Multiple sequence alignment - TraesCS6B01G397400

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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 TraesCS6B01G397400 chr6B 100.000 4732 0 0 1 4732 672892346 672897077 0.000000e+00 8739.0
1 TraesCS6B01G397400 chr6B 95.689 4059 136 19 406 4444 673610382 673606343 0.000000e+00 6490.0
2 TraesCS6B01G397400 chr6B 92.512 3245 172 31 608 3828 672943529 672946726 0.000000e+00 4580.0
3 TraesCS6B01G397400 chr6B 85.073 2318 253 41 691 2955 673688369 673690646 0.000000e+00 2278.0
4 TraesCS6B01G397400 chr6B 85.022 2310 255 41 691 2948 672628598 672626328 0.000000e+00 2265.0
5 TraesCS6B01G397400 chr6B 87.581 1691 176 16 2023 3700 673544481 673542812 0.000000e+00 1929.0
6 TraesCS6B01G397400 chr6B 86.170 1786 194 26 2023 3789 673026051 673027802 0.000000e+00 1881.0
7 TraesCS6B01G397400 chr6B 86.331 1529 168 23 1992 3498 672884364 672885873 0.000000e+00 1628.0
8 TraesCS6B01G397400 chr6B 85.890 1219 148 13 677 1874 673545899 673544684 0.000000e+00 1277.0
9 TraesCS6B01G397400 chr6B 86.802 1038 121 15 2004 3029 673757582 673758615 0.000000e+00 1144.0
10 TraesCS6B01G397400 chr6B 98.214 616 7 2 3826 4441 672946839 672947450 0.000000e+00 1074.0
11 TraesCS6B01G397400 chr6B 89.292 579 53 3 608 1186 673024576 673025145 0.000000e+00 717.0
12 TraesCS6B01G397400 chr6B 93.923 362 15 4 1 357 672942718 672943077 1.500000e-149 540.0
13 TraesCS6B01G397400 chr6B 91.824 318 19 4 351 662 672943153 672943469 2.020000e-118 436.0
14 TraesCS6B01G397400 chr6B 82.520 492 71 9 1437 1919 673757059 673757544 7.320000e-113 418.0
15 TraesCS6B01G397400 chr6B 88.333 360 24 6 1 358 673610749 673610406 2.630000e-112 416.0
16 TraesCS6B01G397400 chr6B 86.804 341 40 4 3530 3866 672885874 672886213 4.470000e-100 375.0
17 TraesCS6B01G397400 chr6B 78.142 366 39 24 4074 4429 672502713 672502379 1.340000e-45 195.0
18 TraesCS6B01G397400 chr6B 79.730 296 30 19 4068 4356 673759858 673760130 2.250000e-43 187.0
19 TraesCS6B01G397400 chr6B 86.667 165 18 1 4280 4444 673358716 673358556 3.760000e-41 180.0
20 TraesCS6B01G397400 chr6B 81.560 141 24 2 3909 4048 673759642 673759781 1.080000e-21 115.0
21 TraesCS6B01G397400 chr6B 82.090 134 22 2 3916 4048 672502927 672502795 3.870000e-21 113.0
22 TraesCS6B01G397400 chr6A 93.271 4087 195 43 1 4048 592547688 592551733 0.000000e+00 5951.0
23 TraesCS6B01G397400 chr6A 86.667 1035 124 12 1990 3018 592477394 592476368 0.000000e+00 1134.0
24 TraesCS6B01G397400 chr6A 86.364 374 19 12 4066 4438 592551792 592552134 3.460000e-101 379.0
25 TraesCS6B01G397400 chr6A 77.440 461 55 26 3909 4356 592539635 592540059 3.680000e-56 230.0
