Multiple sequence alignment - TraesCS6B01G083700

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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 TraesCS6B01G083700 chr6B 100.000 2810 0 0 1 2810 60630909 60633718 0.000000e+00 5190.0
1 TraesCS6B01G083700 chr6B 95.648 1080 20 9 695 1764 60657107 60658169 0.000000e+00 1709.0
2 TraesCS6B01G083700 chr6B 96.207 870 27 4 691 1555 60614902 60615770 0.000000e+00 1419.0
3 TraesCS6B01G083700 chr6B 97.257 802 9 1 962 1763 60623134 60623922 0.000000e+00 1347.0
4 TraesCS6B01G083700 chr6B 88.128 438 37 4 746 1181 59829585 59829161 8.980000e-140 507.0
5 TraesCS6B01G083700 chr6B 85.256 468 46 11 1904 2352 59828357 59827894 7.090000e-126 460.0
6 TraesCS6B01G083700 chr6B 86.493 422 47 5 1217 1632 59828867 59828450 3.300000e-124 455.0
7 TraesCS6B01G083700 chr6B 97.581 248 6 0 1897 2144 60658158 60658405 2.590000e-115 425.0
8 TraesCS6B01G083700 chr6B 94.118 272 13 2 2541 2810 60624321 60624591 7.240000e-111 411.0
9 TraesCS6B01G083700 chr6B 94.096 271 15 1 2541 2810 60658572 60658842 7.240000e-111 411.0
10 TraesCS6B01G083700 chr6B 94.318 264 14 1 1897 2160 60623912 60624174 1.210000e-108 403.0
11 TraesCS6B01G083700 chr6B 92.963 270 17 2 326 594 207461895 207462163 2.620000e-105 392.0
12 TraesCS6B01G083700 chr6B 92.364 275 21 0 329 603 499154196 499153922 2.620000e-105 392.0
13 TraesCS6B01G083700 chr6B 74.234 1044 218 35 747 1752 60593805 60594835 9.440000e-105 390.0
14 TraesCS6B01G083700 chr6B 87.500 280 31 4 1 279 60656477 60656753 1.260000e-83 320.0
15 TraesCS6B01G083700 chr6B 85.526 228 29 2 750 976 75268468 75268244 4.680000e-58 235.0
16 TraesCS6B01G083700 chr6B 94.000 100 4 1 2403 2502 60624225 60624322 1.740000e-32 150.0
17 TraesCS6B01G083700 chr6B 93.000 100 5 1 2403 2502 60658476 60658573 8.110000e-31 145.0
18 TraesCS6B01G083700 chr6B 92.771 83 4 1 691 773 59731180 59731100 4.920000e-23 119.0
19 TraesCS6B01G083700 chr6D 95.455 1078 43 3 691 1764 29094674 29093599 0.000000e+00 1714.0
20 TraesCS6B01G083700 chr6D 94.776 268 8 3 1899 2160 29093609 29093342 2.010000e-111 412.0
21 TraesCS6B01G083700 chr6D 93.431 274 14 1 2541 2810 29093196 29092923 1.210000e-108 403.0
22 TraesCS6B01G083700 chr6D 72.979 977 222 34 762 1709 29194757 29195720 1.260000e-78 303.0
23 TraesCS6B01G083700 chr6D 84.277 318 40 7 1 316 29095150 29094841 4.550000e-78 302.0
24 TraesCS6B01G083700 chr6D 90.722 97 7 1 2406 2502 29093289 29093195 8.170000e-26 128.0
25 TraesCS6B01G083700 chr6D 87.059 85 9 2 602 686 29094803 29094721 8.290000e-16 95.3
26 TraesCS6B01G083700 chr6A 94.717 1079 52 2 691 1764 33529825 33530903 0.000000e+00 1672.0
27 TraesCS6B01G083700 chr6A 87.356 1044 122 9 726 1764 33404208 33405246 0.000000e+00 1188.0
28 TraesCS6B01G083700 chr6A 85.207 676 91 6 1095 1764 33305579 33306251 0.000000e+00 686.0
29 TraesCS6B01G083700 chr6A 87.104 473 37 8 1901 2352 33405239 33405708 5.370000e-142 514.0
30 TraesCS6B01G083700 chr6A 91.690 361 28 1 2452 2810 33307447 33307807 1.500000e-137 499.0
31 TraesCS6B01G083700 chr6A 84.527 433 44 12 691 1103 33304240 33304669 9.370000e-110 407.0
32 TraesCS6B01G083700 chr6A 87.791 344 42 0 1421 1764 33016652 33016309 1.210000e-108 403.0
33 TraesCS6B01G083700 chr6A 93.985 266 14 2 1896 2160 33530890 33531154 4.360000e-108 401.0
34 TraesCS6B01G083700 chr6A 93.066 274 15 2 2541 2810 33531301 33531574 5.640000e-107 398.0
35 TraesCS6B01G083700 chr6A 89.399 283 29 1 2522 2803 33410136 33410418 3.440000e-94 355.0
36 TraesCS6B01G083700 chr6A 89.161 286 26 3 1901 2184 33306244 33306526 4.450000e-93 351.0
37 TraesCS6B01G083700 chr6A 81.136 440 72 9 747 1180 33255151 33255585 2.680000e-90 342.0
38 TraesCS6B01G083700 chr6A 84.112 321 42 7 1 319 33529352 33529665 4.550000e-78 302.0
39 TraesCS6B01G083700 chr6A 84.229 279 42 2 1 278 33303730 33304007 1.280000e-68 270.0
40 TraesCS6B01G083700 chr6A 100.000 136 0 0 1764 1899 106697784 106697649 4.650000e-63 252.0
41 TraesCS6B01G083700 chr6A 98.561 139 2 0 1765 1903 473842557 473842695 2.160000e-61 246.0
42 TraesCS6B01G083700 chr6A 93.548 124 8 0 2229 2352 33015650 33015527 4.780000e-43 185.0
43 TraesCS6B01G083700 chr6A 89.167 120 13 0 2403 2522 33406459 33406578 1.740000e-32 150.0
44 TraesCS6B01G083700 chr6A 94.000 100 4 1 2403 2502 33531205 33531302 1.740000e-32 150.0
45 TraesCS6B01G083700 chr6A 91.358 81 7 0 602 682 33529705 33529785 8.230000e-21 111.0
46 TraesCS6B01G083700 chr2B 93.818 275 17 0 329 603 133123228 133122954 5.600000e-112 414.0
47 TraesCS6B01G083700 chr2B 93.190 279 19 0 327 605 339116051 339116329 7.240000e-111 411.0
48 TraesCS6B01G083700 chr7B 93.214 280 19 0 326 605 706164667 706164946 2.010000e-111 412.0
49 TraesCS6B01G083700 chr7B 92.086 278 22 0 329 606 185923422 185923145 2.620000e-105 392.0
50 TraesCS6B01G083700 chr7B 100.000 137 0 0 1763 1899 7237500 7237636 1.290000e-63 254.0
51 TraesCS6B01G083700 chr3B 93.773 273 17 0 331 603 538630908 538630636 7.240000e-111 411.0
