343 1503 2.202932 CGGATCAGGGGCTTCGTG 60.203 66.667 0.00 0.00 0.00 4.35
1519 1681 2.611722 GCTGGACTGAGAAAGGACTGTC 60.612 54.545 0.00 0.00 35.37 3.51
1687 1849 6.029346 AGGATGAAGATTGCGAAATTGTTT 57.971 33.333 0.00 0.00 0.00 2.83
1769 1931 0.901827 ATGGACAGGTATCGTGCACA 59.098 50.000 18.64 4.45 37.54 4.57
1898 2060 9.389755 TGCACATAATGTTGCTAGTCTTAAATA 57.610 29.630 0.00 0.00 0.00 1.40
2084 2246 0.462581 GATGCTTGGACAGATCGCCA 60.463 55.000 1.51 1.51 0.00 5.69
2128 2290 1.304282 GCCCATTCTTCCAGAGGCA 59.696 57.895 0.00 0.00 34.35 4.75
2206 2368 0.167470 CAGCTTGGTCATGTCTTGCG 59.833 55.000 0.00 0.00 0.00 4.85
2504 2674 2.736721 GCTACTCGATTTGCAAGTCACA 59.263 45.455 20.32 6.59 0.00 3.58
2574 2744 4.620589 TGTTTGCATCAAATGATTGGGT 57.379 36.364 0.00 0.00 35.74 4.51
2591 2761 2.041081 TGGGTTGGCAGTAGTTATGCTT 59.959 45.455 0.00 0.00 43.35 3.91
2842 3012 7.963532 TCATAGATAGAAGGTGGGATAACAAC 58.036 38.462 0.00 0.00 0.00 3.32
2948 3119 3.465742 TCATGGAAGCAGTCATAGAGC 57.534 47.619 0.00 0.00 0.00 4.09
3017 3188 5.258456 TGTCTCCCAGCTTAGTTATTACG 57.742 43.478 0.00 0.00 0.00 3.18
3024 3195 6.097270 TCCCAGCTTAGTTATTACGCTAAAGA 59.903 38.462 0.00 0.00 34.90 2.52
3052 3223 3.159213 TCATTTGGAACTGACATGGCT 57.841 42.857 0.00 0.00 0.00 4.75
3174 3348 0.301388 GTTTGGCTTGCTTGTTTGCG 59.699 50.000 0.00 0.00 35.36 4.85
3188 3362 1.818674 GTTTGCGGAAAGATGGTGGAT 59.181 47.619 0.93 0.00 0.00 3.41
3226 3400 4.464008 TGCAAAGGACTTGAAGAAGATGT 58.536 39.130 0.00 0.00 37.17 3.06
3231 3405 7.766278 GCAAAGGACTTGAAGAAGATGTCTATA 59.234 37.037 0.00 0.00 37.17 1.31
3287 3461 5.125100 TGTGAAAGAAATTGGTCTGCATC 57.875 39.130 0.00 0.00 0.00 3.91
3291 3465 5.302568 TGAAAGAAATTGGTCTGCATCTTGT 59.697 36.000 0.00 0.00 0.00 3.16
3344 3518 8.635765 ATTCCTCAATTGCTTAGTTTCTTACA 57.364 30.769 0.00 0.00 0.00 2.41
3541 3715 5.870433 TGCTTGCAAAATACATTGAAGATGG 59.130 36.000 0.00 0.00 31.84 3.51
3655 3829 6.420903 GGGAAACAAAAATCTGTAGCTTCAAC 59.579 38.462 0.00 0.00 0.00 3.18
3722 3905 0.118144 AGGAAGAGGAGGAAGTGGCT 59.882 55.000 0.00 0.00 0.00 4.75
3788 3971 4.841422 AGGAAGACAATGATGAAGACCAG 58.159 43.478 0.00 0.00 0.00 4.00
3819 4005 4.892345 TCGATCTGACTGGAGAAGATGAAT 59.108 41.667 0.00 0.00 30.83 2.57
4122 4388 7.946219 TCTTTGATATCATGATATGGTTGGCTT 59.054 33.333 28.79 6.20 34.36 4.35
4143 4409 6.154445 GCTTGTTGCATAATTCTATGATGGG 58.846 40.000 0.00 0.00 42.31 4.00
4156 4440 2.166821 TGATGGGTTTGTTTGCATGC 57.833 45.000 11.82 11.82 0.00 4.06
4171 4515 6.652900 TGTTTGCATGCTTACTACTTACATGA 59.347 34.615 20.33 0.00 40.39 3.07