26 TraesCS6B01G397400 chr6A 90.625 64 5 1 4291 4354 592474885 592474823 3.030000e-12 84.2
27 TraesCS6B01G397400 chr6D 94.531 3383 144 19 500 3854 445892302 445895671 0.000000e+00 5184.0
28 TraesCS6B01G397400 chr6D 85.467 2312 252 38 691 2955 445820859 445818585 0.000000e+00 2331.0
29 TraesCS6B01G397400 chr6D 87.284 1447 165 12 2047 3491 445839184 445840613 0.000000e+00 1635.0
30 TraesCS6B01G397400 chr6D 83.582 871 108 11 2843 3700 445911217 445912065 0.000000e+00 784.0
31 TraesCS6B01G397400 chr6D 89.827 462 47 0 677 1138 445812964 445812503 1.130000e-165 593.0
32 TraesCS6B01G397400 chr6D 92.328 378 23 4 4064 4441 445895867 445896238 2.510000e-147 532.0
33 TraesCS6B01G397400 chr6D 93.017 358 17 5 1 352 445891858 445892213 2.520000e-142 516.0
34 TraesCS6B01G397400 chr6D 82.281 491 53 25 3918 4397 445855257 445855724 1.230000e-105 394.0
35 TraesCS6B01G397400 chr6D 85.393 267 31 5 4440 4698 347352453 347352187 2.170000e-68 270.0
36 TraesCS6B01G397400 chr6D 91.216 148 8 3 4039 4181 445841041 445841188 3.740000e-46 196.0
37 TraesCS6B01G397400 chr6D 91.429 140 10 2 3909 4047 445895660 445895798 1.740000e-44 191.0
38 TraesCS6B01G397400 chr6D 88.393 112 7 3 4245 4356 445846664 445846769 3.840000e-26 130.0
39 TraesCS6B01G397400 chr6D 81.343 134 23 2 3916 4048 445796776 445796644 1.800000e-19 108.0
40 TraesCS6B01G397400 chr6D 83.036 112 16 3 4088 4197 445796548 445796438 1.080000e-16 99.0
41 TraesCS6B01G397400 chr1B 89.928 278 19 5 4440 4709 503509582 503509306 2.710000e-92 350.0
42 TraesCS6B01G397400 chr3B 87.333 300 31 4 4440 4732 732165637 732165936 2.110000e-88 337.0
43 TraesCS6B01G397400 chr3B 87.043 301 29 4 4440 4732 708113608 708113310 9.820000e-87 331.0
44 TraesCS6B01G397400 chr4A 84.718 301 39 4 4439 4732 446471821 446472121 1.290000e-75 294.0
45 TraesCS6B01G397400 chr4D 85.874 269 30 5 4438 4698 115068692 115068960 3.610000e-71 279.0
46 TraesCS6B01G397400 chr5A 83.444 302 40 8 4440 4732 563161670 563161370 6.030000e-69 272.0
47 TraesCS6B01G397400 chr7D 84.397 282 34 6 4436 4707 16283519 16283238 7.810000e-68 268.0
48 TraesCS6B01G397400 chr3A 82.781 302 42 8 4440 4732 749441274 749440974 1.310000e-65 261.0


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 TraesCS6B01G397400 chr6B 672892346 672897077 4731 False 8739.00 8739 100.00000 1 4732 1 chr6B.!!$F1 4731
1 TraesCS6B01G397400 chr6B 673606343 673610749 4406 True 3453.00 6490 92.01100 1 4444 2 chr6B.!!$R5 4443
2 TraesCS6B01G397400 chr6B 673688369 673690646 2277 False 2278.00 2278 85.07300 691 2955 1 chr6B.!!$F2 2264
3 TraesCS6B01G397400 chr6B 672626328 672628598 2270 True 2265.00 2265 85.02200 691 2948 1 chr6B.!!$R1 2257
