Multiple sequence alignment - TraesCS2B01G226600

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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 TraesCS2B01G226600 chr2B 100.000 3567 0 0 1 3567 217395708 217399274 0.000000e+00 6588.0
1 TraesCS2B01G226600 chr2D 92.513 2431 90 31 608 2998 160597607 160599985 0.000000e+00 3397.0
2 TraesCS2B01G226600 chr2D 90.894 593 42 5 2984 3566 160600002 160600592 0.000000e+00 785.0
3 TraesCS2B01G226600 chr2D 86.116 533 62 7 95 618 160596828 160597357 6.690000e-157 564.0
4 TraesCS2B01G226600 chr2D 97.143 35 1 0 507 541 562831729 562831763 3.850000e-05 60.2
5 TraesCS2B01G226600 chr2D 100.000 30 0 0 513 542 32761523 32761494 4.970000e-04 56.5
6 TraesCS2B01G226600 chr2A 92.663 2358 87 33 635 2938 171947887 171950212 0.000000e+00 3317.0
7 TraesCS2B01G226600 chr2A 86.292 569 40 15 3013 3565 171950266 171950812 5.130000e-163 584.0
8 TraesCS2B01G226600 chr2A 95.775 71 3 0 24 94 745696252 745696182 8.090000e-22 115.0
9 TraesCS2B01G226600 chr2A 86.957 69 5 4 314 380 154411430 154411496 1.370000e-09 75.0
10 TraesCS2B01G226600 chr6D 74.530 479 81 25 97 542 60122250 60122720 1.700000e-38 171.0
11 TraesCS2B01G226600 chr6D 94.667 75 4 0 24 98 95729283 95729209 2.250000e-22 117.0
12 TraesCS2B01G226600 chr6D 94.595 74 3 1 21 94 70202240 70202312 2.910000e-21 113.0
13 TraesCS2B01G226600 chr6D 87.640 89 11 0 24 112 457309488 457309400 1.750000e-18 104.0
14 TraesCS2B01G226600 chr3B 76.261 337 49 23 95 418 750131623 750131941 2.220000e-32 150.0
15 TraesCS2B01G226600 chr6A 78.355 231 37 8 202 429 594822433 594822213 1.730000e-28 137.0
16 TraesCS2B01G226600 chr7D 96.053 76 3 0 21 96 453213522 453213597 1.340000e-24 124.0
17 TraesCS2B01G226600 chr4B 95.946 74 3 0 21 94 21417181 21417254 1.740000e-23 121.0
18 TraesCS2B01G226600 chrUn 93.243 74 5 0 24 97 89343254 89343181 3.760000e-20 110.0
19 TraesCS2B01G226600 chr4A 94.366 71 4 0 24 94 484735085 484735015 3.760000e-20 110.0
20 TraesCS2B01G226600 chr5B 91.139 79 5 2 24 100 635717998 635717920 4.870000e-19 106.0
21 TraesCS2B01G226600 chr5B 91.304 46 3 1 335 379 554545435 554545480 1.070000e-05 62.1
22 TraesCS2B01G226600 chr5B 100.000 30 0 0 509 538 400436223 400436252 4.970000e-04 56.5
23 TraesCS2B01G226600 chr6B 75.210 238 48 7 202 435 680474855 680474625 6.300000e-18 102.0
24 TraesCS2B01G226600 chr5A 95.122 41 0 2 502 541 22634502 22634541 2.970000e-06 63.9
25 TraesCS2B01G226600 chr5A 89.130 46 4 1 335 379 572883364 572883409 4.970000e-04 56.5
26 TraesCS2B01G226600 chr1B 100.000 34 0 0 509 542 357453052 357453085 2.970000e-06 63.9
27 TraesCS2B01G226600 chr1B 100.000 28 0 0 515 542 28042482 28042509 6.000000e-03 52.8
28 TraesCS2B01G226600 chr3D 97.059 34 1 0 509 542 514998391 514998424 1.380000e-04 58.4
29 TraesCS2B01G226600 chr3D 100.000 29 0 0 513 541 157742393 157742365 2.000000e-03 54.7


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 TraesCS2B01G226600 chr2B 217395708 217399274 3566 False 6588.0 6588 100.0000 1 3567 1 chr2B.!!$F1 3566
1 TraesCS2B01G226600 chr2D 160596828 160600592 3764 False 1582.0 3397 89.8410 95 3566 3 chr2D.!!$F2 3471
2 TraesCS2B01G226600 chr2A 171947887 171950812 2925 False 1950.5 3317 89.4775 635 3565 2 chr2A.!!$F2 2930

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
157 158 0.242017 GCACCACCAGAAAGATGTGC 59.758 55.0 0.0 0.0 41.75 4.57 F
384 385 0.246360 TCGAGCATGTGATCCAACGT 59.754 50.0 0.0 0.0 0.00 3.99 F
856 1129 0.323908 CACCAAAAGGGGCGGGAATA 60.324 55.0 0.0 0.0 42.91 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1588 1884 0.821711 CTCCTCCTCGCCGATTCTCT 60.822 60.0 0.0 0.0 0.0 3.10 R
1982 2284 1.695893 CGGACGCATCACATCACACC 61.696 60.0 0.0 0.0 0.0 4.16 R
2655 2995 2.106511 TGTTGGGGGACAGAGAAAGAAG 59.893 50.0 0.0 0.0 0.0 2.85 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
19 20 2.697431 TGCATGCTACGTTTTCCAAC 57.303 45.000 20.33 0.00 0.00 3.77
20 21 2.226330 TGCATGCTACGTTTTCCAACT 58.774 42.857 20.33 0.00 0.00 3.16
21 22 3.403968 TGCATGCTACGTTTTCCAACTA 58.596 40.909 20.33 0.00 0.00 2.24
22 23 4.006989 TGCATGCTACGTTTTCCAACTAT 58.993 39.130 20.33 0.00 0.00 2.12