4267 4662 5.007682 AGTGGTTTTACAAATCCGCTATGT 58.992 37.500 13.63 0.00 43.28 2.29
4293 4690 0.473755 AGCATCCGCAATATCACCCA 59.526 50.000 0.00 0.00 42.27 4.51
4343 4740 1.251527 CCGCTATCACCCCGCTATCT 61.252 60.000 0.00 0.00 0.00 1.98
4380 4777 2.844348 GGTCCCAAGTGAGGAAAGGATA 59.156 50.000 0.00 0.00 34.43 2.59
4510 5020 6.408662 GGGACAATGCTACTATCTCTTTTCCT 60.409 42.308 0.00 0.00 0.00 3.36
4577 5087 8.450578 AATCTCTTGTGTTGTCACTTTCATAA 57.549 30.769 0.00 0.00 44.14 1.90
4583 5095 6.954944 TGTGTTGTCACTTTCATAAACTAGC 58.045 36.000 0.00 0.00 44.14 3.42
4605 5117 7.039313 AGCGGGAATTTTTCATTATAGAACC 57.961 36.000 0.00 0.00 0.00 3.62
4671 5183 0.249280 TTCGTGAGCAAGCGAGTTGA 60.249 50.000 2.35 0.00 38.60 3.18
4767 5279 8.588472 CAATCCCTACTCACTCACATTGATATA 58.412 37.037 0.00 0.00 0.00 0.86
4979 5511 0.465460 CGGGGTTGTACATGATGGGG 60.465 60.000 0.00 0.00 0.00 4.96
5026 5559 8.482852 AAGCATGGCCTAACTATATGATTTTT 57.517 30.769 3.32 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.021544 TGTGTGAAAATTATGAAGGTGGCC 60.022 41.667 0.00 0.00 0.00 5.36
1 2 5.132897 TGTGTGAAAATTATGAAGGTGGC 57.867 39.130 0.00 0.00 0.00 5.01
3 4 7.326789 GTGACATGTGTGAAAATTATGAAGGTG 59.673 37.037 1.15 0.00 0.00 4.00
5 6 7.596494 AGTGACATGTGTGAAAATTATGAAGG 58.404 34.615 1.15 0.00 0.00 3.46
6 7 8.509690 AGAGTGACATGTGTGAAAATTATGAAG 58.490 33.333 1.15 0.00 0.00 3.02
9 10 8.291740 TCAAGAGTGACATGTGTGAAAATTATG 58.708 33.333 1.15 0.00 0.00 1.90
10 11 8.394971 TCAAGAGTGACATGTGTGAAAATTAT 57.605 30.769 1.15 0.00 0.00 1.28
13 14 6.889301 ATCAAGAGTGACATGTGTGAAAAT 57.111 33.333 1.15 0.00 36.31 1.82
14 15 6.318396 TGAATCAAGAGTGACATGTGTGAAAA 59.682 34.615 1.15 0.00 36.31 2.29
15 16 5.821995 TGAATCAAGAGTGACATGTGTGAAA 59.178 36.000 1.15 0.00 36.31 2.69
16 17 5.367302 TGAATCAAGAGTGACATGTGTGAA 58.633 37.500 1.15 0.00 36.31 3.18
17 18 4.959723 TGAATCAAGAGTGACATGTGTGA 58.040 39.130 1.15 0.00 36.31 3.58
18 19 5.874895 ATGAATCAAGAGTGACATGTGTG 57.125 39.130 1.15 0.00 36.31 3.82
19 20 5.335426 GCAATGAATCAAGAGTGACATGTGT 60.335 40.000 1.15 0.00 36.31 3.72
20 21 5.093457 GCAATGAATCAAGAGTGACATGTG 58.907 41.667 1.15 0.00 36.31 3.21
21 22 4.763279 TGCAATGAATCAAGAGTGACATGT 59.237 37.500 0.00 0.00 36.31 3.21
22 23 5.305139 TGCAATGAATCAAGAGTGACATG 57.695 39.130 0.00 0.00 36.31 3.21
23 24 7.040617 GGATATGCAATGAATCAAGAGTGACAT 60.041 37.037 0.00 0.00 36.31 3.06
24 25 6.261603 GGATATGCAATGAATCAAGAGTGACA 59.738 38.462 0.00 0.00 36.31 3.58
25 26 6.293845 GGGATATGCAATGAATCAAGAGTGAC 60.294 42.308 0.00 0.00 36.31 3.67