4 TraesCS6B01G397400 chr6B 672942718 672947450 4732 False 1657.50 4580 94.11825 1 4441 4 chr6B.!!$F4 4440
5 TraesCS6B01G397400 chr6B 673542812 673545899 3087 True 1603.00 1929 86.73550 677 3700 2 chr6B.!!$R4 3023
6 TraesCS6B01G397400 chr6B 673024576 673027802 3226 False 1299.00 1881 87.73100 608 3789 2 chr6B.!!$F5 3181
7 TraesCS6B01G397400 chr6B 672884364 672886213 1849 False 1001.50 1628 86.56750 1992 3866 2 chr6B.!!$F3 1874
8 TraesCS6B01G397400 chr6B 673757059 673760130 3071 False 466.00 1144 82.65300 1437 4356 4 chr6B.!!$F6 2919
9 TraesCS6B01G397400 chr6A 592547688 592552134 4446 False 3165.00 5951 89.81750 1 4438 2 chr6A.!!$F2 4437
10 TraesCS6B01G397400 chr6A 592474823 592477394 2571 True 609.10 1134 88.64600 1990 4354 2 chr6A.!!$R1 2364
11 TraesCS6B01G397400 chr6D 445818585 445820859 2274 True 2331.00 2331 85.46700 691 2955 1 chr6D.!!$R3 2264
12 TraesCS6B01G397400 chr6D 445891858 445896238 4380 False 1605.75 5184 92.82625 1 4441 4 chr6D.!!$F5 4440
13 TraesCS6B01G397400 chr6D 445839184 445841188 2004 False 915.50 1635 89.25000 2047 4181 2 chr6D.!!$F4 2134
14 TraesCS6B01G397400 chr6D 445911217 445912065 848 False 784.00 784 83.58200 2843 3700 1 chr6D.!!$F3 857

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
939 1185 0.106015 TCCTCATCCTCATCCTCGCA 60.106 55.000 0.0 0.00 0.00 5.10 F
1845 2150 1.290955 CTTGGTCGGTGCCGTTCTA 59.709 57.895 10.6 1.19 40.74 2.10 F
2365 2794 1.142465 CTGGAGGCAGCCATGATACTT 59.858 52.381 15.8 0.00 37.30 2.24 F
2821 3274 1.922570 CGCTATCTGTTTGTACGGCT 58.077 50.000 0.0 0.00 0.00 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2179 2608 0.033601 TGGTGTTGTCCTGCCAAAGT 60.034 50.000 0.00 0.0 0.00 2.66 R
3513 4132 1.198713 GCTCTCAACCCTCTCATGGA 58.801 55.000 0.00 0.0 0.00 3.41 R
3559 4188 2.511373 CCGAGCGCACCAATAGCA 60.511 61.111 11.47 0.0 0.00 3.49 R
4682 5729 0.105964 AGTCACTGTGCAACGCCTAA 59.894 50.000 2.12 0.0 42.39 2.69 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
81 89 9.736023 CTCAATAAAGCAGTTAGTGTTCTTTTT 57.264 29.630 7.28 0.00 38.60 1.94
119 130 5.316167 TCTTACCAATGACTTGCACAAGAT 58.684 37.500 16.95 1.70 40.79 2.40
193 205 2.264794 CTACACCCACTGGACGGC 59.735 66.667 0.00 0.00 34.81 5.68
208 220 2.540101 GGACGGCGAAAACTATGAGATG 59.460 50.000 16.62 0.00 0.00 2.90
228 240 7.094634 TGAGATGCAAGTAACAAGAAAATCTCC 60.095 37.037 0.00 0.00 37.69 3.71
288 305 8.880750 CACCTAGGAAAGCTGTATTAGTAAAAC 58.119 37.037 17.98 0.00 0.00 2.43
358 375 3.443976 ACACAAAGACATCCAAAAACGC 58.556 40.909 0.00 0.00 0.00 4.84
504 633 3.621715 CCAAGTCAGGTCGTTTTATAGCC 59.378 47.826 0.00 0.00 0.00 3.93
543 672 6.071896 TGCATCACAATAATTAACGGAACCAA 60.072 34.615 0.00 0.00 0.00 3.67