23 24 4.094294 TGCATGCTACGTTTTCCAACTATC 59.906 41.667 20.33 0.00 0.00 2.08
24 25 4.332819 GCATGCTACGTTTTCCAACTATCT 59.667 41.667 11.37 0.00 0.00 1.98
25 26 5.522460 GCATGCTACGTTTTCCAACTATCTA 59.478 40.000 11.37 0.00 0.00 1.98
26 27 6.202954 GCATGCTACGTTTTCCAACTATCTAT 59.797 38.462 11.37 0.00 0.00 1.98
27 28 7.567571 CATGCTACGTTTTCCAACTATCTATG 58.432 38.462 0.00 0.00 0.00 2.23
28 29 5.522460 TGCTACGTTTTCCAACTATCTATGC 59.478 40.000 0.00 0.00 0.00 3.14
29 30 5.522460 GCTACGTTTTCCAACTATCTATGCA 59.478 40.000 0.00 0.00 0.00 3.96
30 31 6.202954 GCTACGTTTTCCAACTATCTATGCAT 59.797 38.462 3.79 3.79 0.00 3.96
31 32 6.604735 ACGTTTTCCAACTATCTATGCATC 57.395 37.500 0.19 0.00 0.00 3.91
32 33 6.349300 ACGTTTTCCAACTATCTATGCATCT 58.651 36.000 0.19 0.00 0.00 2.90
33 34 6.480320 ACGTTTTCCAACTATCTATGCATCTC 59.520 38.462 0.19 0.00 0.00 2.75
34 35 6.479990 CGTTTTCCAACTATCTATGCATCTCA 59.520 38.462 0.19 0.00 0.00 3.27
35 36 7.011389 CGTTTTCCAACTATCTATGCATCTCAA 59.989 37.037 0.19 0.00 0.00 3.02
36 37 8.844244 GTTTTCCAACTATCTATGCATCTCAAT 58.156 33.333 0.19 0.00 0.00 2.57
37 38 7.974482 TTCCAACTATCTATGCATCTCAATG 57.026 36.000 0.19 0.00 35.87 2.82
38 39 6.470278 TCCAACTATCTATGCATCTCAATGG 58.530 40.000 0.19 5.04 33.19 3.16
39 40 6.270695 TCCAACTATCTATGCATCTCAATGGA 59.729 38.462 0.19 7.43 37.65 3.41
40 41 7.037802 TCCAACTATCTATGCATCTCAATGGAT 60.038 37.037 0.19 0.00 44.97 3.41
41 42 8.262933 CCAACTATCTATGCATCTCAATGGATA 58.737 37.037 0.19 0.00 41.62 2.59
49 50 5.557866 TGCATCTCAATGGATAGATCTTGG 58.442 41.667 0.00 0.00 33.19 3.61
50 51 4.942483 GCATCTCAATGGATAGATCTTGGG 59.058 45.833 0.00 0.00 33.19 4.12
51 52 5.514484 GCATCTCAATGGATAGATCTTGGGT 60.514 44.000 0.00 0.00 33.19 4.51
52 53 5.557576 TCTCAATGGATAGATCTTGGGTG 57.442 43.478 0.00 0.00 0.00 4.61
53 54 4.971282 TCTCAATGGATAGATCTTGGGTGT 59.029 41.667 0.00 0.00 0.00 4.16
54 55 5.039920 TCAATGGATAGATCTTGGGTGTG 57.960 43.478 0.00 0.00 0.00 3.82
55 56 3.498774 ATGGATAGATCTTGGGTGTGC 57.501 47.619 0.00 0.00 0.00 4.57
56 57 1.138859 TGGATAGATCTTGGGTGTGCG 59.861 52.381 0.00 0.00 0.00 5.34
57 58 1.139058 GGATAGATCTTGGGTGTGCGT 59.861 52.381 0.00 0.00 0.00 5.24
58 59 2.364324 GGATAGATCTTGGGTGTGCGTA 59.636 50.000 0.00 0.00 0.00 4.42
59 60 3.553096 GGATAGATCTTGGGTGTGCGTAG 60.553 52.174 0.00 0.00 0.00 3.51
60 61 1.557099 AGATCTTGGGTGTGCGTAGA 58.443 50.000 0.00 0.00 0.00 2.59
61 62 1.899814 AGATCTTGGGTGTGCGTAGAA 59.100 47.619 0.00 0.00 0.00 2.10
62 63 2.301870 AGATCTTGGGTGTGCGTAGAAA 59.698 45.455 0.00 0.00 0.00 2.52
63 64 2.851263 TCTTGGGTGTGCGTAGAAAT 57.149 45.000 0.00 0.00 0.00 2.17
64 65 3.134574 TCTTGGGTGTGCGTAGAAATT 57.865 42.857 0.00 0.00 0.00 1.82
65 66 3.482436 TCTTGGGTGTGCGTAGAAATTT 58.518 40.909 0.00 0.00 0.00 1.82
66 67 3.886505 TCTTGGGTGTGCGTAGAAATTTT 59.113 39.130 0.00 0.00 0.00 1.82
67 68 4.339814 TCTTGGGTGTGCGTAGAAATTTTT 59.660 37.500 0.00 0.00 0.00 1.94
87 88 6.532365 TTTTTATTTTCCATGCAACGTTCC 57.468 33.333 0.00 0.00 0.00 3.62
88 89 2.741759 ATTTTCCATGCAACGTTCCC 57.258 45.000 0.00 0.00 0.00 3.97
89 90 0.676736 TTTTCCATGCAACGTTCCCC 59.323 50.000 0.00 0.00 0.00 4.81
90 91 0.468214 TTTCCATGCAACGTTCCCCA 60.468 50.000 0.00 0.00 0.00 4.96
91 92 0.468214 TTCCATGCAACGTTCCCCAA 60.468 50.000 0.00 0.00 0.00 4.12
92 93 1.175983 TCCATGCAACGTTCCCCAAC 61.176 55.000 0.00 0.00 0.00 3.77
93 94 1.459455 CCATGCAACGTTCCCCAACA 61.459 55.000 0.00 0.00 32.14 3.33
96 97 1.098712 TGCAACGTTCCCCAACAGTC 61.099 55.000 0.00 0.00 32.14 3.51
100 101 1.068417 CGTTCCCCAACAGTCGACA 59.932 57.895 19.50 0.00 32.14 4.35
121 122 2.095768 ACAAGAATGATCGTGCAAACCG 60.096 45.455 0.00 0.00 38.44 4.44
135 136 2.883574 CAAACCGTCCGCTACAAGATA 58.116 47.619 0.00 0.00 0.00 1.98
143 144 2.169561 TCCGCTACAAGATATTGCACCA 59.830 45.455 0.00 0.00 0.00 4.17
157 158 0.242017 GCACCACCAGAAAGATGTGC 59.758 55.000 0.00 0.00 41.75 4.57
199 200 1.681486 GGAGGAGGCGAAGAAGGAGG 61.681 65.000 0.00 0.00 0.00 4.30
200 201 2.188207 GGAGGCGAAGAAGGAGGC 59.812 66.667 0.00 0.00 0.00 4.70
256 257 1.306141 TGGAGGAGGCTCGGATTGT 60.306 57.895 8.69 0.00 0.00 2.71
262 263 1.668101 GAGGCTCGGATTGTCGGTCT 61.668 60.000 0.00 0.00 0.00 3.85
263 264 1.519455 GGCTCGGATTGTCGGTCTG 60.519 63.158 0.00 0.00 0.00 3.51