26 27 5.766670 GGGATATGCAATGAATCAAGAGTGA 59.233 40.000 0.00 0.00 38.41 3.41
27 28 5.334646 CGGGATATGCAATGAATCAAGAGTG 60.335 44.000 0.00 0.00 0.00 3.51
28 29 4.758674 CGGGATATGCAATGAATCAAGAGT 59.241 41.667 0.00 0.00 0.00 3.24
29 30 4.155462 CCGGGATATGCAATGAATCAAGAG 59.845 45.833 0.00 0.00 0.00 2.85
30 31 4.074259 CCGGGATATGCAATGAATCAAGA 58.926 43.478 0.00 0.00 0.00 3.02
31 32 3.822735 ACCGGGATATGCAATGAATCAAG 59.177 43.478 6.32 0.00 0.00 3.02
32 33 3.831323 ACCGGGATATGCAATGAATCAA 58.169 40.909 6.32 0.00 0.00 2.57
33 34 3.507162 ACCGGGATATGCAATGAATCA 57.493 42.857 6.32 0.00 0.00 2.57
34 35 4.154195 GTGTACCGGGATATGCAATGAATC 59.846 45.833 6.32 0.00 0.00 2.52
35 36 4.072131 GTGTACCGGGATATGCAATGAAT 58.928 43.478 6.32 0.00 0.00 2.57
36 37 3.472652 GTGTACCGGGATATGCAATGAA 58.527 45.455 6.32 0.00 0.00 2.57
37 38 2.224426 GGTGTACCGGGATATGCAATGA 60.224 50.000 6.32 0.00 0.00 2.57
38 39 2.151202 GGTGTACCGGGATATGCAATG 58.849 52.381 6.32 0.00 0.00 2.82
39 40 2.561478 GGTGTACCGGGATATGCAAT 57.439 50.000 6.32 0.00 0.00 3.56
60 61 3.511540 TGACTCTATATGAATGCCTCCGG 59.488 47.826 0.00 0.00 0.00 5.14
61 62 4.790765 TGACTCTATATGAATGCCTCCG 57.209 45.455 0.00 0.00 0.00 4.63
62 63 7.416964 AGTATGACTCTATATGAATGCCTCC 57.583 40.000 0.00 0.00 0.00 4.30
63 64 9.149225 CAAAGTATGACTCTATATGAATGCCTC 57.851 37.037 0.00 0.00 0.00 4.70
64 65 8.654997 ACAAAGTATGACTCTATATGAATGCCT 58.345 33.333 0.00 0.00 0.00 4.75
65 66 8.839310 ACAAAGTATGACTCTATATGAATGCC 57.161 34.615 0.00 0.00 0.00 4.40
75 76 9.692749 CAACACTTAGAACAAAGTATGACTCTA 57.307 33.333 0.00 0.00 37.61 2.43
76 77 8.421784 TCAACACTTAGAACAAAGTATGACTCT 58.578 33.333 0.00 0.00 37.61 3.24
77 78 8.589335 TCAACACTTAGAACAAAGTATGACTC 57.411 34.615 0.00 0.00 37.61 3.36
78 79 8.204836 ACTCAACACTTAGAACAAAGTATGACT 58.795 33.333 0.00 0.00 37.61 3.41
79 80 8.366671 ACTCAACACTTAGAACAAAGTATGAC 57.633 34.615 0.00 0.00 37.61 3.06
80 81 8.826710 CAACTCAACACTTAGAACAAAGTATGA 58.173 33.333 0.00 0.00 37.61 2.15
81 82 8.612619 ACAACTCAACACTTAGAACAAAGTATG 58.387 33.333 0.00 0.00 37.61 2.39
82 83 8.732746 ACAACTCAACACTTAGAACAAAGTAT 57.267 30.769 0.00 0.00 37.61 2.12
83 84 9.656040 TTACAACTCAACACTTAGAACAAAGTA 57.344 29.630 0.00 0.00 37.61 2.24
84 85 8.556213 TTACAACTCAACACTTAGAACAAAGT 57.444 30.769 0.00 0.00 40.33 2.66
86 87 9.997482 GAATTACAACTCAACACTTAGAACAAA 57.003 29.630 0.00 0.00 0.00 2.83
87 88 9.391006 AGAATTACAACTCAACACTTAGAACAA 57.609 29.630 0.00 0.00 0.00 2.83
88 89 8.958119 AGAATTACAACTCAACACTTAGAACA 57.042 30.769 0.00 0.00 0.00 3.18