544 673 6.809196 GCATCACAATAATTAACGGAACCAAA 59.191 34.615 0.00 0.00 0.00 3.28
571 700 3.056250 GCTGTTGAGTGAGAGAATGGAGA 60.056 47.826 0.00 0.00 0.00 3.71
918 1164 2.809601 GCGTCGCTCGTGGTCATT 60.810 61.111 10.68 0.00 42.13 2.57
939 1185 0.106015 TCCTCATCCTCATCCTCGCA 60.106 55.000 0.00 0.00 0.00 5.10
942 1188 2.224475 CCTCATCCTCATCCTCGCAATT 60.224 50.000 0.00 0.00 0.00 2.32
1014 1260 2.388735 CTAGTCATGGTGCTGGACCTA 58.611 52.381 19.43 6.43 46.32 3.08
1417 1708 3.599285 GACCCGGCCATTGTCGACA 62.599 63.158 15.76 15.76 43.95 4.35
1680 1985 2.366533 CTTCTCATCACCATGCTGCTT 58.633 47.619 0.00 0.00 0.00 3.91
1803 2108 2.274760 GGCAGCTGCAGGGAGATT 59.725 61.111 37.63 0.00 44.36 2.40
1845 2150 1.290955 CTTGGTCGGTGCCGTTCTA 59.709 57.895 10.60 1.19 40.74 2.10
1964 2325 5.814705 CACATACATCTTCCTTTCCTCTGTC 59.185 44.000 0.00 0.00 0.00 3.51
1993 2377 1.813178 TGCAAACTGAACCGTGTTTCA 59.187 42.857 0.00 0.00 34.60 2.69
2365 2794 1.142465 CTGGAGGCAGCCATGATACTT 59.858 52.381 15.80 0.00 37.30 2.24
2371 2800 2.216898 GCAGCCATGATACTTGACCTC 58.783 52.381 0.00 0.00 0.00 3.85
2821 3274 1.922570 CGCTATCTGTTTGTACGGCT 58.077 50.000 0.00 0.00 0.00 5.52
3513 4132 3.518998 CCATCGCCGTCGTCCTCT 61.519 66.667 0.00 0.00 36.96 3.69
3559 4188 5.182001 CCAAGAAAATCCTCGAGTGTGATTT 59.818 40.000 17.34 17.34 39.66 2.17
3598 4344 3.068873 GTGGTATGCTCTAGCTAGCTGTT 59.931 47.826 27.68 3.54 43.19 3.16
3603 4349 1.537990 GCTCTAGCTAGCTGTTCCTGC 60.538 57.143 27.68 17.02 39.50 4.85
3690 4447 2.047061 TGTTTGTCCACTCACTAGGCT 58.953 47.619 0.00 0.00 0.00 4.58
4417 5464 5.788450 ACAGTGACATTCAAAAACAAACCA 58.212 33.333 0.00 0.00 0.00 3.67
4445 5492 4.659172 CAACCTGGGCGGGCAGAA 62.659 66.667 3.27 0.00 36.97 3.02
4446 5493 3.897122 AACCTGGGCGGGCAGAAA 61.897 61.111 3.27 0.00 36.97 2.52
4447 5494 3.224007 AACCTGGGCGGGCAGAAAT 62.224 57.895 3.27 0.00 36.97 2.17
4448 5495 2.830370 CCTGGGCGGGCAGAAATC 60.830 66.667 3.27 0.00 0.00 2.17
4449 5496 2.045045 CTGGGCGGGCAGAAATCA 60.045 61.111 3.27 0.00 0.00 2.57
4450 5497 2.361104 TGGGCGGGCAGAAATCAC 60.361 61.111 3.27 0.00 0.00 3.06
4451 5498 2.361104 GGGCGGGCAGAAATCACA 60.361 61.111 3.27 0.00 0.00 3.58
4452 5499 1.754234 GGGCGGGCAGAAATCACAT 60.754 57.895 3.27 0.00 0.00 3.21
4453 5500 0.465460 GGGCGGGCAGAAATCACATA 60.465 55.000 3.27 0.00 0.00 2.29
4454 5501 1.609208 GGCGGGCAGAAATCACATAT 58.391 50.000 0.00 0.00 0.00 1.78
4455 5502 1.956477 GGCGGGCAGAAATCACATATT 59.044 47.619 0.00 0.00 0.00 1.28
4456 5503 2.362077 GGCGGGCAGAAATCACATATTT 59.638 45.455 0.00 0.00 0.00 1.40
4457 5504 3.568007 GGCGGGCAGAAATCACATATTTA 59.432 43.478 0.00 0.00 0.00 1.40