52 TraesCS6B01G083700 chr3B 91.003 289 25 1 318 605 565363002 565362714 3.390000e-104 388.0
53 TraesCS6B01G083700 chr3B 100.000 135 0 0 1765 1899 489366250 489366384 1.670000e-62 250.0
54 TraesCS6B01G083700 chr1B 92.500 280 21 0 326 605 510294838 510295117 4.360000e-108 401.0
55 TraesCS6B01G083700 chr1B 97.619 42 1 0 2403 2444 34206859 34206818 3.880000e-09 73.1
56 TraesCS6B01G083700 chrUn 79.008 524 89 19 748 1260 112648923 112649436 3.470000e-89 339.0
57 TraesCS6B01G083700 chr5B 100.000 136 0 0 1764 1899 73827478 73827343 4.650000e-63 252.0
58 TraesCS6B01G083700 chr5A 100.000 136 0 0 1764 1899 582620878 582620743 4.650000e-63 252.0
59 TraesCS6B01G083700 chr5A 99.275 138 1 0 1763 1900 428253843 428253706 1.670000e-62 250.0
60 TraesCS6B01G083700 chr4A 100.000 136 0 0 1764 1899 709216421 709216556 4.650000e-63 252.0
61 TraesCS6B01G083700 chr1A 100.000 136 0 0 1764 1899 551482044 551481909 4.650000e-63 252.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G083700 chr6B 60630909 60633718 2809 False 5190.000000 5190 100.000000 1 2810 1 chr6B.!!$F3 2809
1 TraesCS6B01G083700 chr6B 60614902 60615770 868 False 1419.000000 1419 96.207000 691 1555 1 chr6B.!!$F2 864
2 TraesCS6B01G083700 chr6B 60656477 60658842 2365 False 602.000000 1709 93.565000 1 2810 5 chr6B.!!$F6 2809
3 TraesCS6B01G083700 chr6B 60623134 60624591 1457 False 577.750000 1347 94.923250 962 2810 4 chr6B.!!$F5 1848
4 TraesCS6B01G083700 chr6B 59827894 59829585 1691 True 474.000000 507 86.625667 746 2352 3 chr6B.!!$R4 1606
5 TraesCS6B01G083700 chr6B 60593805 60594835 1030 False 390.000000 390 74.234000 747 1752 1 chr6B.!!$F1 1005
6 TraesCS6B01G083700 chr6D 29092923 29095150 2227 True 509.050000 1714 90.953333 1 2810 6 chr6D.!!$R1 2809
7 TraesCS6B01G083700 chr6D 29194757 29195720 963 False 303.000000 303 72.979000 762 1709 1 chr6D.!!$F1 947
8 TraesCS6B01G083700 chr6A 33404208 33410418 6210 False 551.750000 1188 88.256500 726 2803 4 chr6A.!!$F4 2077
9 TraesCS6B01G083700 chr6A 33529352 33531574 2222 False 505.666667 1672 91.873000 1 2810 6 chr6A.!!$F5 2809
10 TraesCS6B01G083700 chr6A 33303730 33307807 4077 False 442.600000 686 86.962800 1 2810 5 chr6A.!!$F3 2809
11 TraesCS6B01G083700 chr6A 33015527 33016652 1125 True 294.000000 403 90.669500 1421 2352 2 chr6A.!!$R2 931
12 TraesCS6B01G083700 chrUn 112648923 112649436 513 False 339.000000 339 79.008000 748 1260 1 chrUn.!!$F1 512

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
686 958 0.114364 TCACTCTCAGGGCCTACACA 59.886 55.0 5.28 0.0 0.0 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1849 3423 0.034089 GCCATACCCTGCCTTTGAGT 60.034 55.0 0.0 0.0 0.0 3.41 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
148 152 7.862372 CAGTGTTACACAGAAAACAAATATGCT 59.138 33.333 18.19 0.00 37.35 3.79
162 166 7.281040 ACAAATATGCTGATAATTGGACCTG 57.719 36.000 0.00 0.00 31.56 4.00
172 176 5.655974 TGATAATTGGACCTGCAATTTGCTA 59.344 36.000 21.19 7.91 45.31 3.49
260 265 6.731292 ACTCACCTACAAGATGCATATGTA 57.269 37.500 18.65 18.65 0.00 2.29
319 521 8.929746 TGCGTTAAATATGCATTCATTTTGAAA 58.070 25.926 3.54 0.00 43.72 2.69
325 527 8.454570 AATATGCATTCATTTTGAAATTCCCC 57.545 30.769 3.54 0.00 40.12 4.81
326 528 5.502089 TGCATTCATTTTGAAATTCCCCT 57.498 34.783 0.00 0.00 40.12 4.79
327 529 6.617782 TGCATTCATTTTGAAATTCCCCTA 57.382 33.333 0.00 0.00 40.12 3.53
328 530 7.013823 TGCATTCATTTTGAAATTCCCCTAA 57.986 32.000 0.00 0.00 40.12 2.69
329 531 7.104939 TGCATTCATTTTGAAATTCCCCTAAG 58.895 34.615 0.00 0.00 40.12 2.18
330 532 6.539826 GCATTCATTTTGAAATTCCCCTAAGG 59.460 38.462 0.00 0.00 40.12 2.69
331 533 5.675684 TCATTTTGAAATTCCCCTAAGGC 57.324 39.130 0.00 0.00 34.51 4.35
332 534 5.341169 TCATTTTGAAATTCCCCTAAGGCT 58.659 37.500 0.00 0.00 34.51 4.58
333 535 5.187576 TCATTTTGAAATTCCCCTAAGGCTG 59.812 40.000 0.00 0.00 34.51 4.85
334 536 2.826674 TGAAATTCCCCTAAGGCTGG 57.173 50.000 0.00 0.00 34.51 4.85
335 537 2.000048 TGAAATTCCCCTAAGGCTGGT 59.000 47.619 0.00 0.00 34.51 4.00
336 538 2.381961 TGAAATTCCCCTAAGGCTGGTT 59.618 45.455 0.00 0.00 34.51 3.67
337 539 2.532250 AATTCCCCTAAGGCTGGTTG 57.468 50.000 0.00 0.00 34.51 3.77
338 540 1.382914 ATTCCCCTAAGGCTGGTTGT 58.617 50.000 0.00 0.00 34.51 3.32
339 541 2.047769 TTCCCCTAAGGCTGGTTGTA 57.952 50.000 0.00 0.00 34.51 2.41
340 542 2.047769 TCCCCTAAGGCTGGTTGTAA 57.952 50.000 0.00 0.00 34.51 2.41
341 543 2.568979 TCCCCTAAGGCTGGTTGTAAT 58.431 47.619 0.00 0.00 34.51 1.89
342 544 2.241176 TCCCCTAAGGCTGGTTGTAATG 59.759 50.000 0.00 0.00 34.51 1.90
343 545 2.654863 CCCTAAGGCTGGTTGTAATGG 58.345 52.381 0.00 0.00 0.00 3.16
344 546 2.654863 CCTAAGGCTGGTTGTAATGGG 58.345 52.381 0.00 0.00 0.00 4.00
345 547 2.654863 CTAAGGCTGGTTGTAATGGGG 58.345 52.381 0.00 0.00 0.00 4.96
346 548 1.080638 AAGGCTGGTTGTAATGGGGA 58.919 50.000 0.00 0.00 0.00 4.81
347 549 0.625849 AGGCTGGTTGTAATGGGGAG 59.374 55.000 0.00 0.00 0.00 4.30
348 550 0.331616 GGCTGGTTGTAATGGGGAGT 59.668 55.000 0.00 0.00 0.00 3.85
349 551 1.562475 GGCTGGTTGTAATGGGGAGTA 59.438 52.381 0.00 0.00 0.00 2.59