278 279 2.529632 GGTCTGGAAGGGCAGAAAATT 58.470 47.619 0.00 0.00 0.00 1.82
279 280 2.232208 GGTCTGGAAGGGCAGAAAATTG 59.768 50.000 0.00 0.00 0.00 2.32
280 281 3.157087 GTCTGGAAGGGCAGAAAATTGA 58.843 45.455 0.00 0.00 0.00 2.57
281 282 3.192212 GTCTGGAAGGGCAGAAAATTGAG 59.808 47.826 0.00 0.00 0.00 3.02
309 310 6.748333 TCTGCATGGACTAAAATTCTCTTG 57.252 37.500 0.00 0.00 0.00 3.02
314 315 7.177216 TGCATGGACTAAAATTCTCTTGTGATT 59.823 33.333 0.00 0.00 0.00 2.57
315 316 7.487189 GCATGGACTAAAATTCTCTTGTGATTG 59.513 37.037 0.00 0.00 0.00 2.67
316 317 7.452880 TGGACTAAAATTCTCTTGTGATTGG 57.547 36.000 0.00 0.00 0.00 3.16
320 321 8.655935 ACTAAAATTCTCTTGTGATTGGGATT 57.344 30.769 0.00 0.00 0.00 3.01
321 322 9.753674 ACTAAAATTCTCTTGTGATTGGGATTA 57.246 29.630 0.00 0.00 0.00 1.75
332 333 6.135454 TGTGATTGGGATTAGGCATGTAAAT 58.865 36.000 0.00 0.00 0.00 1.40
333 334 6.610830 TGTGATTGGGATTAGGCATGTAAATT 59.389 34.615 0.00 0.00 0.00 1.82
337 338 9.515226 GATTGGGATTAGGCATGTAAATTACTA 57.485 33.333 4.67 0.00 0.00 1.82
347 348 8.840321 AGGCATGTAAATTACTAAAGCATACTG 58.160 33.333 4.67 0.00 0.00 2.74
348 349 8.621286 GGCATGTAAATTACTAAAGCATACTGT 58.379 33.333 4.67 0.00 0.00 3.55
375 376 1.441738 TGGTTGTGATCGAGCATGTG 58.558 50.000 6.66 0.00 31.46 3.21
380 381 1.481772 TGTGATCGAGCATGTGATCCA 59.518 47.619 6.66 0.00 40.19 3.41
381 382 2.093553 TGTGATCGAGCATGTGATCCAA 60.094 45.455 6.66 7.07 40.19 3.53
384 385 0.246360 TCGAGCATGTGATCCAACGT 59.754 50.000 0.00 0.00 0.00 3.99
385 386 1.474879 TCGAGCATGTGATCCAACGTA 59.525 47.619 0.00 0.00 0.00 3.57
387 388 2.735444 CGAGCATGTGATCCAACGTACT 60.735 50.000 0.00 0.00 0.00 2.73
408 409 8.765219 CGTACTATGGATCAGACTTTTATTTGG 58.235 37.037 0.00 0.00 0.00 3.28
454 455 6.935167 ACGGACATATACATGATAGCATTGA 58.065 36.000 0.00 0.00 35.96 2.57
458 459 8.618677 GGACATATACATGATAGCATTGAATGG 58.381 37.037 7.35 0.00 35.96 3.16
463 464 1.133823 TGATAGCATTGAATGGCCGGT 60.134 47.619 7.35 0.00 0.00 5.28
464 465 1.956477 GATAGCATTGAATGGCCGGTT 59.044 47.619 7.35 0.00 0.00 4.44
477 486 2.579201 CGGTTCCTGTCTGCGGAT 59.421 61.111 0.00 0.00 0.00 4.18
484 493 0.533755 CCTGTCTGCGGATTGATCCC 60.534 60.000 0.00 0.00 44.24 3.85
485 494 0.467384 CTGTCTGCGGATTGATCCCT 59.533 55.000 0.00 0.00 44.24 4.20
487 496 1.134401 TGTCTGCGGATTGATCCCTTC 60.134 52.381 0.00 0.00 44.24 3.46
497 506 4.202367 GGATTGATCCCTTCTGTCCGTAAT 60.202 45.833 0.00 0.00 41.20 1.89
499 508 3.371034 TGATCCCTTCTGTCCGTAATCA 58.629 45.455 0.00 0.00 0.00 2.57
500 509 3.967326 TGATCCCTTCTGTCCGTAATCAT 59.033 43.478 0.00 0.00 0.00 2.45
505 514 6.072649 TCCCTTCTGTCCGTAATCATATGTA 58.927 40.000 1.90 0.00 0.00 2.29
507 516 6.208797 CCCTTCTGTCCGTAATCATATGTAGA 59.791 42.308 1.90 0.00 0.00 2.59
526 535 4.725790 AGAAGCAAATTTATGGGTCAGC 57.274 40.909 0.00 0.00 0.00 4.26
530 539 2.923020 GCAAATTTATGGGTCAGCGTTG 59.077 45.455 0.00 0.00 0.00 4.10
542 551 1.377725 AGCGTTGGAGATGCCCTTG 60.378 57.895 0.00 0.00 41.38 3.61
543 552 1.377202 GCGTTGGAGATGCCCTTGA 60.377 57.895 0.00 0.00 34.03 3.02
544 553 0.960364 GCGTTGGAGATGCCCTTGAA 60.960 55.000 0.00 0.00 34.03 2.69
550 559 2.216898 GGAGATGCCCTTGAAATCGAG 58.783 52.381 0.00 0.00 0.00 4.04
582 591 4.098654 CGATGGTTTGGCAATTATTACCCA 59.901 41.667 13.87 6.71 0.00 4.51
583 592 4.810191 TGGTTTGGCAATTATTACCCAC 57.190 40.909 13.87 0.65 0.00 4.61
592 601 4.441495 GCAATTATTACCCACTTCTTGCCC 60.441 45.833 0.00 0.00 33.44 5.36
593 602 2.702592 TATTACCCACTTCTTGCCCG 57.297 50.000 0.00 0.00 0.00 6.13
601 610 1.737793 CACTTCTTGCCCGTGATTACC 59.262 52.381 0.00 0.00 0.00 2.85
602 611 1.349688 ACTTCTTGCCCGTGATTACCA 59.650 47.619 0.00 0.00 0.00 3.25
604 613 2.799126 TCTTGCCCGTGATTACCATT 57.201 45.000 0.00 0.00 0.00 3.16
605 614 3.916359 TCTTGCCCGTGATTACCATTA 57.084 42.857 0.00 0.00 0.00 1.90
606 615 4.431416 TCTTGCCCGTGATTACCATTAT 57.569 40.909 0.00 0.00 0.00 1.28
666 939 3.213206 TGATGAAAACCTGCAGAGTGT 57.787 42.857 17.39 3.51 0.00 3.55
679 952 3.244526 TGCAGAGTGTAAAGAGATGGCAA 60.245 43.478 0.00 0.00 0.00 4.52
847 1120 1.286880 CGAAGCAGCACCAAAAGGG 59.713 57.895 0.00 0.00 44.81 3.95
856 1129 0.323908 CACCAAAAGGGGCGGGAATA 60.324 55.000 0.00 0.00 42.91 1.75
902 1175 0.467290 TTTCTTTCCCAGTGCGGCTT 60.467 50.000 0.00 0.00 0.00 4.35