4458 5505 4.037446 GGCGGGCAGAAATCACATATTTAA 59.963 41.667 0.00 0.00 0.00 1.52
4459 5506 4.976116 GCGGGCAGAAATCACATATTTAAC 59.024 41.667 0.00 0.00 0.00 2.01
4460 5507 5.519722 CGGGCAGAAATCACATATTTAACC 58.480 41.667 0.00 0.00 0.00 2.85
4461 5508 5.299279 CGGGCAGAAATCACATATTTAACCT 59.701 40.000 0.00 0.00 0.00 3.50
4462 5509 6.507023 GGGCAGAAATCACATATTTAACCTG 58.493 40.000 0.00 0.00 0.00 4.00
4463 5510 6.321181 GGGCAGAAATCACATATTTAACCTGA 59.679 38.462 0.00 0.00 0.00 3.86
4464 5511 7.014615 GGGCAGAAATCACATATTTAACCTGAT 59.985 37.037 0.00 0.00 0.00 2.90
4465 5512 7.864379 GGCAGAAATCACATATTTAACCTGATG 59.136 37.037 0.00 0.00 0.00 3.07
4466 5513 7.380602 GCAGAAATCACATATTTAACCTGATGC 59.619 37.037 0.00 0.00 0.00 3.91
4467 5514 7.864379 CAGAAATCACATATTTAACCTGATGCC 59.136 37.037 0.00 0.00 0.00 4.40
4468 5515 6.655078 AATCACATATTTAACCTGATGCCC 57.345 37.500 0.00 0.00 0.00 5.36
4469 5516 5.122707 TCACATATTTAACCTGATGCCCA 57.877 39.130 0.00 0.00 0.00 5.36
4470 5517 5.514169 TCACATATTTAACCTGATGCCCAA 58.486 37.500 0.00 0.00 0.00 4.12
4471 5518 5.954752 TCACATATTTAACCTGATGCCCAAA 59.045 36.000 0.00 0.00 0.00 3.28
4472 5519 6.610830 TCACATATTTAACCTGATGCCCAAAT 59.389 34.615 0.00 0.00 0.00 2.32
4473 5520 6.925165 CACATATTTAACCTGATGCCCAAATC 59.075 38.462 0.00 0.00 0.00 2.17
4474 5521 6.610830 ACATATTTAACCTGATGCCCAAATCA 59.389 34.615 0.00 0.00 35.31 2.57
4475 5522 7.125507 ACATATTTAACCTGATGCCCAAATCAA 59.874 33.333 0.00 0.00 36.16 2.57
4476 5523 5.815233 TTTAACCTGATGCCCAAATCAAA 57.185 34.783 0.00 0.00 36.16 2.69
4477 5524 6.371595 TTTAACCTGATGCCCAAATCAAAT 57.628 33.333 0.00 0.00 36.16 2.32
4478 5525 4.476628 AACCTGATGCCCAAATCAAATC 57.523 40.909 0.00 0.00 36.16 2.17
4479 5526 3.443052 ACCTGATGCCCAAATCAAATCA 58.557 40.909 0.00 0.00 36.16 2.57
4480 5527 3.196254 ACCTGATGCCCAAATCAAATCAC 59.804 43.478 0.00 0.00 36.16 3.06
4481 5528 3.196039 CCTGATGCCCAAATCAAATCACA 59.804 43.478 0.00 0.00 36.16 3.58
4482 5529 4.322877 CCTGATGCCCAAATCAAATCACAA 60.323 41.667 0.00 0.00 36.16 3.33
4483 5530 5.224821 TGATGCCCAAATCAAATCACAAA 57.775 34.783 0.00 0.00 33.63 2.83
4484 5531 4.996122 TGATGCCCAAATCAAATCACAAAC 59.004 37.500 0.00 0.00 33.63 2.93
4485 5532 4.686191 TGCCCAAATCAAATCACAAACT 57.314 36.364 0.00 0.00 0.00 2.66
4486 5533 4.378774 TGCCCAAATCAAATCACAAACTG 58.621 39.130 0.00 0.00 0.00 3.16
4487 5534 4.100653 TGCCCAAATCAAATCACAAACTGA 59.899 37.500 0.00 0.00 0.00 3.41
4488 5535 4.448732 GCCCAAATCAAATCACAAACTGAC 59.551 41.667 0.00 0.00 0.00 3.51
4489 5536 5.739935 GCCCAAATCAAATCACAAACTGACT 60.740 40.000 0.00 0.00 0.00 3.41
4490 5537 6.282930 CCCAAATCAAATCACAAACTGACTT 58.717 36.000 0.00 0.00 0.00 3.01