350 552 2.174854 GGCTGGTTGTAATGGGGAGTAT 59.825 50.000 0.00 0.00 0.00 2.12
351 553 3.477530 GCTGGTTGTAATGGGGAGTATC 58.522 50.000 0.00 0.00 0.00 2.24
352 554 3.118038 GCTGGTTGTAATGGGGAGTATCA 60.118 47.826 0.00 0.00 36.25 2.15
353 555 4.446311 GCTGGTTGTAATGGGGAGTATCAT 60.446 45.833 0.00 0.00 36.25 2.45
354 556 5.221843 GCTGGTTGTAATGGGGAGTATCATA 60.222 44.000 0.00 0.00 36.25 2.15
355 557 6.522459 GCTGGTTGTAATGGGGAGTATCATAT 60.522 42.308 0.00 0.00 36.25 1.78
356 558 7.311046 GCTGGTTGTAATGGGGAGTATCATATA 60.311 40.741 0.00 0.00 36.25 0.86
357 559 7.913789 TGGTTGTAATGGGGAGTATCATATAC 58.086 38.462 0.00 0.00 36.25 1.47
358 560 7.737607 TGGTTGTAATGGGGAGTATCATATACT 59.262 37.037 0.00 0.00 36.25 2.12
359 561 9.263446 GGTTGTAATGGGGAGTATCATATACTA 57.737 37.037 0.00 0.00 36.25 1.82
367 569 9.868160 TGGGGAGTATCATATACTAGTATCATG 57.132 37.037 18.68 17.93 36.25 3.07
368 570 8.798402 GGGGAGTATCATATACTAGTATCATGC 58.202 40.741 18.68 12.34 36.25 4.06
369 571 9.355916 GGGAGTATCATATACTAGTATCATGCA 57.644 37.037 18.68 1.71 36.25 3.96
404 606 7.897864 AGTGTATGATACTACCTTCCTAATGC 58.102 38.462 4.03 0.00 0.00 3.56
405 607 7.730784 AGTGTATGATACTACCTTCCTAATGCT 59.269 37.037 4.03 0.00 0.00 3.79
406 608 8.368668 GTGTATGATACTACCTTCCTAATGCTT 58.631 37.037 4.03 0.00 0.00 3.91
407 609 9.596308 TGTATGATACTACCTTCCTAATGCTTA 57.404 33.333 4.03 0.00 0.00 3.09
409 611 8.728596 ATGATACTACCTTCCTAATGCTTAGT 57.271 34.615 0.00 0.00 0.00 2.24
410 612 9.824216 ATGATACTACCTTCCTAATGCTTAGTA 57.176 33.333 0.00 0.00 0.00 1.82
411 613 9.824216 TGATACTACCTTCCTAATGCTTAGTAT 57.176 33.333 0.00 0.00 35.14 2.12
413 615 9.824216 ATACTACCTTCCTAATGCTTAGTATCA 57.176 33.333 0.00 0.00 29.31 2.15
414 616 8.728596 ACTACCTTCCTAATGCTTAGTATCAT 57.271 34.615 0.00 0.00 0.00 2.45
415 617 9.824216 ACTACCTTCCTAATGCTTAGTATCATA 57.176 33.333 0.00 0.00 0.00 2.15
487 689 9.371136 AGTGTCATAGCATTTATTATGATACGG 57.629 33.333 12.51 0.00 45.38 4.02
488 690 9.151471 GTGTCATAGCATTTATTATGATACGGT 57.849 33.333 5.89 0.00 38.07 4.83
554 756 8.853077 TCTATGACACTTCATCAAAATTGTCT 57.147 30.769 8.09 0.00 41.87 3.41
555 757 9.942850 TCTATGACACTTCATCAAAATTGTCTA 57.057 29.630 8.09 0.00 41.87 2.59
559 761 9.681692 TGACACTTCATCAAAATTGTCTAATTG 57.318 29.630 8.09 0.00 38.75 2.32
560 762 9.132521 GACACTTCATCAAAATTGTCTAATTGG 57.867 33.333 0.00 0.00 36.46 3.16
561 763 7.599998 ACACTTCATCAAAATTGTCTAATTGGC 59.400 33.333 0.00 0.00 36.65 4.52
562 764 7.599621 CACTTCATCAAAATTGTCTAATTGGCA 59.400 33.333 0.00 0.00 36.65 4.92
563 765 8.316214 ACTTCATCAAAATTGTCTAATTGGCAT 58.684 29.630 0.00 0.00 36.65 4.40
564 766 8.481974 TTCATCAAAATTGTCTAATTGGCATG 57.518 30.769 0.00 0.00 36.65 4.06
565 767 6.535865 TCATCAAAATTGTCTAATTGGCATGC 59.464 34.615 9.90 9.90 36.65 4.06
566 768 5.791666 TCAAAATTGTCTAATTGGCATGCA 58.208 33.333 21.36 0.00 36.65 3.96
567 769 6.408035 TCAAAATTGTCTAATTGGCATGCAT 58.592 32.000 21.36 1.70 36.65 3.96
568 770 6.314152 TCAAAATTGTCTAATTGGCATGCATG 59.686 34.615 22.70 22.70 36.65 4.06
569 771 5.601583 AATTGTCTAATTGGCATGCATGA 57.398 34.783 30.64 10.12 35.26 3.07
570 772 5.801531 ATTGTCTAATTGGCATGCATGAT 57.198 34.783 30.64 12.15 0.00 2.45
571 773 6.904463 ATTGTCTAATTGGCATGCATGATA 57.096 33.333 30.64 14.66 0.00 2.15
572 774 5.694231 TGTCTAATTGGCATGCATGATAC 57.306 39.130 30.64 18.45 0.00 2.24
573 775 5.379187 TGTCTAATTGGCATGCATGATACT 58.621 37.500 30.64 11.76 0.00 2.12
574 776 6.532826 TGTCTAATTGGCATGCATGATACTA 58.467 36.000 30.64 15.48 0.00 1.82
575 777 6.997476 TGTCTAATTGGCATGCATGATACTAA 59.003 34.615 30.64 16.27 0.00 2.24
576 778 7.041167 TGTCTAATTGGCATGCATGATACTAAC 60.041 37.037 30.64 16.29 0.00 2.34
577 779 7.173907 GTCTAATTGGCATGCATGATACTAACT 59.826 37.037 30.64 9.23 0.00 2.24
578 780 8.374743 TCTAATTGGCATGCATGATACTAACTA 58.625 33.333 30.64 9.86 0.00 2.24
579 781 6.808008 ATTGGCATGCATGATACTAACTAC 57.192 37.500 30.64 7.92 0.00 2.73
580 782 4.306600 TGGCATGCATGATACTAACTACG 58.693 43.478 30.64 0.00 0.00 3.51
581 783 4.038642 TGGCATGCATGATACTAACTACGA 59.961 41.667 30.64 2.63 0.00 3.43
582 784 5.171476 GGCATGCATGATACTAACTACGAT 58.829 41.667 30.64 0.00 0.00 3.73
583 785 6.071616 TGGCATGCATGATACTAACTACGATA 60.072 38.462 30.64 0.00 0.00 2.92
584 786 6.253727 GGCATGCATGATACTAACTACGATAC 59.746 42.308 30.64 5.71 0.00 2.24
585 787 7.030165 GCATGCATGATACTAACTACGATACT 58.970 38.462 30.64 0.00 0.00 2.12
586 788 8.182227 GCATGCATGATACTAACTACGATACTA 58.818 37.037 30.64 0.00 0.00 1.82
587 789 9.491934 CATGCATGATACTAACTACGATACTAC 57.508 37.037 22.59 0.00 0.00 2.73
588 790 8.843885 TGCATGATACTAACTACGATACTACT 57.156 34.615 0.00 0.00 0.00 2.57
589 791 9.933723 TGCATGATACTAACTACGATACTACTA 57.066 33.333 0.00 0.00 0.00 1.82
600 802 9.618890 AACTACGATACTACTATTACAACCAGA 57.381 33.333 0.00 0.00 0.00 3.86
645 917 0.251742 TGGGCTTTCCAATGTCCAGG 60.252 55.000 0.00 0.00 43.84 4.45
654 926 2.109128 TCCAATGTCCAGGCCAGTTTTA 59.891 45.455 5.01 0.00 0.00 1.52
655 927 3.099141 CCAATGTCCAGGCCAGTTTTAT 58.901 45.455 5.01 0.00 0.00 1.40