915 1188 1.202582 TGCGGCTTCTCTCACTCTAAC 59.797 52.381 0.00 0.00 0.00 2.34
918 1194 2.462723 GGCTTCTCTCACTCTAACCCT 58.537 52.381 0.00 0.00 0.00 4.34
1002 1278 1.573108 CCACCATCCTACTCACCACT 58.427 55.000 0.00 0.00 0.00 4.00
1021 1297 2.915079 CACCACAGACCACACCCA 59.085 61.111 0.00 0.00 0.00 4.51
1145 1426 1.588139 GCGGAGGTTGGTACGATCG 60.588 63.158 14.88 14.88 0.00 3.69
1152 1433 0.386838 GTTGGTACGATCGGGTAGGG 59.613 60.000 20.98 0.00 0.00 3.53
1294 1587 0.466555 CCGATCGAGGAGGAAGAGGT 60.467 60.000 18.66 0.00 0.00 3.85
1481 1777 3.226777 GCTCTTCCCTACTATGAGCAGA 58.773 50.000 8.19 0.00 46.41 4.26
1588 1884 4.415332 GAACGAGGACGCGCTGGA 62.415 66.667 5.73 0.00 43.96 3.86
1592 1888 3.134792 GAGGACGCGCTGGAGAGA 61.135 66.667 5.73 0.00 0.00 3.10
1982 2284 6.049790 TGCTCTCTCTGAATGAATTCTGATG 58.950 40.000 7.05 8.80 41.69 3.07
1989 2291 6.420638 TCTGAATGAATTCTGATGGTGTGAT 58.579 36.000 7.05 0.00 39.03 3.06
1990 2292 6.317893 TCTGAATGAATTCTGATGGTGTGATG 59.682 38.462 7.05 0.00 39.03 3.07
1991 2293 5.947566 TGAATGAATTCTGATGGTGTGATGT 59.052 36.000 7.05 0.00 37.67 3.06
1992 2294 5.830000 ATGAATTCTGATGGTGTGATGTG 57.170 39.130 7.05 0.00 0.00 3.21
1993 2295 4.909001 TGAATTCTGATGGTGTGATGTGA 58.091 39.130 7.05 0.00 0.00 3.58
1994 2296 5.503002 TGAATTCTGATGGTGTGATGTGAT 58.497 37.500 7.05 0.00 0.00 3.06
1995 2297 5.355910 TGAATTCTGATGGTGTGATGTGATG 59.644 40.000 7.05 0.00 0.00 3.07
1999 2306 1.328680 GATGGTGTGATGTGATGCGTC 59.671 52.381 0.00 0.00 0.00 5.19
2089 2396 4.821589 GCGGAAGGCGGAGGACAG 62.822 72.222 0.00 0.00 0.00 3.51
2157 2464 0.391661 GGAGCTCGCCAACTTCATGA 60.392 55.000 7.83 0.00 0.00 3.07
2223 2538 4.337304 TGCCCTGCTCCTCCTCCA 62.337 66.667 0.00 0.00 0.00 3.86
2383 2709 2.010497 GCCATCGTTCCCTCTTTCTTC 58.990 52.381 0.00 0.00 0.00 2.87
2479 2809 3.730761 GTGCAAGAGCCGCCTGTG 61.731 66.667 0.00 0.00 41.13 3.66
2480 2810 4.254709 TGCAAGAGCCGCCTGTGT 62.255 61.111 0.00 0.00 41.13 3.72
2481 2811 2.980233 GCAAGAGCCGCCTGTGTT 60.980 61.111 0.00 0.00 33.58 3.32
2482 2812 2.555547 GCAAGAGCCGCCTGTGTTT 61.556 57.895 0.00 0.00 33.58 2.83
2483 2813 2.032981 CAAGAGCCGCCTGTGTTTT 58.967 52.632 0.00 0.00 0.00 2.43
2484 2814 0.385390 CAAGAGCCGCCTGTGTTTTT 59.615 50.000 0.00 0.00 0.00 1.94
2485 2815 0.385390 AAGAGCCGCCTGTGTTTTTG 59.615 50.000 0.00 0.00 0.00 2.44
2486 2816 0.751643 AGAGCCGCCTGTGTTTTTGT 60.752 50.000 0.00 0.00 0.00 2.83
2531 2862 4.142026 TGTTTCCGATCGAGGATATTGTGT 60.142 41.667 18.66 0.00 40.48 3.72
2532 2863 3.643159 TCCGATCGAGGATATTGTGTG 57.357 47.619 18.66 0.00 34.92 3.82
2533 2864 2.956333 TCCGATCGAGGATATTGTGTGT 59.044 45.455 18.66 0.00 34.92 3.72
2534 2865 3.052745 CCGATCGAGGATATTGTGTGTG 58.947 50.000 18.66 0.00 0.00 3.82
2611 2949 4.640771 AGCCTTCTGAATCACCAGTTTA 57.359 40.909 0.00 0.00 35.71 2.01
2613 2951 4.946157 AGCCTTCTGAATCACCAGTTTATG 59.054 41.667 0.00 0.00 35.71 1.90
2648 2988 6.429692 TGTTCATCCGTGTCATTTATTTCAGT 59.570 34.615 0.00 0.00 0.00 3.41
2655 2995 8.447833 TCCGTGTCATTTATTTCAGTTGAATAC 58.552 33.333 0.00 0.00 33.54 1.89
2700 3058 4.379499 CCTTGTCCGGCTTCTTTTATTGTC 60.379 45.833 0.00 0.00 0.00 3.18
2757 3115 4.601406 AAATATTGGAGGCCCAGTGTAA 57.399 40.909 0.00 0.00 44.60 2.41
2759 3117 4.814224 ATATTGGAGGCCCAGTGTAATT 57.186 40.909 0.00 0.00 44.60 1.40
2768 3126 3.565902 GGCCCAGTGTAATTATGAAGAGC 59.434 47.826 0.00 0.00 0.00 4.09
2794 3152 6.753279 TGCTTTTGTTTTGACTTCTGAAGATG 59.247 34.615 23.36 0.00 0.00 2.90
2797 3155 9.226345 CTTTTGTTTTGACTTCTGAAGATGTAC 57.774 33.333 23.36 13.60 33.32 2.90
2798 3156 7.857734 TTGTTTTGACTTCTGAAGATGTACA 57.142 32.000 23.36 15.59 33.32 2.90
2814 3172 7.526142 AGATGTACAGAAGAGTAGTCAAACA 57.474 36.000 0.33 0.00 0.00 2.83
2839 3197 9.003658 CAATCAGTAATTTGGAACTCAAGTACT 57.996 33.333 0.00 0.00 37.96 2.73
2841 3199 9.654663 ATCAGTAATTTGGAACTCAAGTACTAC 57.345 33.333 0.00 0.00 36.61 2.73
2856 3214 9.194271 CTCAAGTACTACTAAACTGAGTTTTCC 57.806 37.037 16.49 0.00 37.01 3.13
2944 3302 1.079127 ACCGGCAGAACGAGGATTG 60.079 57.895 0.00 0.00 35.47 2.67
2949 3307 0.445436 GCAGAACGAGGATTGCAGTG 59.555 55.000 0.00 0.00 36.59 3.66
2982 3340 2.545526 CTGCTCACTCAATTGTCACGTT 59.454 45.455 5.13 0.00 0.00 3.99