89 90 8.215132 CGAGAATTACAACTCAACACTTAGAAC 58.785 37.037 0.00 0.00 33.86 3.01
90 91 8.139350 TCGAGAATTACAACTCAACACTTAGAA 58.861 33.333 0.00 0.00 33.86 2.10
91 92 7.654568 TCGAGAATTACAACTCAACACTTAGA 58.345 34.615 0.00 0.00 33.86 2.10
92 93 7.595502 ACTCGAGAATTACAACTCAACACTTAG 59.404 37.037 21.68 0.00 33.86 2.18
93 94 7.431249 ACTCGAGAATTACAACTCAACACTTA 58.569 34.615 21.68 0.00 33.86 2.24
94 95 6.281405 ACTCGAGAATTACAACTCAACACTT 58.719 36.000 21.68 0.00 33.86 3.16
95 96 5.844004 ACTCGAGAATTACAACTCAACACT 58.156 37.500 21.68 0.00 33.86 3.55
96 97 6.018994 ACAACTCGAGAATTACAACTCAACAC 60.019 38.462 21.68 0.00 33.86 3.32
97 98 6.046593 ACAACTCGAGAATTACAACTCAACA 58.953 36.000 21.68 0.00 33.86 3.33
98 99 6.526566 ACAACTCGAGAATTACAACTCAAC 57.473 37.500 21.68 0.00 33.86 3.18
99 100 8.651391 TTTACAACTCGAGAATTACAACTCAA 57.349 30.769 21.68 0.00 33.86 3.02
100 101 8.827177 ATTTACAACTCGAGAATTACAACTCA 57.173 30.769 21.68 0.00 33.86 3.41
132 133 9.270640 GCTCTAATAATGAAGATCATCACACTT 57.729 33.333 2.13 0.00 35.76 3.16
133 134 8.427276 TGCTCTAATAATGAAGATCATCACACT 58.573 33.333 2.13 0.00 35.76 3.55
134 135 8.599055 TGCTCTAATAATGAAGATCATCACAC 57.401 34.615 2.13 0.00 35.76 3.82
135 136 9.788889 AATGCTCTAATAATGAAGATCATCACA 57.211 29.630 2.13 0.00 35.76 3.58
137 138 9.788889 ACAATGCTCTAATAATGAAGATCATCA 57.211 29.630 2.64 2.64 35.76 3.07
139 140 9.228949 GGACAATGCTCTAATAATGAAGATCAT 57.771 33.333 0.00 0.00 39.09 2.45
140 141 7.663081 GGGACAATGCTCTAATAATGAAGATCA 59.337 37.037 0.00 0.00 0.00 2.92
141 142 7.663081 TGGGACAATGCTCTAATAATGAAGATC 59.337 37.037 0.00 0.00 31.92 2.75
142 143 7.520798 TGGGACAATGCTCTAATAATGAAGAT 58.479 34.615 0.00 0.00 31.92 2.40
143 144 6.899089 TGGGACAATGCTCTAATAATGAAGA 58.101 36.000 0.00 0.00 31.92 2.87
159 160 8.862084 GCAATTTAAAACCTTGCTTGGGACAAT 61.862 37.037 14.79 0.00 41.52 2.71
160 161 7.624682 GCAATTTAAAACCTTGCTTGGGACAA 61.625 38.462 14.79 0.00 41.52 3.18
161 162 5.363939 CAATTTAAAACCTTGCTTGGGACA 58.636 37.500 0.00 0.00 0.00 4.02
162 163 4.213270 GCAATTTAAAACCTTGCTTGGGAC 59.787 41.667 14.79 0.00 41.52 4.46
163 164 4.384940 GCAATTTAAAACCTTGCTTGGGA 58.615 39.130 14.79 0.00 41.52 4.37
164 165 3.186205 CGCAATTTAAAACCTTGCTTGGG 59.814 43.478 18.11 9.62 42.34 4.12
165 166 3.186205 CCGCAATTTAAAACCTTGCTTGG 59.814 43.478 18.11 11.60 42.34 3.61
166 167 3.186205 CCCGCAATTTAAAACCTTGCTTG 59.814 43.478 18.11 11.39 42.34 4.01
167 168 3.398406 CCCGCAATTTAAAACCTTGCTT 58.602 40.909 18.11 0.00 42.34 3.91
