Multiple sequence alignment - TraesCS1D01G268400

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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 TraesCS1D01G268400 chr1D 100.000 3787 0 0 1 3787 363860196 363863982 0.000000e+00 6994.0
1 TraesCS1D01G268400 chr1D 84.017 463 64 5 179 632 417993011 417992550 1.620000e-118 436.0
2 TraesCS1D01G268400 chr1B 96.444 2278 62 8 969 3243 487405587 487407848 0.000000e+00 3740.0
3 TraesCS1D01G268400 chr1B 94.747 533 10 5 3270 3787 487407837 487408366 0.000000e+00 813.0
4 TraesCS1D01G268400 chr1B 81.063 602 75 14 178 775 487211777 487212343 9.650000e-121 444.0
5 TraesCS1D01G268400 chr1B 94.886 176 7 2 1 174 487172723 487172898 1.340000e-69 274.0
6 TraesCS1D01G268400 chr1A 95.352 2130 88 5 969 3089 463218597 463220724 0.000000e+00 3374.0
7 TraesCS1D01G268400 chr1A 93.996 533 14 4 3270 3787 463220812 463221341 0.000000e+00 791.0
8 TraesCS1D01G268400 chr1A 83.827 371 39 14 501 868 463218114 463218466 2.180000e-87 333.0
9 TraesCS1D01G268400 chr1A 93.678 174 11 0 1 174 463196730 463196903 1.040000e-65 261.0
10 TraesCS1D01G268400 chr4B 85.259 2320 261 37 969 3244 139572173 139569891 0.000000e+00 2314.0
11 TraesCS1D01G268400 chr4B 84.255 2242 268 47 969 3157 139549218 139547009 0.000000e+00 2106.0
12 TraesCS1D01G268400 chr4B 82.497 937 136 14 1387 2319 460156617 460155705 0.000000e+00 797.0
13 TraesCS1D01G268400 chr4B 76.614 1317 223 45 1387 2688 535331502 535330256 0.000000e+00 647.0
14 TraesCS1D01G268400 chr4B 88.571 175 14 5 1 174 95823466 95823297 1.380000e-49 207.0
15 TraesCS1D01G268400 chr4B 93.056 72 4 1 81 151 53555301 53555372 1.860000e-18 104.0
16 TraesCS1D01G268400 chr4D 84.787 2156 266 38 972 3097 97962435 97960312 0.000000e+00 2108.0
17 TraesCS1D01G268400 chr4D 86.244 1970 222 16 969 2935 97970212 97968289 0.000000e+00 2091.0
18 TraesCS1D01G268400 chr4D 78.706 1437 238 43 1387 2793 98015418 98014020 0.000000e+00 896.0
19 TraesCS1D01G268400 chr4D 76.946 1323 210 50 1387 2688 435198755 435197507 0.000000e+00 665.0
20 TraesCS1D01G268400 chr4D 81.716 536 75 17 179 706 504565273 504565793 3.500000e-115 425.0
21 TraesCS1D01G268400 chr4D 86.550 171 21 2 1387 1556 374049213 374049044 1.800000e-43 187.0
22 TraesCS1D01G268400 chr4A 86.136 1320 145 17 969 2270 478209558 478210857 0.000000e+00 1389.0
23 TraesCS1D01G268400 chr4A 78.765 1441 239 43 1387 2793 478191411 478192818 0.000000e+00 904.0
24 TraesCS1D01G268400 chr4A 80.607 923 136 23 2266 3157 478216299 478217209 0.000000e+00 673.0
25 TraesCS1D01G268400 chr4A 76.346 1319 228 46 1387 2688 36607780 36606529 6.900000e-177 630.0
26 TraesCS1D01G268400 chr3A 78.047 1362 211 44 972 2306 149717056 149715756 0.000000e+00 778.0
27 TraesCS1D01G268400 chr3D 76.447 1244 217 44 1387 2606 534115810 534117001 4.180000e-169 604.0
28 TraesCS1D01G268400 chr3D 76.250 160 26 8 591 748 7420602 7420751 1.460000e-09 75.0
29 TraesCS1D01G268400 chr6D 85.243 576 77 5 179 748 312920313 312919740 1.520000e-163 586.0
30 TraesCS1D01G268400 chr6D 83.023 483 62 12 969 1450 61002912 61003375 1.630000e-113 420.0
31 TraesCS1D01G268400 chr7A 85.152 559 75 7 179 731 732728556 732728000 1.970000e-157 566.0
32 TraesCS1D01G268400 chr2B 84.512 523 65 12 179 692 777662705 777663220 1.570000e-138 503.0
33 TraesCS1D01G268400 chr2B 86.957 69 3 1 6 74 720809480 720809418 5.250000e-09 73.1
34 TraesCS1D01G268400 chr3B 77.243 914 162 26 1711 2599 706185586 706186478 9.450000e-136 494.0
35 TraesCS1D01G268400 chr3B 73.846 390 87 13 1176 1554 744599066 744598681 1.420000e-29 141.0
36 TraesCS1D01G268400 chr2D 84.047 514 65 11 198 699 634661201 634661709 2.650000e-131 479.0
37 TraesCS1D01G268400 chr2D 81.250 176 24 8 1 172 391868833 391868663 2.370000e-27 134.0
38 TraesCS1D01G268400 chr2D 91.667 72 5 1 81 152 73138458 73138388 8.660000e-17 99.0
39 TraesCS1D01G268400 chr7D 83.554 529 65 12 180 703 269695628 269695117 3.420000e-130 475.0