4491 5538 6.201425 CCCAAATCAAATCACAAACTGACTTG 59.799 38.462 0.00 0.00 37.44 3.16
4492 5539 6.292488 CCAAATCAAATCACAAACTGACTTGC 60.292 38.462 0.00 0.00 36.28 4.01
4493 5540 5.779529 ATCAAATCACAAACTGACTTGCT 57.220 34.783 0.00 0.00 36.28 3.91
4494 5541 5.173774 TCAAATCACAAACTGACTTGCTC 57.826 39.130 0.00 0.00 36.28 4.26
4495 5542 4.883585 TCAAATCACAAACTGACTTGCTCT 59.116 37.500 0.00 0.00 36.28 4.09
4496 5543 5.357878 TCAAATCACAAACTGACTTGCTCTT 59.642 36.000 0.00 0.00 36.28 2.85
4497 5544 4.825546 ATCACAAACTGACTTGCTCTTG 57.174 40.909 0.00 0.00 0.00 3.02
4498 5545 3.872696 TCACAAACTGACTTGCTCTTGA 58.127 40.909 0.00 0.00 0.00 3.02
4499 5546 4.260985 TCACAAACTGACTTGCTCTTGAA 58.739 39.130 0.00 0.00 0.00 2.69
4500 5547 4.699735 TCACAAACTGACTTGCTCTTGAAA 59.300 37.500 0.00 0.00 0.00 2.69
4501 5548 5.182950 TCACAAACTGACTTGCTCTTGAAAA 59.817 36.000 0.00 0.00 0.00 2.29
4502 5549 5.863397 CACAAACTGACTTGCTCTTGAAAAA 59.137 36.000 0.00 0.00 0.00 1.94
4524 5571 8.953368 AAAAATTTCACTCTGCTGAATCTTTT 57.047 26.923 0.00 0.00 32.34 2.27
4525 5572 7.941795 AAATTTCACTCTGCTGAATCTTTTG 57.058 32.000 0.00 0.00 30.19 2.44
4526 5573 6.645790 ATTTCACTCTGCTGAATCTTTTGT 57.354 33.333 0.00 0.00 30.19 2.83
4527 5574 5.428496 TTCACTCTGCTGAATCTTTTGTG 57.572 39.130 0.00 0.00 0.00 3.33
4528 5575 4.454678 TCACTCTGCTGAATCTTTTGTGT 58.545 39.130 0.00 0.00 0.00 3.72
4529 5576 4.274214 TCACTCTGCTGAATCTTTTGTGTG 59.726 41.667 0.00 0.00 0.00 3.82
4530 5577 3.567164 ACTCTGCTGAATCTTTTGTGTGG 59.433 43.478 0.00 0.00 0.00 4.17
4531 5578 2.294233 TCTGCTGAATCTTTTGTGTGGC 59.706 45.455 0.00 0.00 0.00 5.01
4532 5579 1.001487 TGCTGAATCTTTTGTGTGGCG 60.001 47.619 0.00 0.00 0.00 5.69
4533 5580 1.001378 GCTGAATCTTTTGTGTGGCGT 60.001 47.619 0.00 0.00 0.00 5.68
4534 5581 2.918131 GCTGAATCTTTTGTGTGGCGTC 60.918 50.000 0.00 0.00 0.00 5.19
4535 5582 1.606668 TGAATCTTTTGTGTGGCGTCC 59.393 47.619 0.00 0.00 0.00 4.79
4536 5583 0.591170 AATCTTTTGTGTGGCGTCCG 59.409 50.000 0.00 0.00 0.00 4.79
4537 5584 0.250124 ATCTTTTGTGTGGCGTCCGA 60.250 50.000 0.00 0.00 0.00 4.55
4538 5585 1.155424 TCTTTTGTGTGGCGTCCGAC 61.155 55.000 0.00 0.00 0.00 4.79
4539 5586 1.433053 CTTTTGTGTGGCGTCCGACA 61.433 55.000 0.00 0.00 0.00 4.35
4540 5587 1.433053 TTTTGTGTGGCGTCCGACAG 61.433 55.000 0.00 0.00 31.40 3.51
4541 5588 4.961511 TGTGTGGCGTCCGACAGC 62.962 66.667 0.00 3.32 31.40 4.40
4542 5589 4.664677 GTGTGGCGTCCGACAGCT 62.665 66.667 0.00 0.00 31.40 4.24
4543 5590 2.986979 TGTGGCGTCCGACAGCTA 60.987 61.111 0.00 6.39 31.40 3.32
4544 5591 2.202623 GTGGCGTCCGACAGCTAG 60.203 66.667 0.00 0.00 31.40 3.42
4545 5592 3.449227 TGGCGTCCGACAGCTAGG 61.449 66.667 12.79 0.00 0.00 3.02
4546 5593 4.874977 GGCGTCCGACAGCTAGGC 62.875 72.222 12.79 0.00 0.00 3.93