168 169 2.870035 GCCCGCAATTTAAAACCTTGCT 60.870 45.455 18.11 0.00 42.34 3.91
183 184 2.376228 TAGCATTCATAGCGCCCGCA 62.376 55.000 15.50 1.53 44.88 5.69
224 225 1.346395 ACTTGTAGCGGATTGGACACA 59.654 47.619 0.00 0.00 0.00 3.72
231 232 3.034721 TCGTTTGACTTGTAGCGGATT 57.965 42.857 0.00 0.00 0.00 3.01
287 288 1.242989 CTCTGATAGCCGCTAGAGCA 58.757 55.000 6.23 3.65 42.21 4.26
394 396 4.352893 AGTGTGTTGATTTAGGGTTAGGGT 59.647 41.667 0.00 0.00 0.00 4.34
456 477 4.748144 GGGGAGCAGGGCTTGTGG 62.748 72.222 0.00 0.00 39.88 4.17
546 567 1.348036 CTCAACGAAAGGGAAGGGAGT 59.652 52.381 0.00 0.00 0.00 3.85
557 578 3.353836 GCTGCGGCCTCAACGAAA 61.354 61.111 6.12 0.00 0.00 3.46
623 653 1.384502 TCGGAGATGGCCCCTCATT 60.385 57.895 19.89 0.00 32.48 2.57
625 655 2.764128 GTCGGAGATGGCCCCTCA 60.764 66.667 19.89 2.33 40.67 3.86
776 822 0.540923 GACAGAGCAGGAAGGAGCAT 59.459 55.000 0.00 0.00 0.00 3.79
801 856 3.808656 GCCGGAGCAGAGCAAAGC 61.809 66.667 5.05 0.00 39.53 3.51
830 928 1.486211 GAGACCTTCCCGATTGGAGA 58.514 55.000 0.00 0.00 46.24 3.71
842 940 2.342648 GAACCGTGGCGAGACCTT 59.657 61.111 0.00 0.00 40.22 3.50
845 943 2.737376 GGTGAACCGTGGCGAGAC 60.737 66.667 0.00 0.00 0.00 3.36
850 948 1.098712 TTGAAGTGGTGAACCGTGGC 61.099 55.000 0.00 0.00 39.43 5.01
893 991 7.916977 GCATCAATCTGTGTATATGAAAAGCAA 59.083 33.333 0.00 0.00 0.00 3.91
914 1012 8.706322 TCATCTAGGTACTAAACTATGCATCA 57.294 34.615 0.19 0.00 42.17 3.07
1206 1334 2.861462 TTACAAACCTGTGCAAGTGC 57.139 45.000 0.00 0.00 36.96 4.40
1243 1371 6.403866 AATTTGACTGAATTACCAGTGCAA 57.596 33.333 4.62 6.38 46.45 4.08
1271 1431 5.167845 GCAGGAAAACAAAGAAACACAAGA 58.832 37.500 0.00 0.00 0.00 3.02
1275 1435 4.494484 ACTGCAGGAAAACAAAGAAACAC 58.506 39.130 19.93 0.00 0.00 3.32
1285 1445 2.230660 AGCCTACAACTGCAGGAAAAC 58.769 47.619 19.93 0.92 33.42 2.43
1519 1681 1.298859 GGAACCTGCGTGCAAGGTAG 61.299 60.000 8.99 3.27 34.39 3.18
1687 1849 3.141398 CACTTGCTGCAGGAGAAAACTA 58.859 45.455 19.16 0.00 0.00 2.24
1769 1931 0.555769 TTGTTTCCCTGTTCCTGGCT 59.444 50.000 0.00 0.00 0.00 4.75
1898 2060 2.094545 GCTTCCACCATTCGAGCAAATT 60.095 45.455 0.00 0.00 33.68 1.82
2084 2246 5.960202 ACCAAATTCATTAAGCTCCTTCCAT 59.040 36.000 0.00 0.00 0.00 3.41
2128 2290 0.038166 ATGGCACGGAGGAAACACAT 59.962 50.000 0.00 0.00 0.00 3.21
2206 2368 8.593492 ATCTTTTCAGCACCAATTTTAGAAAC 57.407 30.769 0.00 0.00 0.00 2.78
2842 3012 0.318022 TGTGCAGCGCTGTTTTCATG 60.318 50.000 35.80 11.97 0.00 3.07
2948 3119 8.785101 GTTATTTTTGTACATAACAGATGCACG 58.215 33.333 10.75 0.00 39.87 5.34