40 TraesCS1D01G268400 chr7D 84.091 176 12 5 1 174 49806128 49806289 5.060000e-34 156.0
41 TraesCS1D01G268400 chr7D 85.714 154 9 4 16 169 481595983 481596123 2.360000e-32 150.0
42 TraesCS1D01G268400 chr2A 82.463 536 82 9 180 706 778751410 778750878 3.450000e-125 459.0
43 TraesCS1D01G268400 chr2A 82.903 503 68 12 164 653 46321182 46320685 1.620000e-118 436.0
44 TraesCS1D01G268400 chr2A 81.818 176 23 8 1 172 528936562 528936392 5.100000e-29 139.0
45 TraesCS1D01G268400 chr6B 82.979 94 14 2 652 743 675780948 675781041 2.420000e-12 84.2
46 TraesCS1D01G268400 chr5A 90.625 64 5 1 670 732 558340378 558340315 2.420000e-12 84.2
47 TraesCS1D01G268400 chr5D 82.796 93 14 2 657 748 447976133 447976224 8.720000e-12 82.4
48 TraesCS1D01G268400 chr5D 87.097 62 8 0 638 699 408249789 408249850 1.890000e-08 71.3


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 TraesCS1D01G268400 chr1D 363860196 363863982 3786 False 6994.000000 6994 100.000000 1 3787 1 chr1D.!!$F1 3786
1 TraesCS1D01G268400 chr1B 487405587 487408366 2779 False 2276.500000 3740 95.595500 969 3787 2 chr1B.!!$F3 2818
2 TraesCS1D01G268400 chr1B 487211777 487212343 566 False 444.000000 444 81.063000 178 775 1 chr1B.!!$F2 597
3 TraesCS1D01G268400 chr1A 463218114 463221341 3227 False 1499.333333 3374 91.058333 501 3787 3 chr1A.!!$F2 3286
4 TraesCS1D01G268400 chr4B 139569891 139572173 2282 True 2314.000000 2314 85.259000 969 3244 1 chr4B.!!$R3 2275
5 TraesCS1D01G268400 chr4B 139547009 139549218 2209 True 2106.000000 2106 84.255000 969 3157 1 chr4B.!!$R2 2188
6 TraesCS1D01G268400 chr4B 460155705 460156617 912 True 797.000000 797 82.497000 1387 2319 1 chr4B.!!$R4 932
7 TraesCS1D01G268400 chr4B 535330256 535331502 1246 True 647.000000 647 76.614000 1387 2688 1 chr4B.!!$R5 1301
8 TraesCS1D01G268400 chr4D 97960312 97962435 2123 True 2108.000000 2108 84.787000 972 3097 1 chr4D.!!$R1 2125
9 TraesCS1D01G268400 chr4D 97968289 97970212 1923 True 2091.000000 2091 86.244000 969 2935 1 chr4D.!!$R2 1966
10 TraesCS1D01G268400 chr4D 98014020 98015418 1398 True 896.000000 896 78.706000 1387 2793 1 chr4D.!!$R3 1406
11 TraesCS1D01G268400 chr4D 435197507 435198755 1248 True 665.000000 665 76.946000 1387 2688 1 chr4D.!!$R5 1301
12 TraesCS1D01G268400 chr4D 504565273 504565793 520 False 425.000000 425 81.716000 179 706 1 chr4D.!!$F1 527
13 TraesCS1D01G268400 chr4A 478209558 478210857 1299 False 1389.000000 1389 86.136000 969 2270 1 chr4A.!!$F2 1301
14 TraesCS1D01G268400 chr4A 478191411 478192818 1407 False 904.000000 904 78.765000 1387 2793 1 chr4A.!!$F1 1406
15 TraesCS1D01G268400 chr4A 478216299 478217209 910 False 673.000000 673 80.607000 2266 3157 1 chr4A.!!$F3 891
16 TraesCS1D01G268400 chr4A 36606529 36607780 1251 True 630.000000 630 76.346000 1387 2688 1 chr4A.!!$R1 1301
17 TraesCS1D01G268400 chr3A 149715756 149717056 1300 True 778.000000 778 78.047000 972 2306 1 chr3A.!!$R1 1334
18 TraesCS1D01G268400 chr3D 534115810 534117001 1191 False 604.000000 604 76.447000 1387 2606 1 chr3D.!!$F2 1219
19 TraesCS1D01G268400 chr6D 312919740 312920313 573 True 586.000000 586 85.243000 179 748 1 chr6D.!!$R1 569
20 TraesCS1D01G268400 chr7A 732728000 732728556 556 True 566.000000 566 85.152000 179 731 1 chr7A.!!$R1 552
21 TraesCS1D01G268400 chr2B 777662705 777663220 515 False 503.000000 503 84.512000 179 692 1 chr2B.!!$F1 513
22 TraesCS1D01G268400 chr3B 706185586 706186478 892 False 494.000000 494 77.243000 1711 2599 1 chr3B.!!$F1 888
23 TraesCS1D01G268400 chr2D 634661201 634661709 508 False 479.000000 479 84.047000 198 699 1 chr2D.!!$F1 501
24 TraesCS1D01G268400 chr7D 269695117 269695628 511 True 475.000000 475 83.554000 180 703 1 chr7D.!!$R1 523
25 TraesCS1D01G268400 chr2A 778750878 778751410 532 True 459.000000 459 82.463000 180 706 1 chr2A.!!$R3 526

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