3014 3403 2.359975 CTGGGGGAGAAACGGCAC 60.360 66.667 0.00 0.00 0.00 5.01
3073 3462 7.972527 TCCATTGCAAATCGGAAATTATTTTG 58.027 30.769 1.71 0.00 0.00 2.44
3085 3474 7.324856 TCGGAAATTATTTTGATGTGTTTGTCG 59.675 33.333 0.00 0.00 0.00 4.35
3243 3639 3.228188 TGGCAACTTTGGATTCTCAGT 57.772 42.857 0.00 0.00 37.61 3.41
3245 3641 4.072131 TGGCAACTTTGGATTCTCAGTAC 58.928 43.478 0.00 0.00 37.61 2.73
3250 3646 2.241281 TTGGATTCTCAGTACGGGGA 57.759 50.000 0.00 0.00 0.00 4.81
3253 3649 1.136500 GGATTCTCAGTACGGGGACAC 59.864 57.143 0.00 0.00 0.00 3.67
3254 3650 2.100989 GATTCTCAGTACGGGGACACT 58.899 52.381 0.00 0.00 0.00 3.55
3263 3659 2.710096 ACGGGGACACTGAATAATGG 57.290 50.000 0.00 0.00 0.00 3.16
3306 3708 7.985634 ATTGCATTTTATACGAATTCCACAC 57.014 32.000 0.00 0.00 0.00 3.82
3310 3712 7.867909 TGCATTTTATACGAATTCCACACAAAA 59.132 29.630 0.00 1.71 0.00 2.44
3311 3713 8.372521 GCATTTTATACGAATTCCACACAAAAG 58.627 33.333 0.00 0.00 0.00 2.27
3357 3759 6.481313 CAGAATCTCTGCGGATCAAAGAATTA 59.519 38.462 0.00 0.00 37.72 1.40
3386 3788 7.542025 AGATTTCTGTTGATTGGAAATAGCAC 58.458 34.615 0.00 0.00 39.02 4.40
3392 3795 7.828717 TCTGTTGATTGGAAATAGCACTTGATA 59.171 33.333 0.00 0.00 0.00 2.15
3401 3804 6.538742 GGAAATAGCACTTGATAGTAACAGCA 59.461 38.462 0.00 0.00 31.96 4.41
3484 3889 0.665068 TCATGGACACGAAACGACCG 60.665 55.000 0.00 0.00 0.00 4.79
3485 3890 0.665068 CATGGACACGAAACGACCGA 60.665 55.000 0.00 0.00 0.00 4.69
3541 3946 0.384725 CGTGCGCTTGTTCAAAGAGG 60.385 55.000 9.73 0.00 0.00 3.69
3550 3955 4.565652 GCTTGTTCAAAGAGGGAGGATACA 60.566 45.833 0.00 0.00 41.41 2.29
3566 3971 2.270352 TACAAATCCCATGGATCCGC 57.730 50.000 15.22 0.00 42.27 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.226330 AGTTGGAAAACGTAGCATGCA 58.774 42.857 21.98 2.77 0.00 3.96
1 2 2.989422 AGTTGGAAAACGTAGCATGC 57.011 45.000 10.51 10.51 0.00 4.06
2 3 7.567571 CATAGATAGTTGGAAAACGTAGCATG 58.432 38.462 0.00 0.00 0.00 4.06
3 4 6.202954 GCATAGATAGTTGGAAAACGTAGCAT 59.797 38.462 0.00 0.00 0.00 3.79
5 6 5.522460 TGCATAGATAGTTGGAAAACGTAGC 59.478 40.000 0.00 0.00 0.00 3.58
6 7 7.653713 AGATGCATAGATAGTTGGAAAACGTAG 59.346 37.037 0.00 0.00 0.00 3.51
7 8 7.497595 AGATGCATAGATAGTTGGAAAACGTA 58.502 34.615 0.00 0.00 0.00 3.57
8 9 6.349300 AGATGCATAGATAGTTGGAAAACGT 58.651 36.000 0.00 0.00 0.00 3.99
9 10 6.479990 TGAGATGCATAGATAGTTGGAAAACG 59.520 38.462 0.00 0.00 0.00 3.60
10 11 7.792374 TGAGATGCATAGATAGTTGGAAAAC 57.208 36.000 0.00 0.00 0.00 2.43
11 12 8.843262 CATTGAGATGCATAGATAGTTGGAAAA 58.157 33.333 0.00 0.00 0.00 2.29
12 13 7.446319 CCATTGAGATGCATAGATAGTTGGAAA 59.554 37.037 0.00 0.00 31.67 3.13
13 14 6.938596 CCATTGAGATGCATAGATAGTTGGAA 59.061 38.462 0.00 0.00 31.67 3.53
14 15 6.270695 TCCATTGAGATGCATAGATAGTTGGA 59.729 38.462 0.00 4.25 31.67 3.53
15 16 6.470278 TCCATTGAGATGCATAGATAGTTGG 58.530 40.000 0.00 1.77 31.67 3.77
16 17 9.315525 CTATCCATTGAGATGCATAGATAGTTG 57.684 37.037 0.00 0.00 36.51 3.16
17 18 9.264653 TCTATCCATTGAGATGCATAGATAGTT 57.735 33.333 0.00 0.00 37.86 2.24
18 19 8.835550 TCTATCCATTGAGATGCATAGATAGT 57.164 34.615 0.00 0.00 37.86 2.12
19 20 9.917129 GATCTATCCATTGAGATGCATAGATAG 57.083 37.037 11.05 7.50 46.53 2.08
20 21 9.657728 AGATCTATCCATTGAGATGCATAGATA 57.342 33.333 11.05 0.00 46.53 1.98
22 23 7.974730 AGATCTATCCATTGAGATGCATAGA 57.025 36.000 0.00 3.31 43.65 1.98
23 24 7.496263 CCAAGATCTATCCATTGAGATGCATAG 59.504 40.741 0.00 0.00 35.98 2.23
24 25 7.336396 CCAAGATCTATCCATTGAGATGCATA 58.664 38.462 0.00 0.00 32.47 3.14
25 26 6.181190 CCAAGATCTATCCATTGAGATGCAT 58.819 40.000 0.00 0.00 32.47 3.96
26 27 5.514310 CCCAAGATCTATCCATTGAGATGCA 60.514 44.000 0.00 0.00 32.47 3.96
27 28 4.942483 CCCAAGATCTATCCATTGAGATGC 59.058 45.833 0.00 0.00 32.47 3.91
28 29 5.938710 CACCCAAGATCTATCCATTGAGATG 59.061 44.000 0.00 0.00 32.47 2.90
29 30 5.610132 ACACCCAAGATCTATCCATTGAGAT 59.390 40.000 0.00 0.00 35.07 2.75
30 31 4.971282 ACACCCAAGATCTATCCATTGAGA 59.029 41.667 0.00 0.00 0.00 3.27
31 32 5.061853 CACACCCAAGATCTATCCATTGAG 58.938 45.833 0.00 0.00 0.00 3.02
32 33 4.686944 GCACACCCAAGATCTATCCATTGA 60.687 45.833 0.00 0.00 0.00 2.57
33 34 3.567164 GCACACCCAAGATCTATCCATTG 59.433 47.826 0.00 0.00 0.00 2.82