676 948 2.227626 TGCTCTTCGTTCTCACTCTCAG 59.772 50.000 0.00 0.00 0.00 3.35
682 954 1.853963 GTTCTCACTCTCAGGGCCTA 58.146 55.000 5.28 0.00 0.00 3.93
686 958 0.114364 TCACTCTCAGGGCCTACACA 59.886 55.000 5.28 0.00 0.00 3.72
687 959 0.976641 CACTCTCAGGGCCTACACAA 59.023 55.000 5.28 0.00 0.00 3.33
688 960 1.347707 CACTCTCAGGGCCTACACAAA 59.652 52.381 5.28 0.00 0.00 2.83
693 1010 1.133637 TCAGGGCCTACACAAAAAGCA 60.134 47.619 5.28 0.00 0.00 3.91
712 1029 0.838987 ATAACCCACGTCCCACACCT 60.839 55.000 0.00 0.00 0.00 4.00
723 1040 1.630369 TCCCACACCTCATTCTTCTGG 59.370 52.381 0.00 0.00 0.00 3.86
850 1203 4.888325 CTCCTCCGCCTCCCCCAT 62.888 72.222 0.00 0.00 0.00 4.00
1181 2462 4.424566 CCAGCACCACATTGCCGC 62.425 66.667 0.00 0.00 44.14 6.53
1330 2874 2.472816 GTGTTTACTCGTCGGAAACCA 58.527 47.619 11.06 0.68 33.11 3.67
1392 2939 0.538118 ATGCTGCCCATTTTCGCATT 59.462 45.000 0.00 0.00 38.04 3.56
1433 2983 2.123511 TGTGCTGGTTGGGGGTTG 60.124 61.111 0.00 0.00 0.00 3.77
1692 3266 5.822519 TGAAATTGACAAGCTACTTCACTGT 59.177 36.000 0.00 0.00 0.00 3.55
1774 3348 2.088950 TTTTTGGACGGACGAGGATC 57.911 50.000 0.00 0.00 0.00 3.36
1775 3349 0.248289 TTTTGGACGGACGAGGATCC 59.752 55.000 2.48 2.48 35.16 3.36
1776 3350 1.610554 TTTGGACGGACGAGGATCCC 61.611 60.000 8.55 0.00 35.03 3.85
1777 3351 3.225061 GGACGGACGAGGATCCCC 61.225 72.222 8.55 0.79 35.03 4.81
1779 3353 2.442272 ACGGACGAGGATCCCCTG 60.442 66.667 8.55 0.45 44.53 4.45
1780 3354 3.917760 CGGACGAGGATCCCCTGC 61.918 72.222 8.55 0.00 44.53 4.85
1781 3355 3.551407 GGACGAGGATCCCCTGCC 61.551 72.222 8.55 1.52 44.53 4.85
1782 3356 3.917760 GACGAGGATCCCCTGCCG 61.918 72.222 8.55 7.30 44.53 5.69
1783 3357 4.779733 ACGAGGATCCCCTGCCGT 62.780 66.667 8.55 7.95 44.53 5.68
1784 3358 4.227134 CGAGGATCCCCTGCCGTG 62.227 72.222 8.55 0.00 44.53 4.94
1785 3359 3.866582 GAGGATCCCCTGCCGTGG 61.867 72.222 8.55 0.00 44.53 4.94
1802 3376 2.873797 GGCCAAGCCTACCTTTGAG 58.126 57.895 0.00 0.00 46.69 3.02
1803 3377 0.038310 GGCCAAGCCTACCTTTGAGT 59.962 55.000 0.00 0.00 46.69 3.41
1804 3378 1.454201 GCCAAGCCTACCTTTGAGTC 58.546 55.000 0.00 0.00 0.00 3.36
1805 3379 1.271379 GCCAAGCCTACCTTTGAGTCA 60.271 52.381 0.00 0.00 0.00 3.41
1806 3380 2.427506 CCAAGCCTACCTTTGAGTCAC 58.572 52.381 0.00 0.00 0.00 3.67
1807 3381 2.039084 CCAAGCCTACCTTTGAGTCACT 59.961 50.000 0.00 0.00 0.00 3.41
1808 3382 3.070018 CAAGCCTACCTTTGAGTCACTG 58.930 50.000 0.00 0.00 0.00 3.66
1809 3383 2.609747 AGCCTACCTTTGAGTCACTGA 58.390 47.619 0.00 0.00 0.00 3.41
1810 3384 2.300437 AGCCTACCTTTGAGTCACTGAC 59.700 50.000 0.38 0.38 0.00 3.51
1811 3385 2.037251 GCCTACCTTTGAGTCACTGACA 59.963 50.000 11.80 0.00 34.60 3.58
1812 3386 3.654414 CCTACCTTTGAGTCACTGACAC 58.346 50.000 11.80 5.84 34.60 3.67
1813 3387 3.069586 CCTACCTTTGAGTCACTGACACA 59.930 47.826 11.80 8.49 34.60 3.72
1814 3388 2.906354 ACCTTTGAGTCACTGACACAC 58.094 47.619 11.80 3.56 33.37 3.82
1815 3389 1.860950 CCTTTGAGTCACTGACACACG 59.139 52.381 11.80 5.33 33.37 4.49
1816 3390 1.860950 CTTTGAGTCACTGACACACGG 59.139 52.381 11.80 3.46 33.37 4.94
1817 3391 0.104120 TTGAGTCACTGACACACGGG 59.896 55.000 11.80 0.00 33.37 5.28
1818 3392 1.040893 TGAGTCACTGACACACGGGT 61.041 55.000 11.80 0.00 34.60 5.28
1819 3393 0.318784 GAGTCACTGACACACGGGTC 60.319 60.000 11.80 0.00 38.29 4.46
1820 3394 1.300697 GTCACTGACACACGGGTCC 60.301 63.158 4.17 0.00 36.97 4.46
1821 3395 2.030562 CACTGACACACGGGTCCC 59.969 66.667 0.00 0.00 36.97 4.46
1822 3396 2.445085 ACTGACACACGGGTCCCA 60.445 61.111 9.12 0.00 36.97 4.37
1823 3397 2.030562 CTGACACACGGGTCCCAC 59.969 66.667 9.12 0.00 36.97 4.61
1824 3398 2.764547 TGACACACGGGTCCCACA 60.765 61.111 9.12 0.00 36.97 4.17
1825 3399 2.318519 CTGACACACGGGTCCCACAA 62.319 60.000 9.12 0.00 36.97 3.33
1826 3400 1.153127 GACACACGGGTCCCACAAA 60.153 57.895 9.12 0.00 0.00 2.83
1827 3401 1.153046 ACACACGGGTCCCACAAAG 60.153 57.895 9.12 0.00 0.00 2.77
1828 3402 2.203294 ACACGGGTCCCACAAAGC 60.203 61.111 9.12 0.00 0.00 3.51
1829 3403 2.203280 CACGGGTCCCACAAAGCA 60.203 61.111 9.12 0.00 0.00 3.91
1830 3404 1.603455 CACGGGTCCCACAAAGCAT 60.603 57.895 9.12 0.00 0.00 3.79
1831 3405 1.603455 ACGGGTCCCACAAAGCATG 60.603 57.895 9.12 0.00 0.00 4.06
1832 3406 2.342650 CGGGTCCCACAAAGCATGG 61.343 63.158 9.12 0.00 36.94 3.66
1838 3412 2.604079 CACAAAGCATGGGGCCCA 60.604 61.111 30.97 30.97 46.50 5.36
1839 3413 2.604382 ACAAAGCATGGGGCCCAC 60.604 61.111 31.54 17.27 46.50 4.61
1840 3414 3.393106 CAAAGCATGGGGCCCACC 61.393 66.667 31.54 22.16 46.50 4.61
1841 3415 3.604133 AAAGCATGGGGCCCACCT 61.604 61.111 31.54 24.20 46.50 4.00
1842 3416 3.910784 AAAGCATGGGGCCCACCTG 62.911 63.158 31.54 24.79 46.50 4.00
1845 3419 3.660571 CATGGGGCCCACCTGTCA 61.661 66.667 31.54 11.89 35.80 3.58
1846 3420 3.341629 ATGGGGCCCACCTGTCAG 61.342 66.667 31.54 0.00 35.80 3.51
1847 3421 4.918360 TGGGGCCCACCTGTCAGT 62.918 66.667 24.76 0.00 40.03 3.41
1848 3422 4.351054 GGGGCCCACCTGTCAGTG 62.351 72.222 26.86 0.00 40.03 3.66
1849 3423 3.249189 GGGCCCACCTGTCAGTGA 61.249 66.667 19.95 0.00 40.34 3.41