871 917 0.188342 ACATTTGGGCCTGTTCCACT 59.812 50.0 4.53 0.00 33.43 4.00 F
1641 1768 0.040646 TCTACCTCGGCCTCTGGAAA 59.959 55.0 11.70 0.53 0.00 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2581 2794 3.160585 CCTCCTCCAGCACCAACA 58.839 61.111 0.0 0.0 0.0 3.33 R
3370 3655 2.290464 CCCACGTTGTTCAAGTTACCA 58.710 47.619 0.0 0.0 0.0 3.25 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 8.738199 TGTTTTATGTAGTTCAAGTAGACTCG 57.262 34.615 0.00 0.00 0.00 4.18
30 31 7.811236 TGTTTTATGTAGTTCAAGTAGACTCGG 59.189 37.037 0.00 0.00 0.00 4.63
31 32 7.692460 TTTATGTAGTTCAAGTAGACTCGGA 57.308 36.000 0.00 0.00 0.00 4.55
32 33 5.821516 ATGTAGTTCAAGTAGACTCGGAG 57.178 43.478 2.83 2.83 0.00 4.63
33 34 4.008330 TGTAGTTCAAGTAGACTCGGAGG 58.992 47.826 10.23 0.00 0.00 4.30
34 35 3.436577 AGTTCAAGTAGACTCGGAGGA 57.563 47.619 10.23 0.00 0.00 3.71
35 36 3.349022 AGTTCAAGTAGACTCGGAGGAG 58.651 50.000 10.23 0.00 46.13 3.69
47 48 3.354467 CTCGGAGGAGTAGTAGTTTGGT 58.646 50.000 0.00 0.00 35.48 3.67
48 49 3.087031 TCGGAGGAGTAGTAGTTTGGTG 58.913 50.000 0.00 0.00 0.00 4.17
49 50 2.824341 CGGAGGAGTAGTAGTTTGGTGT 59.176 50.000 0.00 0.00 0.00 4.16
50 51 3.367087 CGGAGGAGTAGTAGTTTGGTGTG 60.367 52.174 0.00 0.00 0.00 3.82
51 52 3.830755 GGAGGAGTAGTAGTTTGGTGTGA 59.169 47.826 0.00 0.00 0.00 3.58
52 53 4.466726 GGAGGAGTAGTAGTTTGGTGTGAT 59.533 45.833 0.00 0.00 0.00 3.06
53 54 5.407407 AGGAGTAGTAGTTTGGTGTGATG 57.593 43.478 0.00 0.00 0.00 3.07
54 55 4.838986 AGGAGTAGTAGTTTGGTGTGATGT 59.161 41.667 0.00 0.00 0.00 3.06
55 56 6.014647 AGGAGTAGTAGTTTGGTGTGATGTA 58.985 40.000 0.00 0.00 0.00 2.29
56 57 6.153000 AGGAGTAGTAGTTTGGTGTGATGTAG 59.847 42.308 0.00 0.00 0.00 2.74
57 58 6.071503 GGAGTAGTAGTTTGGTGTGATGTAGT 60.072 42.308 0.00 0.00 0.00 2.73
58 59 7.121759 GGAGTAGTAGTTTGGTGTGATGTAGTA 59.878 40.741 0.00 0.00 0.00 1.82
59 60 8.053026 AGTAGTAGTTTGGTGTGATGTAGTAG 57.947 38.462 0.00 0.00 0.00 2.57
60 61 6.912951 AGTAGTTTGGTGTGATGTAGTAGT 57.087 37.500 0.00 0.00 0.00 2.73
61 62 7.299246 AGTAGTTTGGTGTGATGTAGTAGTT 57.701 36.000 0.00 0.00 0.00 2.24
62 63 7.732996 AGTAGTTTGGTGTGATGTAGTAGTTT 58.267 34.615 0.00 0.00 0.00 2.66
63 64 6.861065 AGTTTGGTGTGATGTAGTAGTTTG 57.139 37.500 0.00 0.00 0.00 2.93
64 65 6.588204 AGTTTGGTGTGATGTAGTAGTTTGA 58.412 36.000 0.00 0.00 0.00 2.69
65 66 7.051623 AGTTTGGTGTGATGTAGTAGTTTGAA 58.948 34.615 0.00 0.00 0.00 2.69
66 67 6.854496 TTGGTGTGATGTAGTAGTTTGAAC 57.146 37.500 0.00 0.00 0.00 3.18
67 68 6.169557 TGGTGTGATGTAGTAGTTTGAACT 57.830 37.500 1.60 1.60 42.91 3.01
68 69 7.292713 TGGTGTGATGTAGTAGTTTGAACTA 57.707 36.000 0.00 0.00 40.37 2.24
69 70 7.903145 TGGTGTGATGTAGTAGTTTGAACTAT 58.097 34.615 6.85 0.65 42.88 2.12
70 71 7.817478 TGGTGTGATGTAGTAGTTTGAACTATG 59.183 37.037 6.85 0.00 42.88 2.23
71 72 7.817962 GGTGTGATGTAGTAGTTTGAACTATGT 59.182 37.037 6.85 1.61 42.88 2.29
72 73 9.204570 GTGTGATGTAGTAGTTTGAACTATGTT 57.795 33.333 6.85 0.50 42.88 2.71
73 74 9.772973 TGTGATGTAGTAGTTTGAACTATGTTT 57.227 29.630 6.85 0.00 42.88 2.83
101 102 9.593134 TTGTTTGTTTTATGAACTATGTTTGCT 57.407 25.926 0.00 0.00 0.00 3.91
102 103 9.593134 TGTTTGTTTTATGAACTATGTTTGCTT 57.407 25.926 0.00 0.00 0.00 3.91
104 105 9.809096 TTTGTTTTATGAACTATGTTTGCTTCA 57.191 25.926 0.00 0.00 0.00 3.02
105 106 9.809096 TTGTTTTATGAACTATGTTTGCTTCAA 57.191 25.926 0.00 0.00 0.00 2.69
106 107 9.809096 TGTTTTATGAACTATGTTTGCTTCAAA 57.191 25.926 0.00 0.00 0.00 2.69
111 112 7.928908 TGAACTATGTTTGCTTCAAATGAAC 57.071 32.000 0.00 0.00 35.74 3.18
112 113 7.715657 TGAACTATGTTTGCTTCAAATGAACT 58.284 30.769 0.00 0.00 35.74 3.01
113 114 8.196771 TGAACTATGTTTGCTTCAAATGAACTT 58.803 29.630 0.00 0.00 35.74 2.66
114 115 7.935338 ACTATGTTTGCTTCAAATGAACTTG 57.065 32.000 0.00 0.00 35.74 3.16
115 116 7.715657 ACTATGTTTGCTTCAAATGAACTTGA 58.284 30.769 0.00 0.00 35.74 3.02
116 117 8.362639 ACTATGTTTGCTTCAAATGAACTTGAT 58.637 29.630 0.00 0.00 35.74 2.57
117 118 9.844790 CTATGTTTGCTTCAAATGAACTTGATA 57.155 29.630 0.00 0.00 35.74 2.15