34 35 3.745480 CGCACACCCAAGATCTATCCATT 60.745 47.826 0.00 0.00 0.00 3.16
35 36 2.224378 CGCACACCCAAGATCTATCCAT 60.224 50.000 0.00 0.00 0.00 3.41
36 37 1.138859 CGCACACCCAAGATCTATCCA 59.861 52.381 0.00 0.00 0.00 3.41
37 38 1.139058 ACGCACACCCAAGATCTATCC 59.861 52.381 0.00 0.00 0.00 2.59
38 39 2.604046 ACGCACACCCAAGATCTATC 57.396 50.000 0.00 0.00 0.00 2.08
39 40 3.296854 TCTACGCACACCCAAGATCTAT 58.703 45.455 0.00 0.00 0.00 1.98
40 41 2.730382 TCTACGCACACCCAAGATCTA 58.270 47.619 0.00 0.00 0.00 1.98
41 42 1.557099 TCTACGCACACCCAAGATCT 58.443 50.000 0.00 0.00 0.00 2.75
42 43 2.380084 TTCTACGCACACCCAAGATC 57.620 50.000 0.00 0.00 0.00 2.75
43 44 2.851263 TTTCTACGCACACCCAAGAT 57.149 45.000 0.00 0.00 0.00 2.40
44 45 2.851263 ATTTCTACGCACACCCAAGA 57.149 45.000 0.00 0.00 0.00 3.02
45 46 3.915437 AAATTTCTACGCACACCCAAG 57.085 42.857 0.00 0.00 0.00 3.61
46 47 4.657436 AAAAATTTCTACGCACACCCAA 57.343 36.364 0.00 0.00 0.00 4.12
64 65 5.467063 GGGAACGTTGCATGGAAAATAAAAA 59.533 36.000 21.74 0.00 0.00 1.94
65 66 4.991687 GGGAACGTTGCATGGAAAATAAAA 59.008 37.500 21.74 0.00 0.00 1.52
66 67 4.561105 GGGAACGTTGCATGGAAAATAAA 58.439 39.130 21.74 0.00 0.00 1.40
67 68 3.056465 GGGGAACGTTGCATGGAAAATAA 60.056 43.478 21.74 0.00 0.00 1.40
68 69 2.494073 GGGGAACGTTGCATGGAAAATA 59.506 45.455 21.74 0.00 0.00 1.40
69 70 1.275010 GGGGAACGTTGCATGGAAAAT 59.725 47.619 21.74 0.00 0.00 1.82
70 71 0.676736 GGGGAACGTTGCATGGAAAA 59.323 50.000 21.74 0.00 0.00 2.29
71 72 0.468214 TGGGGAACGTTGCATGGAAA 60.468 50.000 21.74 0.00 0.00 3.13
72 73 0.468214 TTGGGGAACGTTGCATGGAA 60.468 50.000 21.74 0.00 0.00 3.53
73 74 1.151679 TTGGGGAACGTTGCATGGA 59.848 52.632 21.74 1.39 0.00 3.41
74 75 1.288752 GTTGGGGAACGTTGCATGG 59.711 57.895 21.74 0.00 0.00 3.66
75 76 0.039256 CTGTTGGGGAACGTTGCATG 60.039 55.000 21.74 0.94 0.00 4.06
76 77 0.467290 ACTGTTGGGGAACGTTGCAT 60.467 50.000 21.74 0.00 0.00 3.96
77 78 1.077357 ACTGTTGGGGAACGTTGCA 60.077 52.632 21.74 0.00 0.00 4.08
78 79 1.652563 GACTGTTGGGGAACGTTGC 59.347 57.895 11.85 11.85 0.00 4.17
79 80 0.531090 TCGACTGTTGGGGAACGTTG 60.531 55.000 5.00 0.00 0.00 4.10
80 81 0.531311 GTCGACTGTTGGGGAACGTT 60.531 55.000 8.70 0.00 0.00 3.99
81 82 1.068585 GTCGACTGTTGGGGAACGT 59.931 57.895 8.70 0.00 0.00 3.99
82 83 1.068417 TGTCGACTGTTGGGGAACG 59.932 57.895 17.92 0.00 0.00 3.95
83 84 0.179067 TGTGTCGACTGTTGGGGAAC 60.179 55.000 17.92 3.50 0.00 3.62
84 85 0.542333 TTGTGTCGACTGTTGGGGAA 59.458 50.000 17.92 0.00 0.00 3.97
85 86 0.105964 CTTGTGTCGACTGTTGGGGA 59.894 55.000 17.92 0.00 0.00 4.81
86 87 0.105964 TCTTGTGTCGACTGTTGGGG 59.894 55.000 17.92 1.08 0.00 4.96
87 88 1.948104 TTCTTGTGTCGACTGTTGGG 58.052 50.000 17.92 2.62 0.00 4.12
88 89 3.130633 TCATTCTTGTGTCGACTGTTGG 58.869 45.455 17.92 3.67 0.00 3.77
89 90 4.433413 CGATCATTCTTGTGTCGACTGTTG 60.433 45.833 17.92 5.09 35.55 3.33
90 91 3.675225 CGATCATTCTTGTGTCGACTGTT 59.325 43.478 17.92 0.00 35.55 3.16
91 92 3.245797 CGATCATTCTTGTGTCGACTGT 58.754 45.455 17.92 0.00 35.55 3.55
92 93 3.059966 CACGATCATTCTTGTGTCGACTG 59.940 47.826 17.92 4.70 36.38 3.51
93 94 3.245797 CACGATCATTCTTGTGTCGACT 58.754 45.455 17.92 0.00 36.38 4.18
96 97 1.726248 TGCACGATCATTCTTGTGTCG 59.274 47.619 0.00 0.00 37.75 4.35
100 101 2.095768 CGGTTTGCACGATCATTCTTGT 60.096 45.455 0.00 0.00 0.00 3.16
121 122 2.544267 GGTGCAATATCTTGTAGCGGAC 59.456 50.000 0.00 0.00 36.11 4.79
135 136 2.559668 CACATCTTTCTGGTGGTGCAAT 59.440 45.455 0.00 0.00 0.00 3.56
143 144 1.004044 CCTCCAGCACATCTTTCTGGT 59.996 52.381 7.31 0.00 45.67 4.00
157 158 2.046892 CTTGTCCACCGCCTCCAG 60.047 66.667 0.00 0.00 0.00 3.86
256 257 1.125093 TTTCTGCCCTTCCAGACCGA 61.125 55.000 0.00 0.00 41.28 4.69
262 263 3.524095 TCTCAATTTTCTGCCCTTCCA 57.476 42.857 0.00 0.00 0.00 3.53
263 264 5.411831 AAATCTCAATTTTCTGCCCTTCC 57.588 39.130 0.00 0.00 30.79 3.46
278 279 7.707624 ATTTTAGTCCATGCAGAAAATCTCA 57.292 32.000 0.00 0.00 0.00 3.27
279 280 8.465201 AGAATTTTAGTCCATGCAGAAAATCTC 58.535 33.333 0.00 0.32 30.48 2.75
280 281 8.358582 AGAATTTTAGTCCATGCAGAAAATCT 57.641 30.769 0.00 0.00 30.48 2.40
281 282 8.465201 AGAGAATTTTAGTCCATGCAGAAAATC 58.535 33.333 0.00 0.00 30.48 2.17
292 293 6.434028 CCCAATCACAAGAGAATTTTAGTCCA 59.566 38.462 0.00 0.00 0.00 4.02