1850 3424 2.032681 GGCCCACCTGTCAGTGAC 59.967 66.667 16.68 16.68 40.34 3.67
1851 3425 2.520536 GGCCCACCTGTCAGTGACT 61.521 63.158 23.29 1.01 40.34 3.41
1852 3426 1.004440 GCCCACCTGTCAGTGACTC 60.004 63.158 23.29 0.00 40.34 3.36
1853 3427 1.758440 GCCCACCTGTCAGTGACTCA 61.758 60.000 23.29 4.07 40.34 3.41
1854 3428 0.758734 CCCACCTGTCAGTGACTCAA 59.241 55.000 23.29 3.26 40.34 3.02
1855 3429 1.140852 CCCACCTGTCAGTGACTCAAA 59.859 52.381 23.29 2.89 40.34 2.69
1856 3430 2.487934 CCACCTGTCAGTGACTCAAAG 58.512 52.381 23.29 12.34 40.34 2.77
1857 3431 2.487934 CACCTGTCAGTGACTCAAAGG 58.512 52.381 23.29 21.72 40.34 3.11
1858 3432 1.202698 ACCTGTCAGTGACTCAAAGGC 60.203 52.381 23.29 0.00 33.15 4.35
1859 3433 1.202687 CCTGTCAGTGACTCAAAGGCA 60.203 52.381 23.29 0.38 33.15 4.75
1860 3434 2.141517 CTGTCAGTGACTCAAAGGCAG 58.858 52.381 23.29 6.76 30.96 4.85
1861 3435 1.202687 TGTCAGTGACTCAAAGGCAGG 60.203 52.381 23.29 0.00 30.96 4.85
1862 3436 0.397941 TCAGTGACTCAAAGGCAGGG 59.602 55.000 0.00 0.00 30.96 4.45
1863 3437 0.109342 CAGTGACTCAAAGGCAGGGT 59.891 55.000 0.00 0.00 30.96 4.34
1864 3438 1.347707 CAGTGACTCAAAGGCAGGGTA 59.652 52.381 0.00 0.00 30.96 3.69
1865 3439 2.026822 CAGTGACTCAAAGGCAGGGTAT 60.027 50.000 0.00 0.00 30.96 2.73
1866 3440 2.026822 AGTGACTCAAAGGCAGGGTATG 60.027 50.000 0.00 0.00 30.96 2.39
1867 3441 1.281867 TGACTCAAAGGCAGGGTATGG 59.718 52.381 0.00 0.00 0.00 2.74
1874 3448 3.255032 GCAGGGTATGGCAGGGAT 58.745 61.111 0.00 0.00 0.00 3.85
1875 3449 1.538666 GCAGGGTATGGCAGGGATT 59.461 57.895 0.00 0.00 0.00 3.01
1876 3450 0.825010 GCAGGGTATGGCAGGGATTG 60.825 60.000 0.00 0.00 0.00 2.67
1888 3462 2.089980 CAGGGATTGCAAAGTCAGAGG 58.910 52.381 1.71 0.00 0.00 3.69
1889 3463 1.988107 AGGGATTGCAAAGTCAGAGGA 59.012 47.619 1.71 0.00 0.00 3.71
1890 3464 2.579860 AGGGATTGCAAAGTCAGAGGAT 59.420 45.455 1.71 0.00 0.00 3.24
1891 3465 2.948315 GGGATTGCAAAGTCAGAGGATC 59.052 50.000 1.71 0.00 0.00 3.36
1892 3466 2.948315 GGATTGCAAAGTCAGAGGATCC 59.052 50.000 1.71 2.48 33.66 3.36
1893 3467 3.614092 GATTGCAAAGTCAGAGGATCCA 58.386 45.455 15.82 0.00 33.66 3.41
1894 3468 2.479566 TGCAAAGTCAGAGGATCCAC 57.520 50.000 15.82 8.01 33.66 4.02
1895 3469 1.338105 TGCAAAGTCAGAGGATCCACG 60.338 52.381 15.82 4.66 33.66 4.94
1896 3470 1.338200 GCAAAGTCAGAGGATCCACGT 60.338 52.381 15.82 0.00 33.66 4.49
1897 3471 2.611518 CAAAGTCAGAGGATCCACGTC 58.388 52.381 15.82 2.55 33.66 4.34
1898 3472 1.187087 AAGTCAGAGGATCCACGTCC 58.813 55.000 15.82 0.79 38.62 4.79
1905 3479 2.200373 AGGATCCACGTCCTTTTTGG 57.800 50.000 15.82 0.00 46.45 3.28
1906 3480 1.702957 AGGATCCACGTCCTTTTTGGA 59.297 47.619 15.82 0.00 46.45 3.53
2191 3787 1.532868 GTGATGCTGTTCTCACGCTTT 59.467 47.619 0.00 0.00 33.14 3.51
2306 4312 5.125417 TGGCCTAATGTTAACTTCATTCTGC 59.875 40.000 3.32 5.15 36.92 4.26
2312 4318 7.878477 AATGTTAACTTCATTCTGCAATGTG 57.122 32.000 7.22 0.00 40.47 3.21
2334 4340 3.005897 GTGTGGTTCAAGTCAGAGCTAGA 59.994 47.826 0.00 0.00 0.00 2.43
2449 5251 2.092212 AGGATACCCATTTGCACCTCTG 60.092 50.000 0.00 0.00 33.88 3.35
2469 5271 1.953686 GCTGAGGAGCTACTAGTCCTG 59.046 57.143 0.00 0.00 43.65 3.86
2492 5294 7.230849 TGGTGTGCATCTTCTTCATTTTTAT 57.769 32.000 0.00 0.00 0.00 1.40
2562 8922 8.893727 CAGTAGATCCGGTTTCATTTATCTTTT 58.106 33.333 0.00 0.00 0.00 2.27
2573 8933 6.024552 TCATTTATCTTTTCCTGGTGTTGC 57.975 37.500 0.00 0.00 0.00 4.17
2576 8936 2.452600 TCTTTTCCTGGTGTTGCCTT 57.547 45.000 0.00 0.00 38.35 4.35
2647 9012 1.569479 GCCTCCTCGTGTCTGTTTGC 61.569 60.000 0.00 0.00 0.00 3.68
2659 9024 2.935849 GTCTGTTTGCCTTTTTGTTGGG 59.064 45.455 0.00 0.00 0.00 4.12
2704 9069 4.637534 TGTATGCTTGCAGAAAGAGGAATC 59.362 41.667 0.87 0.00 38.24 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
123 127 7.862372 CAGCATATTTGTTTTCTGTGTAACACT 59.138 33.333 0.00 0.00 45.67 3.55
148 152 4.757594 GCAAATTGCAGGTCCAATTATCA 58.242 39.130 13.73 0.00 42.78 2.15
176 181 2.087344 GCTAGAAAAAGCGGACCCG 58.913 57.895 3.73 3.73 43.09 5.28
190 195 6.124088 AGAATACCTTCATTTTTGCGCTAG 57.876 37.500 9.73 0.00 33.56 3.42
234 239 6.986817 ACATATGCATCTTGTAGGTGAGTTAC 59.013 38.462 0.19 0.00 0.00 2.50
270 276 3.007979 CGCACACACGCCTATATTCTA 57.992 47.619 0.00 0.00 0.00 2.10
271 277 1.852942 CGCACACACGCCTATATTCT 58.147 50.000 0.00 0.00 0.00 2.40
281 450 2.756374 TTAACGCATGCGCACACACG 62.756 55.000 38.15 16.94 44.19 4.49
319 521 1.382914 ACAACCAGCCTTAGGGGAAT 58.617 50.000 0.00 0.00 37.23 3.01
325 527 2.241176 TCCCCATTACAACCAGCCTTAG 59.759 50.000 0.00 0.00 0.00 2.18
326 528 2.241176 CTCCCCATTACAACCAGCCTTA 59.759 50.000 0.00 0.00 0.00 2.69
327 529 1.005924 CTCCCCATTACAACCAGCCTT 59.994 52.381 0.00 0.00 0.00 4.35
328 530 0.625849 CTCCCCATTACAACCAGCCT 59.374 55.000 0.00 0.00 0.00 4.58
329 531 0.331616 ACTCCCCATTACAACCAGCC 59.668 55.000 0.00 0.00 0.00 4.85
330 532 3.118038 TGATACTCCCCATTACAACCAGC 60.118 47.826 0.00 0.00 0.00 4.85
331 533 4.771114 TGATACTCCCCATTACAACCAG 57.229 45.455 0.00 0.00 0.00 4.00
332 534 7.737607 AGTATATGATACTCCCCATTACAACCA 59.262 37.037 0.00 0.00 0.00 3.67