119 120 8.523523 TGTTTGCTTCAAATGAACTTGATATG 57.476 30.769 0.00 0.00 35.74 1.78
120 121 8.143193 TGTTTGCTTCAAATGAACTTGATATGT 58.857 29.630 0.00 0.00 35.74 2.29
121 122 8.981647 GTTTGCTTCAAATGAACTTGATATGTT 58.018 29.630 0.00 0.00 35.74 2.71
122 123 9.545105 TTTGCTTCAAATGAACTTGATATGTTT 57.455 25.926 0.00 0.00 35.31 2.83
123 124 8.523523 TGCTTCAAATGAACTTGATATGTTTG 57.476 30.769 0.00 0.00 35.31 2.93
124 125 8.358895 TGCTTCAAATGAACTTGATATGTTTGA 58.641 29.630 0.00 0.00 35.31 2.69
125 126 9.195411 GCTTCAAATGAACTTGATATGTTTGAA 57.805 29.630 9.22 9.22 40.00 2.69
156 157 9.337396 TGTTTGAAATGATGTAGTAGTTCAACT 57.663 29.630 0.00 0.00 39.60 3.16
159 160 8.902540 TGAAATGATGTAGTAGTTCAACTTGT 57.097 30.769 0.00 0.00 29.25 3.16
160 161 9.337396 TGAAATGATGTAGTAGTTCAACTTGTT 57.663 29.630 0.00 0.00 29.25 2.83
165 166 9.602568 TGATGTAGTAGTTCAACTTGTTTTACA 57.397 29.630 0.00 0.00 0.00 2.41
168 169 9.602568 TGTAGTAGTTCAACTTGTTTTACATCA 57.397 29.630 0.00 0.00 0.00 3.07
171 172 9.561069 AGTAGTTCAACTTGTTTTACATCATCT 57.439 29.630 0.00 0.00 0.00 2.90
175 176 9.559958 GTTCAACTTGTTTTACATCATCTATGG 57.440 33.333 0.00 0.00 40.16 2.74
176 177 8.862325 TCAACTTGTTTTACATCATCTATGGT 57.138 30.769 0.00 0.00 40.16 3.55
222 223 2.363975 TGGTACGCCATCCAGACCC 61.364 63.158 0.00 0.00 40.46 4.46
296 297 1.167155 GCGCGACAGAGGAGGAGATA 61.167 60.000 12.10 0.00 0.00 1.98
329 331 4.604976 CTTCTTCTTGCTCAACTTGTTGG 58.395 43.478 12.75 5.83 0.00 3.77
344 350 5.547465 ACTTGTTGGTCGAATCATTCACTA 58.453 37.500 0.00 0.00 0.00 2.74
364 370 8.479313 TCACTAAATGTTGCTCTACACATTAG 57.521 34.615 12.56 12.56 37.10 1.73
448 456 2.373169 ACTGTTGGATGAAGCTGAAGGA 59.627 45.455 0.00 0.00 0.00 3.36
617 645 3.363426 CGCCGTGTTTACATGAATTTTGG 59.637 43.478 0.00 0.00 34.90 3.28
625 653 5.723672 TTACATGAATTTTGGCCGGTTAA 57.276 34.783 1.90 0.00 0.00 2.01
743 786 0.462581 GGGTCAGCATTCGAGATGCA 60.463 55.000 24.50 10.20 46.77 3.96
850 896 1.377333 GGGCCTTGAGAGGGTTTCG 60.377 63.158 0.84 0.00 43.75 3.46
868 914 1.595093 CGGACATTTGGGCCTGTTCC 61.595 60.000 4.53 2.63 0.00 3.62
869 915 0.541764 GGACATTTGGGCCTGTTCCA 60.542 55.000 4.53 0.00 0.00 3.53
870 916 0.603065 GACATTTGGGCCTGTTCCAC 59.397 55.000 4.53 0.00 33.43 4.02
871 917 0.188342 ACATTTGGGCCTGTTCCACT 59.812 50.000 4.53 0.00 33.43 4.00
873 919 1.693606 CATTTGGGCCTGTTCCACTTT 59.306 47.619 4.53 0.00 33.43 2.66
874 920 1.872773 TTTGGGCCTGTTCCACTTTT 58.127 45.000 4.53 0.00 33.43 2.27
875 921 1.408969 TTGGGCCTGTTCCACTTTTC 58.591 50.000 4.53 0.00 33.43 2.29
876 922 0.555769 TGGGCCTGTTCCACTTTTCT 59.444 50.000 4.53 0.00 0.00 2.52
877 923 1.063266 TGGGCCTGTTCCACTTTTCTT 60.063 47.619 4.53 0.00 0.00 2.52
878 924 2.039418 GGGCCTGTTCCACTTTTCTTT 58.961 47.619 0.84 0.00 0.00 2.52
880 926 2.430694 GGCCTGTTCCACTTTTCTTTGT 59.569 45.455 0.00 0.00 0.00 2.83
923 985 4.698201 CCCCCTTTTCTTTGCCTAAAAA 57.302 40.909 0.00 0.00 0.00 1.94
956 1018 1.671054 CTTTTCTTCCGCCGCTCCA 60.671 57.895 0.00 0.00 0.00 3.86
957 1019 1.912371 CTTTTCTTCCGCCGCTCCAC 61.912 60.000 0.00 0.00 0.00 4.02
958 1020 2.391724 TTTTCTTCCGCCGCTCCACT 62.392 55.000 0.00 0.00 0.00 4.00
959 1021 2.781595 TTTCTTCCGCCGCTCCACTC 62.782 60.000 0.00 0.00 0.00 3.51
965 1027 3.695606 GCCGCTCCACTCCACAGA 61.696 66.667 0.00 0.00 0.00 3.41
966 1028 3.059982 CCGCTCCACTCCACAGAA 58.940 61.111 0.00 0.00 0.00 3.02
1341 1435 0.748367 TCGACTCTCACATCCTCCCG 60.748 60.000 0.00 0.00 0.00 5.14
1343 1437 0.395862 GACTCTCACATCCTCCCGGA 60.396 60.000 0.73 0.00 45.16 5.14
1471 1595 2.568956 AGCTGCTACATGGAAGAGTTCA 59.431 45.455 0.00 0.00 0.00 3.18
1568 1695 4.087892 GCTCGGCTGCCTTCTCCA 62.088 66.667 17.92 0.00 0.00 3.86
1641 1768 0.040646 TCTACCTCGGCCTCTGGAAA 59.959 55.000 11.70 0.53 0.00 3.13
1657 1784 3.198953 AAATTCCCCGACACGGCCA 62.199 57.895 2.24 0.00 46.86 5.36
1879 2011 0.605319 GGAAATCGCTGTGGTGGACA 60.605 55.000 0.00 0.00 0.00 4.02
1974 2119 2.085343 ATGCCCCCAAGTTGCACTCT 62.085 55.000 0.00 0.00 37.92 3.24