309 310 6.655078 ATTTACATGCCTAATCCCAATCAC 57.345 37.500 0.00 0.00 0.00 3.06
314 315 9.349713 CTTTAGTAATTTACATGCCTAATCCCA 57.650 33.333 9.15 0.00 0.00 4.37
315 316 8.297426 GCTTTAGTAATTTACATGCCTAATCCC 58.703 37.037 9.15 0.00 0.00 3.85
316 317 8.846211 TGCTTTAGTAATTTACATGCCTAATCC 58.154 33.333 9.15 0.00 0.00 3.01
321 322 8.840321 CAGTATGCTTTAGTAATTTACATGCCT 58.160 33.333 9.15 3.75 0.00 4.75
332 333 8.999431 CCAAAAAGAGACAGTATGCTTTAGTAA 58.001 33.333 0.00 0.00 42.53 2.24
333 334 8.154856 ACCAAAAAGAGACAGTATGCTTTAGTA 58.845 33.333 0.00 0.00 42.53 1.82
337 338 6.096846 ACAACCAAAAAGAGACAGTATGCTTT 59.903 34.615 0.00 0.00 42.53 3.51
347 348 4.611581 GCTCGATCACAACCAAAAAGAGAC 60.612 45.833 0.00 0.00 0.00 3.36
348 349 3.498397 GCTCGATCACAACCAAAAAGAGA 59.502 43.478 0.00 0.00 0.00 3.10
351 352 3.624326 TGCTCGATCACAACCAAAAAG 57.376 42.857 0.00 0.00 0.00 2.27
380 381 9.886132 AAATAAAAGTCTGATCCATAGTACGTT 57.114 29.630 0.00 0.00 0.00 3.99
381 382 9.314321 CAAATAAAAGTCTGATCCATAGTACGT 57.686 33.333 0.00 0.00 0.00 3.57
385 386 9.927081 AATCCAAATAAAAGTCTGATCCATAGT 57.073 29.630 0.00 0.00 0.00 2.12
408 409 8.949177 TCCGTTAGTAAAGGGTTATTTGAAATC 58.051 33.333 14.00 0.00 40.75 2.17
419 420 7.288389 TCATGTATATGTCCGTTAGTAAAGGGT 59.712 37.037 14.00 4.78 36.36 4.34
429 430 7.386059 TCAATGCTATCATGTATATGTCCGTT 58.614 34.615 0.00 0.00 35.73 4.44
454 455 1.002134 CAGACAGGAACCGGCCATT 60.002 57.895 0.00 0.00 0.00 3.16
463 464 1.134401 GGATCAATCCGCAGACAGGAA 60.134 52.381 0.00 0.00 41.69 3.36
464 465 0.465705 GGATCAATCCGCAGACAGGA 59.534 55.000 0.00 0.00 42.69 3.86
477 486 3.772572 TGATTACGGACAGAAGGGATCAA 59.227 43.478 0.00 0.00 0.00 2.57
484 493 7.327275 GCTTCTACATATGATTACGGACAGAAG 59.673 40.741 10.38 11.96 38.71 2.85
485 494 7.145985 GCTTCTACATATGATTACGGACAGAA 58.854 38.462 10.38 3.38 0.00 3.02
487 496 6.447162 TGCTTCTACATATGATTACGGACAG 58.553 40.000 10.38 0.00 0.00 3.51
497 506 8.995027 ACCCATAAATTTGCTTCTACATATGA 57.005 30.769 10.38 0.00 0.00 2.15
499 508 8.995027 TGACCCATAAATTTGCTTCTACATAT 57.005 30.769 0.00 0.00 0.00 1.78
500 509 7.013274 GCTGACCCATAAATTTGCTTCTACATA 59.987 37.037 0.00 0.00 0.00 2.29
505 514 3.129287 CGCTGACCCATAAATTTGCTTCT 59.871 43.478 0.00 0.00 0.00 2.85
507 516 2.825532 ACGCTGACCCATAAATTTGCTT 59.174 40.909 0.00 0.00 0.00 3.91
517 526 0.107508 CATCTCCAACGCTGACCCAT 60.108 55.000 0.00 0.00 0.00 4.00
518 527 1.296392 CATCTCCAACGCTGACCCA 59.704 57.895 0.00 0.00 0.00 4.51
526 535 1.533625 TTTCAAGGGCATCTCCAACG 58.466 50.000 0.00 0.00 36.21 4.10
530 539 2.216898 CTCGATTTCAAGGGCATCTCC 58.783 52.381 0.00 0.00 0.00 3.71
550 559 1.009829 CCAAACCATCGAGCTAGTGC 58.990 55.000 0.00 0.00 40.05 4.40
582 591 1.349688 TGGTAATCACGGGCAAGAAGT 59.650 47.619 0.00 0.00 0.00 3.01
583 592 2.107950 TGGTAATCACGGGCAAGAAG 57.892 50.000 0.00 0.00 0.00 2.85
592 601 9.611284 CCATGAACATTTATAATGGTAATCACG 57.389 33.333 0.00 0.00 34.35 4.35
630 898 8.861101 GGTTTTCATCATATACTATGTACTCGC 58.139 37.037 0.00 0.00 0.00 5.03
633 901 9.712305 GCAGGTTTTCATCATATACTATGTACT 57.288 33.333 0.00 0.00 0.00 2.73
634 902 9.489084 TGCAGGTTTTCATCATATACTATGTAC 57.511 33.333 0.00 0.00 0.00 2.90
636 904 8.432013 TCTGCAGGTTTTCATCATATACTATGT 58.568 33.333 15.13 0.00 0.00 2.29
638 906 8.654997 ACTCTGCAGGTTTTCATCATATACTAT 58.345 33.333 15.13 0.00 0.00 2.12
847 1120 4.515567 CCTATTTCTGTTTCTATTCCCGCC 59.484 45.833 0.00 0.00 0.00 6.13
856 1129 8.272173 TCGGGATATTTTCCTATTTCTGTTTCT 58.728 33.333 0.00 0.00 44.75 2.52
902 1175 1.682394 GGCGAGGGTTAGAGTGAGAGA 60.682 57.143 0.00 0.00 0.00 3.10
915 1188 3.411517 ACCAATGGAGGGCGAGGG 61.412 66.667 6.16 0.00 0.00 4.30
1002 1278 2.191908 GGTGTGGTCTGTGGTGCA 59.808 61.111 0.00 0.00 0.00 4.57
1145 1426 3.155167 CTCACCTCCGCCCTACCC 61.155 72.222 0.00 0.00 0.00 3.69
1263 1550 4.778143 GATCGGCCGCCACTGGTT 62.778 66.667 23.51 0.00 0.00 3.67
1294 1587 1.158466 TCCCTGAACTCTGGCTCCA 59.842 57.895 0.00 0.00 34.08 3.86
1481 1777 1.901085 GACCATGGCCGAGAACTCT 59.099 57.895 13.04 0.00 0.00 3.24
1538 1834 2.681778 CTCTCCCTGTGACCCGCT 60.682 66.667 0.00 0.00 0.00 5.52
1544 1840 2.117423 TCCACGCTCTCCCTGTGA 59.883 61.111 0.00 0.00 35.66 3.58