333 535 8.147244 AGTATATGATACTCCCCATTACAACC 57.853 38.462 0.00 0.00 0.00 3.77
341 543 9.868160 CATGATACTAGTATATGATACTCCCCA 57.132 37.037 15.42 5.35 0.00 4.96
342 544 8.798402 GCATGATACTAGTATATGATACTCCCC 58.202 40.741 22.89 8.64 0.00 4.81
343 545 9.355916 TGCATGATACTAGTATATGATACTCCC 57.644 37.037 22.89 9.00 0.00 4.30
378 580 9.021807 GCATTAGGAAGGTAGTATCATACACTA 57.978 37.037 0.00 0.00 0.00 2.74
379 581 7.730784 AGCATTAGGAAGGTAGTATCATACACT 59.269 37.037 0.00 0.00 0.00 3.55
380 582 7.897864 AGCATTAGGAAGGTAGTATCATACAC 58.102 38.462 0.00 0.00 0.00 2.90
381 583 8.492415 AAGCATTAGGAAGGTAGTATCATACA 57.508 34.615 0.00 0.00 0.00 2.29
461 663 9.371136 CCGTATCATAATAAATGCTATGACACT 57.629 33.333 0.00 0.00 37.36 3.55
462 664 9.151471 ACCGTATCATAATAAATGCTATGACAC 57.849 33.333 0.00 0.00 37.36 3.67
535 737 7.599998 GCCAATTAGACAATTTTGATGAAGTGT 59.400 33.333 0.00 0.00 40.15 3.55
536 738 7.599621 TGCCAATTAGACAATTTTGATGAAGTG 59.400 33.333 0.00 0.00 31.82 3.16
537 739 7.669427 TGCCAATTAGACAATTTTGATGAAGT 58.331 30.769 0.00 0.00 31.82 3.01
538 740 8.600625 CATGCCAATTAGACAATTTTGATGAAG 58.399 33.333 0.00 0.00 31.82 3.02
539 741 7.064847 GCATGCCAATTAGACAATTTTGATGAA 59.935 33.333 6.36 0.00 31.82 2.57
540 742 6.535865 GCATGCCAATTAGACAATTTTGATGA 59.464 34.615 6.36 0.00 31.82 2.92
541 743 6.314152 TGCATGCCAATTAGACAATTTTGATG 59.686 34.615 16.68 0.00 31.82 3.07
542 744 6.408035 TGCATGCCAATTAGACAATTTTGAT 58.592 32.000 16.68 0.00 31.82 2.57
543 745 5.791666 TGCATGCCAATTAGACAATTTTGA 58.208 33.333 16.68 0.00 31.82 2.69
544 746 6.314152 TCATGCATGCCAATTAGACAATTTTG 59.686 34.615 22.25 0.00 31.82 2.44
545 747 6.408035 TCATGCATGCCAATTAGACAATTTT 58.592 32.000 22.25 0.00 31.82 1.82
546 748 5.979993 TCATGCATGCCAATTAGACAATTT 58.020 33.333 22.25 0.00 31.82 1.82
547 749 5.601583 TCATGCATGCCAATTAGACAATT 57.398 34.783 22.25 0.00 34.60 2.32
548 750 5.801531 ATCATGCATGCCAATTAGACAAT 57.198 34.783 22.25 2.58 0.00 2.71
549 751 5.829391 AGTATCATGCATGCCAATTAGACAA 59.171 36.000 22.25 0.00 0.00 3.18
550 752 5.379187 AGTATCATGCATGCCAATTAGACA 58.621 37.500 22.25 0.53 0.00 3.41
551 753 5.954296 AGTATCATGCATGCCAATTAGAC 57.046 39.130 22.25 10.78 0.00 2.59
552 754 7.226441 AGTTAGTATCATGCATGCCAATTAGA 58.774 34.615 22.25 2.12 0.00 2.10
553 755 7.444629 AGTTAGTATCATGCATGCCAATTAG 57.555 36.000 22.25 0.00 0.00 1.73
554 756 7.117667 CGTAGTTAGTATCATGCATGCCAATTA 59.882 37.037 22.25 3.72 0.00 1.40
555 757 6.073058 CGTAGTTAGTATCATGCATGCCAATT 60.073 38.462 22.25 8.61 0.00 2.32
556 758 5.409520 CGTAGTTAGTATCATGCATGCCAAT 59.590 40.000 22.25 12.74 0.00 3.16
557 759 4.749598 CGTAGTTAGTATCATGCATGCCAA 59.250 41.667 22.25 5.34 0.00 4.52
558 760 4.038642 TCGTAGTTAGTATCATGCATGCCA 59.961 41.667 22.25 8.84 0.00 4.92
559 761 4.556233 TCGTAGTTAGTATCATGCATGCC 58.444 43.478 22.25 11.72 0.00 4.40
560 762 7.030165 AGTATCGTAGTTAGTATCATGCATGC 58.970 38.462 22.25 11.82 0.00 4.06
561 763 9.491934 GTAGTATCGTAGTTAGTATCATGCATG 57.508 37.037 21.07 21.07 0.00 4.06
562 764 9.451002 AGTAGTATCGTAGTTAGTATCATGCAT 57.549 33.333 0.00 0.00 0.00 3.96
563 765 8.843885 AGTAGTATCGTAGTTAGTATCATGCA 57.156 34.615 0.00 0.00 0.00 3.96
574 776 9.618890 TCTGGTTGTAATAGTAGTATCGTAGTT 57.381 33.333 0.00 0.00 0.00 2.24
575 777 9.050601 GTCTGGTTGTAATAGTAGTATCGTAGT 57.949 37.037 0.00 0.00 0.00 2.73
576 778 9.270640 AGTCTGGTTGTAATAGTAGTATCGTAG 57.729 37.037 0.00 0.00 0.00 3.51
578 780 9.618890 TTAGTCTGGTTGTAATAGTAGTATCGT 57.381 33.333 0.00 0.00 0.00 3.73
586 788 8.833493 GTGTGTTTTTAGTCTGGTTGTAATAGT 58.167 33.333 0.00 0.00 0.00 2.12
587 789 8.007716 CGTGTGTTTTTAGTCTGGTTGTAATAG 58.992 37.037 0.00 0.00 0.00 1.73
588 790 7.495279 ACGTGTGTTTTTAGTCTGGTTGTAATA 59.505 33.333 0.00 0.00 0.00 0.98
589 791 6.316890 ACGTGTGTTTTTAGTCTGGTTGTAAT 59.683 34.615 0.00 0.00 0.00 1.89
590 792 5.642919 ACGTGTGTTTTTAGTCTGGTTGTAA 59.357 36.000 0.00 0.00 0.00 2.41
591 793 5.177326 ACGTGTGTTTTTAGTCTGGTTGTA 58.823 37.500 0.00 0.00 0.00 2.41
592 794 4.004982 ACGTGTGTTTTTAGTCTGGTTGT 58.995 39.130 0.00 0.00 0.00 3.32
593 795 4.495184 GGACGTGTGTTTTTAGTCTGGTTG 60.495 45.833 0.00 0.00 32.86 3.77
594 796 3.624410 GGACGTGTGTTTTTAGTCTGGTT 59.376 43.478 0.00 0.00 32.86 3.67
595 797 3.118519 AGGACGTGTGTTTTTAGTCTGGT 60.119 43.478 0.00 0.00 32.86 4.00
596 798 3.463944 AGGACGTGTGTTTTTAGTCTGG 58.536 45.455 0.00 0.00 32.86 3.86
597 799 4.369182 AGAGGACGTGTGTTTTTAGTCTG 58.631 43.478 0.00 0.00 32.86 3.51
598 800 4.501058 GGAGAGGACGTGTGTTTTTAGTCT 60.501 45.833 0.00 0.00 32.86 3.24
599 801 3.739810 GGAGAGGACGTGTGTTTTTAGTC 59.260 47.826 0.00 0.00 0.00 2.59
600 802 3.133362 TGGAGAGGACGTGTGTTTTTAGT 59.867 43.478 0.00 0.00 0.00 2.24
645 917 3.437049 AGAACGAAGAGCATAAAACTGGC 59.563 43.478 0.00 0.00 0.00 4.85
654 926 2.822561 TGAGAGTGAGAACGAAGAGCAT 59.177 45.455 0.00 0.00 0.00 3.79
655 927 2.227626 CTGAGAGTGAGAACGAAGAGCA 59.772 50.000 0.00 0.00 0.00 4.26
676 948 3.368013 GGTTATGCTTTTTGTGTAGGCCC 60.368 47.826 0.00 0.00 0.00 5.80
682 954 2.691011 ACGTGGGTTATGCTTTTTGTGT 59.309 40.909 0.00 0.00 0.00 3.72