1983 2128 4.019174 CCAAGTTGCACTCTTTGGGATAT 58.981 43.478 0.00 0.00 0.00 1.63
2324 2522 1.207570 TGGCATTCATTTGCACCATCC 59.792 47.619 0.00 0.00 44.59 3.51
2359 2571 5.107607 GCATATTATTGTCAATTGCTGCTGC 60.108 40.000 8.89 8.89 40.20 5.25
2496 2709 6.006275 AGTCTGGTACCATAAAATGCATCT 57.994 37.500 16.75 0.00 0.00 2.90
2581 2794 8.575649 TTCCTCAAGTTTTTCTTTAAGAGTGT 57.424 30.769 0.00 0.00 33.63 3.55
2965 3199 5.396484 CGTCTTCAATGATGCAAATGACTT 58.604 37.500 0.00 0.00 0.00 3.01
2966 3200 6.403527 CCGTCTTCAATGATGCAAATGACTTA 60.404 38.462 0.00 0.00 0.00 2.24
2968 3202 7.375280 CGTCTTCAATGATGCAAATGACTTATC 59.625 37.037 0.00 0.00 0.00 1.75
2969 3203 8.186163 GTCTTCAATGATGCAAATGACTTATCA 58.814 33.333 0.00 0.00 39.83 2.15
3244 3529 6.211515 CCAAGTCAATTATTATTGCAGCTCC 58.788 40.000 0.00 0.00 40.78 4.70
3245 3530 6.211515 CAAGTCAATTATTATTGCAGCTCCC 58.788 40.000 0.00 0.00 40.78 4.30
3246 3531 4.516698 AGTCAATTATTATTGCAGCTCCCG 59.483 41.667 0.00 0.00 40.78 5.14
3247 3532 3.820467 TCAATTATTATTGCAGCTCCCGG 59.180 43.478 0.00 0.00 40.78 5.73
3249 3534 3.290948 TTATTATTGCAGCTCCCGGTT 57.709 42.857 0.00 0.00 0.00 4.44
3250 3535 2.143876 ATTATTGCAGCTCCCGGTTT 57.856 45.000 0.00 0.00 0.00 3.27
3251 3536 1.917872 TTATTGCAGCTCCCGGTTTT 58.082 45.000 0.00 0.00 0.00 2.43
3252 3537 1.459450 TATTGCAGCTCCCGGTTTTC 58.541 50.000 0.00 0.00 0.00 2.29
3253 3538 0.539438 ATTGCAGCTCCCGGTTTTCA 60.539 50.000 0.00 0.00 0.00 2.69
3254 3539 0.753479 TTGCAGCTCCCGGTTTTCAA 60.753 50.000 0.00 0.00 0.00 2.69
3255 3540 1.285950 GCAGCTCCCGGTTTTCAAC 59.714 57.895 0.00 0.00 0.00 3.18
3256 3541 1.574428 CAGCTCCCGGTTTTCAACG 59.426 57.895 0.00 0.00 0.00 4.10
3257 3542 2.254350 GCTCCCGGTTTTCAACGC 59.746 61.111 0.00 0.00 0.00 4.84
3258 3543 2.548295 GCTCCCGGTTTTCAACGCA 61.548 57.895 0.00 0.00 0.00 5.24
3259 3544 2.026522 CTCCCGGTTTTCAACGCAA 58.973 52.632 0.00 0.00 0.00 4.85
3260 3545 0.596082 CTCCCGGTTTTCAACGCAAT 59.404 50.000 0.00 0.00 0.00 3.56
3261 3546 1.000717 CTCCCGGTTTTCAACGCAATT 60.001 47.619 0.00 0.00 0.00 2.32
3262 3547 1.409427 TCCCGGTTTTCAACGCAATTT 59.591 42.857 0.00 0.00 0.00 1.82
3263 3548 2.159085 TCCCGGTTTTCAACGCAATTTT 60.159 40.909 0.00 0.00 0.00 1.82
3264 3549 2.609916 CCCGGTTTTCAACGCAATTTTT 59.390 40.909 0.00 0.00 0.00 1.94
3321 3606 8.352942 GGTTCTTCAGTTGTGTTATTTGAATCT 58.647 33.333 0.00 0.00 0.00 2.40
3368 3653 7.261829 ACTTTTGCAACGTGTTAAGGTAATA 57.738 32.000 0.00 0.00 0.00 0.98
3369 3654 7.705214 ACTTTTGCAACGTGTTAAGGTAATAA 58.295 30.769 0.00 0.00 0.00 1.40
3370 3655 8.354426 ACTTTTGCAACGTGTTAAGGTAATAAT 58.646 29.630 0.00 0.00 0.00 1.28
3731 4030 4.447290 TGCTAGTTAGTGCAAAACAGACA 58.553 39.130 13.87 6.86 36.15 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.355215 CGAGTCTACTTGAACTACATAAAACAT 57.645 33.333 0.00 0.00 0.00 2.71
4 5 7.811236 CCGAGTCTACTTGAACTACATAAAACA 59.189 37.037 0.00 0.00 0.00 2.83
7 8 7.148120 CCTCCGAGTCTACTTGAACTACATAAA 60.148 40.741 0.00 0.00 0.00 1.40
8 9 6.318144 CCTCCGAGTCTACTTGAACTACATAA 59.682 42.308 0.00 0.00 0.00 1.90
9 10 5.821470 CCTCCGAGTCTACTTGAACTACATA 59.179 44.000 0.00 0.00 0.00 2.29
10 11 4.641094 CCTCCGAGTCTACTTGAACTACAT 59.359 45.833 0.00 0.00 0.00 2.29
11 12 4.008330 CCTCCGAGTCTACTTGAACTACA 58.992 47.826 0.00 0.00 0.00 2.74
12 13 4.260170 TCCTCCGAGTCTACTTGAACTAC 58.740 47.826 0.00 0.00 0.00 2.73
13 14 4.019501 ACTCCTCCGAGTCTACTTGAACTA 60.020 45.833 0.00 0.00 46.90 2.24
14 15 3.244981 ACTCCTCCGAGTCTACTTGAACT 60.245 47.826 0.00 0.00 46.90 3.01
15 16 3.083293 ACTCCTCCGAGTCTACTTGAAC 58.917 50.000 0.00 0.00 46.90 3.18
16 17 3.436577 ACTCCTCCGAGTCTACTTGAA 57.563 47.619 0.00 0.00 46.90 2.69
17 18 3.518705 ACTACTCCTCCGAGTCTACTTGA 59.481 47.826 0.00 0.00 46.90 3.02
18 19 3.876341 ACTACTCCTCCGAGTCTACTTG 58.124 50.000 0.00 0.00 46.90 3.16
19 20 4.716287 ACTACTACTCCTCCGAGTCTACTT 59.284 45.833 0.00 0.00 46.90 2.24