1588 1884 0.821711 CTCCTCCTCGCCGATTCTCT 60.822 60.000 0.00 0.00 0.00 3.10
1592 1888 2.443016 AGCTCCTCCTCGCCGATT 60.443 61.111 0.00 0.00 0.00 3.34
1982 2284 1.695893 CGGACGCATCACATCACACC 61.696 60.000 0.00 0.00 0.00 4.16
1989 2291 2.738139 CTGCACGGACGCATCACA 60.738 61.111 0.00 0.00 42.06 3.58
1990 2292 2.432456 TCTGCACGGACGCATCAC 60.432 61.111 0.00 0.00 42.06 3.06
1991 2293 2.125952 CTCTGCACGGACGCATCA 60.126 61.111 0.00 0.00 42.06 3.07
1992 2294 2.835701 TTCCTCTGCACGGACGCATC 62.836 60.000 0.00 0.00 42.06 3.91
1993 2295 2.842394 CTTCCTCTGCACGGACGCAT 62.842 60.000 0.00 0.00 42.06 4.73
1994 2296 3.573772 CTTCCTCTGCACGGACGCA 62.574 63.158 0.00 0.00 40.32 5.24
1995 2297 2.811317 CTTCCTCTGCACGGACGC 60.811 66.667 0.00 0.00 0.00 5.19
1999 2306 2.435586 CCAGCTTCCTCTGCACGG 60.436 66.667 0.00 0.00 32.87 4.94
2223 2538 2.442236 AATGGCGGGAAGTTGATCAT 57.558 45.000 0.00 0.00 0.00 2.45
2383 2709 3.250762 TCAAACACGAGAAATGCAGAAGG 59.749 43.478 0.00 0.00 0.00 3.46
2531 2862 5.819901 TCTTGTTCATATTGACACACACACA 59.180 36.000 0.00 0.00 0.00 3.72
2532 2863 6.299023 TCTTGTTCATATTGACACACACAC 57.701 37.500 0.00 0.00 0.00 3.82
2533 2864 8.667463 CATATCTTGTTCATATTGACACACACA 58.333 33.333 0.00 0.00 0.00 3.72
2534 2865 7.641411 GCATATCTTGTTCATATTGACACACAC 59.359 37.037 0.00 0.00 0.00 3.82
2611 2949 6.122277 ACACGGATGAACATTAGAAATCCAT 58.878 36.000 0.00 0.00 37.28 3.41
2613 2951 5.584649 TGACACGGATGAACATTAGAAATCC 59.415 40.000 0.00 0.00 34.63 3.01
2655 2995 2.106511 TGTTGGGGGACAGAGAAAGAAG 59.893 50.000 0.00 0.00 0.00 2.85
2700 3058 6.017605 AGTGTTGTTAGTTGAGCATTGAAGAG 60.018 38.462 0.00 0.00 0.00 2.85
2740 3098 4.167892 TCATAATTACACTGGGCCTCCAAT 59.832 41.667 4.53 0.00 43.51 3.16
2757 3115 7.383300 GTCAAAACAAAAGCAGCTCTTCATAAT 59.617 33.333 0.00 0.00 32.88 1.28
2759 3117 6.039717 AGTCAAAACAAAAGCAGCTCTTCATA 59.960 34.615 0.00 0.00 32.88 2.15
2768 3126 6.324819 TCTTCAGAAGTCAAAACAAAAGCAG 58.675 36.000 10.09 0.00 0.00 4.24
2794 3152 7.868415 ACTGATTGTTTGACTACTCTTCTGTAC 59.132 37.037 0.00 0.00 0.00 2.90
2797 3155 8.818141 TTACTGATTGTTTGACTACTCTTCTG 57.182 34.615 0.00 0.00 0.00 3.02
2839 3197 4.612264 AGGCGGAAAACTCAGTTTAGTA 57.388 40.909 2.38 0.00 34.43 1.82
2840 3198 3.487120 AGGCGGAAAACTCAGTTTAGT 57.513 42.857 2.38 0.00 34.43 2.24
2841 3199 3.813166 TCAAGGCGGAAAACTCAGTTTAG 59.187 43.478 2.38 0.00 34.43 1.85
2944 3302 2.202810 GGACTAGCTCGCCACTGC 60.203 66.667 0.00 0.00 0.00 4.40
2982 3340 1.616187 CCCCAGACTCTCACCTCGTTA 60.616 57.143 0.00 0.00 0.00 3.18
3014 3403 2.485038 TGTGTTATGTGTGCTGCATGAG 59.515 45.455 5.27 0.00 0.00 2.90
3073 3462 0.246757 CTACGCGCGACAAACACATC 60.247 55.000 39.36 0.00 0.00 3.06
3081 3470 0.096802 TTATCGAACTACGCGCGACA 59.903 50.000 39.36 22.28 42.26 4.35
3085 3474 2.097541 GGAACATTATCGAACTACGCGC 60.098 50.000 5.73 0.00 42.26 6.86
3243 3639 2.158871 GCCATTATTCAGTGTCCCCGTA 60.159 50.000 0.00 0.00 0.00 4.02
3245 3641 1.308998 GCCATTATTCAGTGTCCCCG 58.691 55.000 0.00 0.00 0.00 5.73
3250 3646 2.009774 GCGAGTGCCATTATTCAGTGT 58.990 47.619 0.00 0.00 33.98 3.55
3263 3659 4.618489 GCAATATATGAAATTGGCGAGTGC 59.382 41.667 0.00 0.00 41.71 4.40
3283 3685 6.914259 TGTGTGGAATTCGTATAAAATGCAA 58.086 32.000 0.00 0.00 0.00 4.08
3285 3687 7.804614 TTTGTGTGGAATTCGTATAAAATGC 57.195 32.000 0.00 0.00 0.00 3.56
3306 3708 9.159470 GTTCTTTCTTATCGAACTGAACTTTTG 57.841 33.333 0.00 0.00 39.57 2.44
3310 3712 7.434492 TCTGTTCTTTCTTATCGAACTGAACT 58.566 34.615 14.73 0.00 41.24 3.01
3311 3713 7.639162 TCTGTTCTTTCTTATCGAACTGAAC 57.361 36.000 0.00 0.00 40.34 3.18
3374 3776 7.065803 GCTGTTACTATCAAGTGCTATTTCCAA 59.934 37.037 0.00 0.00 36.36 3.53
3384 3786 4.034858 CAGGCATGCTGTTACTATCAAGTG 59.965 45.833 18.92 0.00 36.36 3.16
3386 3788 4.034858 CACAGGCATGCTGTTACTATCAAG 59.965 45.833 18.92 1.65 31.99 3.02
3392 3795 2.559785 GCACAGGCATGCTGTTACT 58.440 52.632 18.92 2.16 42.62 2.24
3444 3847 4.759893 TGGTATGCCATGCAAGCA 57.240 50.000 16.14 16.14 43.62 3.91
3484 3889 0.935898 CTGATCCAGCATTGACGCTC 59.064 55.000 0.00 0.00 41.38 5.03
3485 3890 0.538584 TCTGATCCAGCATTGACGCT 59.461 50.000 0.00 0.00 45.21 5.07


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

AutoCloner maintained by Alex Coulton.