3017 3188 8.897752 AGTTCCAAATGAATCTATGTCTTTAGC 58.102 33.333 0.00 0.00 34.90 3.09
3024 3195 7.067859 CCATGTCAGTTCCAAATGAATCTATGT 59.932 37.037 0.00 0.00 34.53 2.29
3052 3223 9.938280 ATAGTTGCTACTTTGTGTTGTCTAATA 57.062 29.630 6.03 0.00 35.78 0.98
3160 3333 0.854705 CTTTCCGCAAACAAGCAAGC 59.145 50.000 0.00 0.00 0.00 4.01
3174 3348 1.017387 GCACGATCCACCATCTTTCC 58.983 55.000 0.00 0.00 0.00 3.13
3188 3362 0.250252 TGCAGAAGTTCCATGCACGA 60.250 50.000 14.03 0.00 44.56 4.35
3231 3405 8.910351 AACTACAAGTTAAGCTCAAGATTCTT 57.090 30.769 0.00 0.00 36.52 2.52
3287 3461 4.080015 TGGGGATGTTATTACCCTCACAAG 60.080 45.833 0.00 0.00 43.72 3.16
3291 3465 5.742562 AATTGGGGATGTTATTACCCTCA 57.257 39.130 0.00 0.00 43.72 3.86
3352 3526 9.590451 CCATTTAGTAATTCACAAGATGCAAAT 57.410 29.630 0.00 0.00 0.00 2.32
3655 3829 5.061920 ACGAGCTCTTTTACCTCTAGTTG 57.938 43.478 12.85 0.00 0.00 3.16
3722 3905 5.336945 TCTTCTTCCATCTCCTCTTCTTCA 58.663 41.667 0.00 0.00 0.00 3.02
3788 3971 2.755655 TCCAGTCAGATCGAAGACTTCC 59.244 50.000 13.73 0.00 42.87 3.46
3819 4005 3.008923 TGCACAAGTCATTCACCATCCTA 59.991 43.478 0.00 0.00 0.00 2.94
4122 4388 7.123997 ACAAACCCATCATAGAATTATGCAACA 59.876 33.333 0.00 0.00 37.23 3.33
4143 4409 7.136119 TGTAAGTAGTAAGCATGCAAACAAAC 58.864 34.615 21.98 17.24 0.00 2.93
4267 4662 3.007831 TGATATTGCGGATGCTATGTCCA 59.992 43.478 6.14 0.00 41.36 4.02
4277 4674 3.055094 GGATAGTGGGTGATATTGCGGAT 60.055 47.826 0.00 0.00 0.00 4.18
4293 4690 2.165845 GGCATAGCGGAATACGGATAGT 59.834 50.000 0.00 0.00 44.51 2.12
4343 4740 6.667414 ACTTGGGACCATGATTTTAAATAGCA 59.333 34.615 10.79 0.00 0.00 3.49
4380 4777 4.478317 TGTGGGGGAATCATAGTCTTCATT 59.522 41.667 0.00 0.00 0.00 2.57
4480 4988 6.615617 AGAGATAGTAGCATTGTCCCTTCTA 58.384 40.000 0.00 0.00 0.00 2.10
4577 5087 8.974060 TCTATAATGAAAAATTCCCGCTAGTT 57.026 30.769 0.00 0.00 0.00 2.24
4583 5095 7.425606 CCAGGTTCTATAATGAAAAATTCCCG 58.574 38.462 0.00 0.00 0.00 5.14
4605 5117 5.184479 CCCATCATTGGAATATACAAGCCAG 59.816 44.000 0.00 0.00 46.92 4.85
4671 5183 3.832527 AGAAACTAAGTGGGTGTGCATT 58.167 40.909 0.00 0.00 0.00 3.56
4767 5279 4.386088 GGCTATGGAGATGCCCATCAATAT 60.386 45.833 10.58 4.38 43.07 1.28
4979 5511 9.202273 TGCTTCATTTTCATTACACAAAATACC 57.798 29.630 0.00 0.00 32.18 2.73
5026 5559 5.580022 AGCCAAAGAAAGCTTATCCCTAAA 58.420 37.500 0.00 0.00 35.22 1.85
5027 5560 5.193099 AGCCAAAGAAAGCTTATCCCTAA 57.807 39.130 0.00 0.00 35.22 2.69
5178 5721 8.710239 TGTGGAATGCTACCTAACATAATTCTA 58.290 33.333 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.