20 21 4.289245 ACTACTACTCCTCCGAGTCTACT 58.711 47.826 0.00 0.00 46.90 2.57
21 22 4.670896 ACTACTACTCCTCCGAGTCTAC 57.329 50.000 0.00 0.00 46.90 2.59
22 23 5.426504 CAAACTACTACTCCTCCGAGTCTA 58.573 45.833 0.00 0.00 46.90 2.59
23 24 4.263435 CAAACTACTACTCCTCCGAGTCT 58.737 47.826 0.00 0.00 46.90 3.24
24 25 3.377798 CCAAACTACTACTCCTCCGAGTC 59.622 52.174 0.00 0.00 46.90 3.36
26 27 3.128938 CACCAAACTACTACTCCTCCGAG 59.871 52.174 0.00 0.00 42.32 4.63
27 28 3.087031 CACCAAACTACTACTCCTCCGA 58.913 50.000 0.00 0.00 0.00 4.55
28 29 2.824341 ACACCAAACTACTACTCCTCCG 59.176 50.000 0.00 0.00 0.00 4.63
29 30 3.830755 TCACACCAAACTACTACTCCTCC 59.169 47.826 0.00 0.00 0.00 4.30
30 31 5.047235 ACATCACACCAAACTACTACTCCTC 60.047 44.000 0.00 0.00 0.00 3.71
31 32 4.838986 ACATCACACCAAACTACTACTCCT 59.161 41.667 0.00 0.00 0.00 3.69
32 33 5.148651 ACATCACACCAAACTACTACTCC 57.851 43.478 0.00 0.00 0.00 3.85
33 34 6.921914 ACTACATCACACCAAACTACTACTC 58.078 40.000 0.00 0.00 0.00 2.59
34 35 6.912951 ACTACATCACACCAAACTACTACT 57.087 37.500 0.00 0.00 0.00 2.57
35 36 7.824672 ACTACTACATCACACCAAACTACTAC 58.175 38.462 0.00 0.00 0.00 2.73
36 37 8.413309 AACTACTACATCACACCAAACTACTA 57.587 34.615 0.00 0.00 0.00 1.82
37 38 6.912951 ACTACTACATCACACCAAACTACT 57.087 37.500 0.00 0.00 0.00 2.57
38 39 7.654520 TCAAACTACTACATCACACCAAACTAC 59.345 37.037 0.00 0.00 0.00 2.73
39 40 7.728148 TCAAACTACTACATCACACCAAACTA 58.272 34.615 0.00 0.00 0.00 2.24
40 41 6.588204 TCAAACTACTACATCACACCAAACT 58.412 36.000 0.00 0.00 0.00 2.66
41 42 6.854496 TCAAACTACTACATCACACCAAAC 57.146 37.500 0.00 0.00 0.00 2.93
42 43 7.051623 AGTTCAAACTACTACATCACACCAAA 58.948 34.615 0.00 0.00 37.52 3.28
43 44 6.588204 AGTTCAAACTACTACATCACACCAA 58.412 36.000 0.00 0.00 37.52 3.67
44 45 6.169557 AGTTCAAACTACTACATCACACCA 57.830 37.500 0.00 0.00 37.52 4.17
45 46 7.817962 ACATAGTTCAAACTACTACATCACACC 59.182 37.037 4.80 0.00 43.67 4.16
46 47 8.758633 ACATAGTTCAAACTACTACATCACAC 57.241 34.615 4.80 0.00 43.67 3.82
47 48 9.772973 AAACATAGTTCAAACTACTACATCACA 57.227 29.630 4.80 0.00 43.67 3.58
75 76 9.593134 AGCAAACATAGTTCATAAAACAAACAA 57.407 25.926 0.00 0.00 0.00 2.83
76 77 9.593134 AAGCAAACATAGTTCATAAAACAAACA 57.407 25.926 0.00 0.00 0.00 2.83
78 79 9.809096 TGAAGCAAACATAGTTCATAAAACAAA 57.191 25.926 0.00 0.00 0.00 2.83
79 80 9.809096 TTGAAGCAAACATAGTTCATAAAACAA 57.191 25.926 0.00 0.00 0.00 2.83
80 81 9.809096 TTTGAAGCAAACATAGTTCATAAAACA 57.191 25.926 0.00 0.00 0.00 2.83
85 86 9.624697 GTTCATTTGAAGCAAACATAGTTCATA 57.375 29.630 0.00 0.00 36.13 2.15
86 87 8.362639 AGTTCATTTGAAGCAAACATAGTTCAT 58.637 29.630 0.00 0.00 36.13 2.57
87 88 7.715657 AGTTCATTTGAAGCAAACATAGTTCA 58.284 30.769 0.00 0.00 36.13 3.18
88 89 8.482429 CAAGTTCATTTGAAGCAAACATAGTTC 58.518 33.333 0.00 0.00 36.13 3.01
89 90 8.196771 TCAAGTTCATTTGAAGCAAACATAGTT 58.803 29.630 0.00 0.00 36.13 2.24
90 91 7.715657 TCAAGTTCATTTGAAGCAAACATAGT 58.284 30.769 0.00 0.00 36.13 2.12
91 92 8.752766 ATCAAGTTCATTTGAAGCAAACATAG 57.247 30.769 0.00 0.00 40.21 2.23
93 94 9.146984 CATATCAAGTTCATTTGAAGCAAACAT 57.853 29.630 0.00 0.00 40.21 2.71
94 95 8.143193 ACATATCAAGTTCATTTGAAGCAAACA 58.857 29.630 0.00 0.00 40.21 2.83
95 96 8.524870 ACATATCAAGTTCATTTGAAGCAAAC 57.475 30.769 0.00 0.00 40.21 2.93
96 97 9.545105 AAACATATCAAGTTCATTTGAAGCAAA 57.455 25.926 0.00 0.00 40.21 3.68
97 98 8.980610 CAAACATATCAAGTTCATTTGAAGCAA 58.019 29.630 0.00 0.00 40.21 3.91
98 99 8.358895 TCAAACATATCAAGTTCATTTGAAGCA 58.641 29.630 0.00 0.00 40.21 3.91
99 100 8.746922 TCAAACATATCAAGTTCATTTGAAGC 57.253 30.769 0.00 0.00 40.21 3.86
130 131 9.337396 AGTTGAACTACTACATCATTTCAAACA 57.663 29.630 0.00 0.00 35.38 2.83
133 134 9.337396 ACAAGTTGAACTACTACATCATTTCAA 57.663 29.630 10.54 0.00 32.08 2.69
134 135 8.902540 ACAAGTTGAACTACTACATCATTTCA 57.097 30.769 10.54 0.00 0.00 2.69
139 140 9.602568 TGTAAAACAAGTTGAACTACTACATCA 57.397 29.630 10.54 0.00 0.00 3.07
142 143 9.602568 TGATGTAAAACAAGTTGAACTACTACA 57.397 29.630 10.54 8.28 0.00 2.74