686 958 1.890489 GGGACGTGGGTTATGCTTTTT 59.110 47.619 0.00 0.00 0.00 1.94
687 959 1.202952 TGGGACGTGGGTTATGCTTTT 60.203 47.619 0.00 0.00 0.00 2.27
688 960 0.402504 TGGGACGTGGGTTATGCTTT 59.597 50.000 0.00 0.00 0.00 3.51
693 1010 0.838987 AGGTGTGGGACGTGGGTTAT 60.839 55.000 0.00 0.00 0.00 1.89
850 1203 4.153330 GGGGAGGGAGGACGGCTA 62.153 72.222 0.00 0.00 0.00 3.93
869 1222 2.818169 TTGCAGACAAGGGAGGCGT 61.818 57.895 0.00 0.00 0.00 5.68
879 1232 2.974148 CGCCAGTGCTTGCAGACA 60.974 61.111 0.00 0.00 34.43 3.41
1330 2874 1.692519 GATAAGGTCGCCCCATACACT 59.307 52.381 0.00 0.00 34.66 3.55
1344 2888 2.422597 TGAAGCGGTGTTGTGATAAGG 58.577 47.619 0.00 0.00 0.00 2.69
1392 2939 1.355971 GCTTGATCGTAGAAACCGCA 58.644 50.000 0.00 0.00 43.58 5.69
1433 2983 3.191371 CCCATCAAGCAACCAGTAAAGAC 59.809 47.826 0.00 0.00 0.00 3.01
1692 3266 1.550524 CTCCCATTCGACTCTGGTTCA 59.449 52.381 7.00 0.00 0.00 3.18
1764 3338 3.551407 GGCAGGGGATCCTCGTCC 61.551 72.222 12.58 10.58 42.67 4.79
1765 3339 3.917760 CGGCAGGGGATCCTCGTC 61.918 72.222 12.58 4.80 42.67 4.20
1766 3340 4.779733 ACGGCAGGGGATCCTCGT 62.780 66.667 12.58 11.06 42.67 4.18
1767 3341 4.227134 CACGGCAGGGGATCCTCG 62.227 72.222 12.58 5.37 42.67 4.63
1768 3342 3.866582 CCACGGCAGGGGATCCTC 61.867 72.222 12.58 7.90 46.39 3.71
1785 3359 1.271379 TGACTCAAAGGTAGGCTTGGC 60.271 52.381 0.00 0.00 0.00 4.52
1786 3360 2.039084 AGTGACTCAAAGGTAGGCTTGG 59.961 50.000 0.00 0.00 0.00 3.61
1787 3361 3.070018 CAGTGACTCAAAGGTAGGCTTG 58.930 50.000 0.00 0.00 0.00 4.01
1788 3362 2.972713 TCAGTGACTCAAAGGTAGGCTT 59.027 45.455 0.00 0.00 0.00 4.35
1789 3363 2.300437 GTCAGTGACTCAAAGGTAGGCT 59.700 50.000 16.26 0.00 0.00 4.58
1790 3364 2.037251 TGTCAGTGACTCAAAGGTAGGC 59.963 50.000 23.29 0.00 33.15 3.93
1791 3365 3.069586 TGTGTCAGTGACTCAAAGGTAGG 59.930 47.826 22.30 0.00 33.95 3.18
1792 3366 4.051922 GTGTGTCAGTGACTCAAAGGTAG 58.948 47.826 25.22 0.00 37.70 3.18
1793 3367 3.490249 CGTGTGTCAGTGACTCAAAGGTA 60.490 47.826 25.22 3.57 37.70 3.08
1794 3368 2.738643 CGTGTGTCAGTGACTCAAAGGT 60.739 50.000 25.22 0.00 37.70 3.50
1795 3369 1.860950 CGTGTGTCAGTGACTCAAAGG 59.139 52.381 25.22 15.50 37.70 3.11
1796 3370 1.860950 CCGTGTGTCAGTGACTCAAAG 59.139 52.381 25.22 21.07 37.70 2.77
1797 3371 1.472552 CCCGTGTGTCAGTGACTCAAA 60.473 52.381 25.22 3.36 37.70 2.69
1798 3372 0.104120 CCCGTGTGTCAGTGACTCAA 59.896 55.000 25.22 8.92 37.70 3.02
1799 3373 1.040893 ACCCGTGTGTCAGTGACTCA 61.041 55.000 23.29 22.13 34.38 3.41
1800 3374 0.318784 GACCCGTGTGTCAGTGACTC 60.319 60.000 23.29 19.84 35.29 3.36
1801 3375 1.740285 GACCCGTGTGTCAGTGACT 59.260 57.895 23.29 1.59 35.29 3.41
1802 3376 1.300697 GGACCCGTGTGTCAGTGAC 60.301 63.158 16.68 16.68 36.97 3.67
1803 3377 2.504274 GGGACCCGTGTGTCAGTGA 61.504 63.158 0.00 0.00 36.97 3.41
1804 3378 2.030562 GGGACCCGTGTGTCAGTG 59.969 66.667 0.00 0.00 36.97 3.66
1805 3379 2.445085 TGGGACCCGTGTGTCAGT 60.445 61.111 5.91 0.00 36.97 3.41
1806 3380 2.030562 GTGGGACCCGTGTGTCAG 59.969 66.667 5.91 0.00 36.97 3.51
1807 3381 1.911702 TTTGTGGGACCCGTGTGTCA 61.912 55.000 5.91 0.00 36.97 3.58
1808 3382 1.153127 TTTGTGGGACCCGTGTGTC 60.153 57.895 5.91 0.00 34.42 3.67
1809 3383 1.153046 CTTTGTGGGACCCGTGTGT 60.153 57.895 5.91 0.00 0.00 3.72
1810 3384 2.551912 GCTTTGTGGGACCCGTGTG 61.552 63.158 5.91 0.00 0.00 3.82
1811 3385 2.203294 GCTTTGTGGGACCCGTGT 60.203 61.111 5.91 0.00 0.00 4.49
1812 3386 1.603455 ATGCTTTGTGGGACCCGTG 60.603 57.895 5.91 0.00 0.00 4.94
1813 3387 1.603455 CATGCTTTGTGGGACCCGT 60.603 57.895 5.91 0.00 0.00 5.28
1814 3388 2.342650 CCATGCTTTGTGGGACCCG 61.343 63.158 5.91 0.00 32.98 5.28
1815 3389 3.698765 CCATGCTTTGTGGGACCC 58.301 61.111 2.45 2.45 32.98 4.46
1820 3394 3.393106 GGGCCCCATGCTTTGTGG 61.393 66.667 12.23 0.00 40.92 4.17
1821 3395 2.604079 TGGGCCCCATGCTTTGTG 60.604 61.111 22.27 0.00 40.92 3.33
1822 3396 2.604382 GTGGGCCCCATGCTTTGT 60.604 61.111 22.27 0.00 40.92 2.83
1823 3397 3.393106 GGTGGGCCCCATGCTTTG 61.393 66.667 22.27 0.00 40.92 2.77
1824 3398 3.604133 AGGTGGGCCCCATGCTTT 61.604 61.111 22.27 0.00 40.92 3.51
1825 3399 4.387343 CAGGTGGGCCCCATGCTT 62.387 66.667 22.27 0.00 40.92 3.91
1828 3402 3.650298 CTGACAGGTGGGCCCCATG 62.650 68.421 22.27 20.55 35.28 3.66
1829 3403 3.341629 CTGACAGGTGGGCCCCAT 61.342 66.667 22.27 5.27 35.28 4.00
1830 3404 4.918360 ACTGACAGGTGGGCCCCA 62.918 66.667 22.27 7.77 34.57 4.96
1831 3405 4.351054 CACTGACAGGTGGGCCCC 62.351 72.222 22.27 10.91 33.95 5.80
1832 3406 3.249189 TCACTGACAGGTGGGCCC 61.249 66.667 17.59 17.59 37.75 5.80
1833 3407 2.032681 GTCACTGACAGGTGGGCC 59.967 66.667 7.51 0.00 37.75 5.80
1834 3408 1.004440 GAGTCACTGACAGGTGGGC 60.004 63.158 11.80 0.00 37.75 5.36
1835 3409 0.758734 TTGAGTCACTGACAGGTGGG 59.241 55.000 11.80 0.00 37.75 4.61
1836 3410 2.487934 CTTTGAGTCACTGACAGGTGG 58.512 52.381 11.80 0.00 37.75 4.61
1837 3411 2.487934 CCTTTGAGTCACTGACAGGTG 58.512 52.381 11.80 3.26 38.44 4.00
1838 3412 1.202698 GCCTTTGAGTCACTGACAGGT 60.203 52.381 11.80 0.00 34.60 4.00