145 146 9.561069 AGATGATGTAAAACAAGTTGAACTACT 57.439 29.630 10.54 0.00 0.00 2.57
149 150 9.559958 CCATAGATGATGTAAAACAAGTTGAAC 57.440 33.333 10.54 2.99 33.19 3.18
150 151 9.295825 ACCATAGATGATGTAAAACAAGTTGAA 57.704 29.630 10.54 0.00 33.19 2.69
151 152 8.862325 ACCATAGATGATGTAAAACAAGTTGA 57.138 30.769 10.54 0.00 33.19 3.18
152 153 9.988350 GTACCATAGATGATGTAAAACAAGTTG 57.012 33.333 0.00 0.00 33.19 3.16
153 154 9.733556 TGTACCATAGATGATGTAAAACAAGTT 57.266 29.630 0.00 0.00 33.19 2.66
154 155 9.733556 TTGTACCATAGATGATGTAAAACAAGT 57.266 29.630 0.00 0.00 33.19 3.16
162 163 9.547279 ACCTCATATTGTACCATAGATGATGTA 57.453 33.333 0.00 0.00 33.19 2.29
163 164 8.441311 ACCTCATATTGTACCATAGATGATGT 57.559 34.615 0.00 0.00 33.19 3.06
164 165 7.704047 CGACCTCATATTGTACCATAGATGATG 59.296 40.741 0.00 0.00 35.05 3.07
165 166 7.397476 ACGACCTCATATTGTACCATAGATGAT 59.603 37.037 0.00 0.00 0.00 2.45
166 167 6.719829 ACGACCTCATATTGTACCATAGATGA 59.280 38.462 0.00 0.00 0.00 2.92
167 168 6.925211 ACGACCTCATATTGTACCATAGATG 58.075 40.000 0.00 0.00 0.00 2.90
168 169 7.540474 AACGACCTCATATTGTACCATAGAT 57.460 36.000 0.00 0.00 0.00 1.98
169 170 6.971726 AACGACCTCATATTGTACCATAGA 57.028 37.500 0.00 0.00 0.00 1.98
170 171 9.355215 GATAAACGACCTCATATTGTACCATAG 57.645 37.037 0.00 0.00 0.00 2.23
171 172 8.862085 TGATAAACGACCTCATATTGTACCATA 58.138 33.333 0.00 0.00 0.00 2.74
172 173 7.732025 TGATAAACGACCTCATATTGTACCAT 58.268 34.615 0.00 0.00 0.00 3.55
173 174 7.114866 TGATAAACGACCTCATATTGTACCA 57.885 36.000 0.00 0.00 0.00 3.25
174 175 9.871238 ATATGATAAACGACCTCATATTGTACC 57.129 33.333 0.00 0.00 38.72 3.34
176 177 9.783256 CGATATGATAAACGACCTCATATTGTA 57.217 33.333 12.34 0.00 40.77 2.41
191 192 5.394224 TGGCGTACCATCGATATGATAAA 57.606 39.130 0.00 0.00 42.67 1.40
222 223 2.287547 CGTCACAAAACTTGGTGATGGG 60.288 50.000 10.27 0.00 44.94 4.00
296 297 5.590259 TGAGCAAGAAGAAGCAAAACTTACT 59.410 36.000 0.00 0.00 39.29 2.24
329 331 6.546395 AGCAACATTTAGTGAATGATTCGAC 58.454 36.000 14.08 0.81 46.59 4.20
344 350 6.316390 GCTACCTAATGTGTAGAGCAACATTT 59.684 38.462 6.37 0.00 38.34 2.32
398 404 0.251916 TAAATGGCCGTCCCTCTGTG 59.748 55.000 0.00 0.00 0.00 3.66
448 456 2.680312 ATTGTCTCGCACATACTGCT 57.320 45.000 0.00 0.00 44.64 4.24
459 467 7.637709 TTCATAAACGGATCATATTGTCTCG 57.362 36.000 0.00 0.00 0.00 4.04
617 645 5.915812 AAACAATGTTTCAATTAACCGGC 57.084 34.783 5.41 0.00 0.00 6.13
717 746 0.248215 CGAATGCTGACCCGCAAATC 60.248 55.000 0.00 0.00 44.06 2.17
777 823 7.117092 GGGCATCTTACGCTCAAAAATTAAAAA 59.883 33.333 0.00 0.00 0.00 1.94
778 824 6.588373 GGGCATCTTACGCTCAAAAATTAAAA 59.412 34.615 0.00 0.00 0.00 1.52
779 825 6.071616 AGGGCATCTTACGCTCAAAAATTAAA 60.072 34.615 0.00 0.00 29.82 1.52
780 826 5.417580 AGGGCATCTTACGCTCAAAAATTAA 59.582 36.000 0.00 0.00 29.82 1.40
781 827 4.947388 AGGGCATCTTACGCTCAAAAATTA 59.053 37.500 0.00 0.00 29.82 1.40
782 828 3.763897 AGGGCATCTTACGCTCAAAAATT 59.236 39.130 0.00 0.00 29.82 1.82
783 829 3.356290 AGGGCATCTTACGCTCAAAAAT 58.644 40.909 0.00 0.00 29.82 1.82
784 830 2.790433 AGGGCATCTTACGCTCAAAAA 58.210 42.857 0.00 0.00 29.82 1.94
785 831 2.489938 AGGGCATCTTACGCTCAAAA 57.510 45.000 0.00 0.00 29.82 2.44
786 832 2.489938 AAGGGCATCTTACGCTCAAA 57.510 45.000 0.00 0.00 33.14 2.69
787 833 3.838244 ATAAGGGCATCTTACGCTCAA 57.162 42.857 1.60 0.00 40.40 3.02
788 834 3.895656 AGTATAAGGGCATCTTACGCTCA 59.104 43.478 1.60 0.00 40.40 4.26
789 835 4.522722 AGTATAAGGGCATCTTACGCTC 57.477 45.455 1.60 0.00 40.40 5.03
850 896 0.541764 TGGAACAGGCCCAAATGTCC 60.542 55.000 0.00 1.96 0.00 4.02
902 964 4.698201 TTTTTAGGCAAAGAAAAGGGGG 57.302 40.909 0.00 0.00 0.00 5.40
928 990 2.884304 GCGGAAGAAAAGGGGGATTTCT 60.884 50.000 0.00 0.00 46.30 2.52
929 991 1.476891 GCGGAAGAAAAGGGGGATTTC 59.523 52.381 0.00 0.00 37.11 2.17
930 992 1.557099 GCGGAAGAAAAGGGGGATTT 58.443 50.000 0.00 0.00 0.00 2.17
931 993 0.324368 GGCGGAAGAAAAGGGGGATT 60.324 55.000 0.00 0.00 0.00 3.01
932 994 1.306633 GGCGGAAGAAAAGGGGGAT 59.693 57.895 0.00 0.00 0.00 3.85
933 995 2.761160 GGCGGAAGAAAAGGGGGA 59.239 61.111 0.00 0.00 0.00 4.81
934 996 2.750237 CGGCGGAAGAAAAGGGGG 60.750 66.667 0.00 0.00 0.00 5.40
956 1018 0.613777 GGGGACGATTTCTGTGGAGT 59.386 55.000 0.00 0.00 0.00 3.85
957 1019 0.613260 TGGGGACGATTTCTGTGGAG 59.387 55.000 0.00 0.00 0.00 3.86
958 1020 0.323629 GTGGGGACGATTTCTGTGGA 59.676 55.000 0.00 0.00 0.00 4.02
959 1021 0.676782 GGTGGGGACGATTTCTGTGG 60.677 60.000 0.00 0.00 0.00 4.17
961 1023 1.295423 CGGTGGGGACGATTTCTGT 59.705 57.895 0.00 0.00 0.00 3.41
962 1024 2.106683 GCGGTGGGGACGATTTCTG 61.107 63.158 0.00 0.00 0.00 3.02
963 1025 2.267961 GCGGTGGGGACGATTTCT 59.732 61.111 0.00 0.00 0.00 2.52
964 1026 3.192922 CGCGGTGGGGACGATTTC 61.193 66.667 0.00 0.00 0.00 2.17
965 1027 4.770874 CCGCGGTGGGGACGATTT 62.771 66.667 19.50 0.00 37.91 2.17
1077 1170 0.641601 AGAAGAGGCCCTCCATCTCT 59.358 55.000 7.26 1.80 39.31 3.10
1310 1404 3.423077 GAGTCGACGAGGACGAGCG 62.423 68.421 10.46 0.00 41.81 5.03
1568 1695 0.685660 GGGGAGAAAGAACGTGGAGT 59.314 55.000 0.00 0.00 0.00 3.85
1974 2119 9.044646 TGATTTTCTGAATCCAAATATCCCAAA 57.955 29.630 0.00 0.00 0.00 3.28
1983 2128 8.108999 TCTAGGACATGATTTTCTGAATCCAAA 58.891 33.333 0.00 0.00 0.00 3.28
2581 2794 3.160585 CCTCCTCCAGCACCAACA 58.839 61.111 0.00 0.00 0.00 3.33
2965 3199 5.528690 GCTCTGCAATTACCACAGAATGATA 59.471 40.000 0.00 0.00 39.79 2.15
2966 3200 4.337555 GCTCTGCAATTACCACAGAATGAT 59.662 41.667 0.00 0.00 39.79 2.45
2968 3202 3.441222 TGCTCTGCAATTACCACAGAATG 59.559 43.478 0.00 0.00 39.79 2.67
2969 3203 3.441572 GTGCTCTGCAATTACCACAGAAT 59.558 43.478 0.00 0.00 41.47 2.40
3244 3529 3.935027 AAAAATTGCGTTGAAAACCGG 57.065 38.095 0.00 0.00 46.28 5.28
3268 3553 9.471702 AGATAGGCATAAATAGCTGCAATAATT 57.528 29.630 1.02 0.00 40.18 1.40
3269 3554 8.900781 CAGATAGGCATAAATAGCTGCAATAAT 58.099 33.333 1.02 0.00 40.18 1.28
3270 3555 7.337689 CCAGATAGGCATAAATAGCTGCAATAA 59.662 37.037 1.02 0.00 40.18 1.40
3271 3556 6.825213 CCAGATAGGCATAAATAGCTGCAATA 59.175 38.462 1.02 0.00 40.18 1.90
3272 3557 5.651139 CCAGATAGGCATAAATAGCTGCAAT 59.349 40.000 1.02 0.00 40.18 3.56
3273 3558 5.005740 CCAGATAGGCATAAATAGCTGCAA 58.994 41.667 1.02 0.00 40.18 4.08
3274 3559 4.042062 ACCAGATAGGCATAAATAGCTGCA 59.958 41.667 1.02 0.00 43.14 4.41
3275 3560 4.583871 ACCAGATAGGCATAAATAGCTGC 58.416 43.478 0.00 0.00 43.14 5.25
3276 3561 6.471146 AGAACCAGATAGGCATAAATAGCTG 58.529 40.000 0.00 0.00 43.14 4.24
3277 3562 6.694445 AGAACCAGATAGGCATAAATAGCT 57.306 37.500 0.00 0.00 43.14 3.32
3278 3563 6.936900 TGAAGAACCAGATAGGCATAAATAGC 59.063 38.462 0.00 0.00 43.14 2.97
3279 3564 8.153550 ACTGAAGAACCAGATAGGCATAAATAG 58.846 37.037 0.00 0.00 43.14 1.73
3280 3565 8.034313 ACTGAAGAACCAGATAGGCATAAATA 57.966 34.615 0.00 0.00 43.14 1.40
3281 3566 6.904626 ACTGAAGAACCAGATAGGCATAAAT 58.095 36.000 0.00 0.00 43.14 1.40
3282 3567 6.313519 ACTGAAGAACCAGATAGGCATAAA 57.686 37.500 0.00 0.00 43.14 1.40
3283 3568 5.957771 ACTGAAGAACCAGATAGGCATAA 57.042 39.130 0.00 0.00 43.14 1.90
3284 3569 5.189736 ACAACTGAAGAACCAGATAGGCATA 59.810 40.000 0.00 0.00 43.14 3.14
3285 3570 4.018960 ACAACTGAAGAACCAGATAGGCAT 60.019 41.667 0.00 0.00 43.14 4.40
3286 3571 3.327757 ACAACTGAAGAACCAGATAGGCA 59.672 43.478 0.00 0.00 43.14 4.75
3287 3572 3.686726 CACAACTGAAGAACCAGATAGGC 59.313 47.826 0.00 0.00 43.14 3.93
3321 3606 9.771534 AAGTAACCAAATTAGCTTGCAAATAAA 57.228 25.926 0.00 0.00 0.00 1.40
3368 3653 3.316868 CCCACGTTGTTCAAGTTACCATT 59.683 43.478 0.00 0.00 0.00 3.16
3369 3654 2.882137 CCCACGTTGTTCAAGTTACCAT 59.118 45.455 0.00 0.00 0.00 3.55
3370 3655 2.290464 CCCACGTTGTTCAAGTTACCA 58.710 47.619 0.00 0.00 0.00 3.25
3609 3908 8.344831 TGGATTCTAACATTTTCAGATAATGCG 58.655 33.333 12.19 3.66 36.65 4.73


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

AutoCloner maintained by Alex Coulton.