1839 3413 1.202687 TGCCTTTGAGTCACTGACAGG 60.203 52.381 11.80 9.87 34.60 4.00
1840 3414 2.141517 CTGCCTTTGAGTCACTGACAG 58.858 52.381 11.80 0.00 34.60 3.51
1841 3415 1.202687 CCTGCCTTTGAGTCACTGACA 60.203 52.381 11.80 0.00 34.60 3.58
1842 3416 1.517242 CCTGCCTTTGAGTCACTGAC 58.483 55.000 0.38 0.38 0.00 3.51
1843 3417 0.397941 CCCTGCCTTTGAGTCACTGA 59.602 55.000 0.00 0.00 0.00 3.41
1844 3418 0.109342 ACCCTGCCTTTGAGTCACTG 59.891 55.000 0.00 0.00 0.00 3.66
1845 3419 1.729586 TACCCTGCCTTTGAGTCACT 58.270 50.000 0.00 0.00 0.00 3.41
1846 3420 2.359900 CATACCCTGCCTTTGAGTCAC 58.640 52.381 0.00 0.00 0.00 3.67
1847 3421 1.281867 CCATACCCTGCCTTTGAGTCA 59.718 52.381 0.00 0.00 0.00 3.41
1848 3422 2.019156 GCCATACCCTGCCTTTGAGTC 61.019 57.143 0.00 0.00 0.00 3.36
1849 3423 0.034089 GCCATACCCTGCCTTTGAGT 60.034 55.000 0.00 0.00 0.00 3.41
1850 3424 0.034186 TGCCATACCCTGCCTTTGAG 60.034 55.000 0.00 0.00 0.00 3.02
1851 3425 0.034186 CTGCCATACCCTGCCTTTGA 60.034 55.000 0.00 0.00 0.00 2.69
1852 3426 1.039233 CCTGCCATACCCTGCCTTTG 61.039 60.000 0.00 0.00 0.00 2.77
1853 3427 1.307647 CCTGCCATACCCTGCCTTT 59.692 57.895 0.00 0.00 0.00 3.11
1854 3428 2.693871 CCCTGCCATACCCTGCCTT 61.694 63.158 0.00 0.00 0.00 4.35
1855 3429 2.940421 ATCCCTGCCATACCCTGCCT 62.940 60.000 0.00 0.00 0.00 4.75
1856 3430 2.011617 AATCCCTGCCATACCCTGCC 62.012 60.000 0.00 0.00 0.00 4.85
1857 3431 0.825010 CAATCCCTGCCATACCCTGC 60.825 60.000 0.00 0.00 0.00 4.85
1858 3432 0.825010 GCAATCCCTGCCATACCCTG 60.825 60.000 0.00 0.00 46.13 4.45
1859 3433 1.538666 GCAATCCCTGCCATACCCT 59.461 57.895 0.00 0.00 46.13 4.34
1860 3434 4.181051 GCAATCCCTGCCATACCC 57.819 61.111 0.00 0.00 46.13 3.69
1868 3442 2.089980 CCTCTGACTTTGCAATCCCTG 58.910 52.381 0.00 0.00 0.00 4.45
1869 3443 1.988107 TCCTCTGACTTTGCAATCCCT 59.012 47.619 0.00 0.00 0.00 4.20
1870 3444 2.496899 TCCTCTGACTTTGCAATCCC 57.503 50.000 0.00 0.00 0.00 3.85
1871 3445 2.948315 GGATCCTCTGACTTTGCAATCC 59.052 50.000 3.84 0.00 0.00 3.01
1872 3446 3.376546 GTGGATCCTCTGACTTTGCAATC 59.623 47.826 14.23 0.00 0.00 2.67
1873 3447 3.350833 GTGGATCCTCTGACTTTGCAAT 58.649 45.455 14.23 0.00 0.00 3.56
1874 3448 2.783135 GTGGATCCTCTGACTTTGCAA 58.217 47.619 14.23 0.00 0.00 4.08
1875 3449 1.338105 CGTGGATCCTCTGACTTTGCA 60.338 52.381 14.23 0.00 0.00 4.08
1876 3450 1.338200 ACGTGGATCCTCTGACTTTGC 60.338 52.381 14.23 0.00 0.00 3.68
1877 3451 2.611518 GACGTGGATCCTCTGACTTTG 58.388 52.381 14.23 0.00 0.00 2.77
1878 3452 1.550976 GGACGTGGATCCTCTGACTTT 59.449 52.381 14.23 0.00 35.68 2.66
1879 3453 1.187087 GGACGTGGATCCTCTGACTT 58.813 55.000 14.23 0.00 35.68 3.01
1880 3454 0.333312 AGGACGTGGATCCTCTGACT 59.667 55.000 14.23 3.19 46.92 3.41
1881 3455 2.889200 AGGACGTGGATCCTCTGAC 58.111 57.895 14.23 1.17 46.92 3.51
1887 3461 2.194201 TCCAAAAAGGACGTGGATCC 57.806 50.000 4.20 4.20 43.07 3.36
1896 3470 2.627699 GCCATCAACTGTCCAAAAAGGA 59.372 45.455 0.00 0.00 46.75 3.36
1897 3471 2.289010 GGCCATCAACTGTCCAAAAAGG 60.289 50.000 0.00 0.00 39.47 3.11
1898 3472 2.289010 GGGCCATCAACTGTCCAAAAAG 60.289 50.000 4.39 0.00 0.00 2.27
1899 3473 1.691434 GGGCCATCAACTGTCCAAAAA 59.309 47.619 4.39 0.00 0.00 1.94
1900 3474 1.133199 AGGGCCATCAACTGTCCAAAA 60.133 47.619 6.18 0.00 0.00 2.44
1901 3475 0.482446 AGGGCCATCAACTGTCCAAA 59.518 50.000 6.18 0.00 0.00 3.28
1902 3476 0.251297 CAGGGCCATCAACTGTCCAA 60.251 55.000 6.18 0.00 0.00 3.53
1903 3477 1.379916 CAGGGCCATCAACTGTCCA 59.620 57.895 6.18 0.00 0.00 4.02
1904 3478 1.380302 ACAGGGCCATCAACTGTCC 59.620 57.895 6.18 0.00 41.27 4.02
1907 3481 1.100510 CATGACAGGGCCATCAACTG 58.899 55.000 13.75 4.50 38.19 3.16
1908 3482 0.700564 ACATGACAGGGCCATCAACT 59.299 50.000 13.75 0.69 0.00 3.16
1909 3483 1.549203 AACATGACAGGGCCATCAAC 58.451 50.000 13.75 0.00 0.00 3.18
2144 3721 0.960364 TGAAAGTTCATCAGGCCGCC 60.960 55.000 0.00 0.00 31.01 6.13
2164 3745 5.523369 CGTGAGAACAGCATCACTATATGA 58.477 41.667 4.07 0.00 42.93 2.15
2184 3765 0.110056 GACTGTGGCATGAAAGCGTG 60.110 55.000 0.00 0.00 34.64 5.34
2191 3787 5.988287 TCATTACATAAGACTGTGGCATGA 58.012 37.500 0.00 0.00 0.00 3.07
2306 4312 3.627123 TCTGACTTGAACCACACACATTG 59.373 43.478 0.00 0.00 0.00 2.82
2312 4318 2.246719 AGCTCTGACTTGAACCACAC 57.753 50.000 0.00 0.00 0.00 3.82
2401 4933 5.538849 GGTATTCTCTGACCCTCTTTAGG 57.461 47.826 0.00 0.00 43.25 2.69
2461 5263 2.499289 AGAAGATGCACACCAGGACTAG 59.501 50.000 0.00 0.00 0.00 2.57
2469 5271 7.315142 TCATAAAAATGAAGAAGATGCACACC 58.685 34.615 0.00 0.00 0.00 4.16
2492 5294 7.014134 TCCAAAAACAGCAGAAACTGATTATCA 59.986 33.333 2.81 0.00 40.25 2.15
2531 8891 4.819105 TGAAACCGGATCTACTGTCAAT 57.181 40.909 9.46 0.00 0.00 2.57
2562 8922 2.364970 CAATTTGAAGGCAACACCAGGA 59.635 45.455 0.00 0.00 43.14 3.86
2647 9012 3.244181 CCAAGGACATCCCAACAAAAAGG 60.244 47.826 0.00 0.00 37.41 3.11
2659 9024 4.918810 AAGTCAAACAACCAAGGACATC 57.081 40.909 0.00 0.00 0.00 3.06
2704 9069 1.364626 GATCAGCTTCAGCACCACCG 61.365 60.000 0.75 0.00 45.16 4.94


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

AutoCloner maintained by Alex Coulton.