4552 5599 4.435436 CGACAGCTAGGCGCCACA 62.435 66.667 31.54 15.42 45.03 4.17
4553 5600 2.187946 GACAGCTAGGCGCCACAT 59.812 61.111 31.54 11.17 40.39 3.21
4554 5601 1.884926 GACAGCTAGGCGCCACATC 60.885 63.158 31.54 14.48 40.39 3.06
4555 5602 2.590007 CAGCTAGGCGCCACATCC 60.590 66.667 31.54 11.83 40.39 3.51
4556 5603 2.765807 AGCTAGGCGCCACATCCT 60.766 61.111 31.54 14.07 40.39 3.24
4557 5604 1.457643 AGCTAGGCGCCACATCCTA 60.458 57.895 31.54 10.17 40.39 2.94
4558 5605 1.301009 GCTAGGCGCCACATCCTAC 60.301 63.158 31.54 4.76 34.02 3.18
4559 5606 1.367840 CTAGGCGCCACATCCTACC 59.632 63.158 31.54 0.00 34.02 3.18
4560 5607 2.421877 CTAGGCGCCACATCCTACCG 62.422 65.000 31.54 0.00 34.02 4.02
4563 5610 4.910585 CGCCACATCCTACCGCCC 62.911 72.222 0.00 0.00 0.00 6.13
4564 5611 3.480133 GCCACATCCTACCGCCCT 61.480 66.667 0.00 0.00 0.00 5.19
4565 5612 3.043999 GCCACATCCTACCGCCCTT 62.044 63.158 0.00 0.00 0.00 3.95
4566 5613 1.146263 CCACATCCTACCGCCCTTC 59.854 63.158 0.00 0.00 0.00 3.46
4567 5614 1.146263 CACATCCTACCGCCCTTCC 59.854 63.158 0.00 0.00 0.00 3.46
4568 5615 2.070650 ACATCCTACCGCCCTTCCC 61.071 63.158 0.00 0.00 0.00 3.97
4569 5616 1.766461 CATCCTACCGCCCTTCCCT 60.766 63.158 0.00 0.00 0.00 4.20
4570 5617 1.004361 ATCCTACCGCCCTTCCCTT 59.996 57.895 0.00 0.00 0.00 3.95
4571 5618 0.266753 ATCCTACCGCCCTTCCCTTA 59.733 55.000 0.00 0.00 0.00 2.69
4572 5619 0.398098 TCCTACCGCCCTTCCCTTAG 60.398 60.000 0.00 0.00 0.00 2.18
4573 5620 1.408453 CCTACCGCCCTTCCCTTAGG 61.408 65.000 0.00 0.00 34.92 2.69
4574 5621 2.041206 CTACCGCCCTTCCCTTAGGC 62.041 65.000 0.00 0.00 43.53 3.93
4577 5624 2.189784 GCCCTTCCCTTAGGCGTC 59.810 66.667 0.00 0.00 36.84 5.19
4578 5625 2.499685 CCCTTCCCTTAGGCGTCG 59.500 66.667 0.00 0.00 33.73 5.12
4579 5626 2.202892 CCTTCCCTTAGGCGTCGC 60.203 66.667 9.22 9.22 0.00 5.19
4580 5627 2.577059 CTTCCCTTAGGCGTCGCA 59.423 61.111 20.50 0.00 0.00 5.10
4581 5628 1.810030 CTTCCCTTAGGCGTCGCAC 60.810 63.158 20.50 8.57 0.00 5.34
4582 5629 3.305177 TTCCCTTAGGCGTCGCACC 62.305 63.158 20.50 2.01 0.00 5.01
4583 5630 3.771160 CCCTTAGGCGTCGCACCT 61.771 66.667 20.50 10.37 41.57 4.00
4584 5631 2.202756 CCTTAGGCGTCGCACCTC 60.203 66.667 20.50 0.77 38.81 3.85
4585 5632 2.202756 CTTAGGCGTCGCACCTCC 60.203 66.667 20.50 0.35 38.81 4.30
4586 5633 2.678934 TTAGGCGTCGCACCTCCT 60.679 61.111 20.50 8.84 38.81 3.69
4587 5634 2.890847 CTTAGGCGTCGCACCTCCTG 62.891 65.000 20.50 0.00 38.81 3.86
4605 5652 3.052082 CCAGCGTGGCAGTCCAAG 61.052 66.667 0.00 0.00 45.53 3.61
4606 5653 3.052082 CAGCGTGGCAGTCCAAGG 61.052 66.667 0.00 0.00 45.53 3.61
4645 5692 2.176792 GCTGTGCAGCGCCTAAAC 59.823 61.111 2.29 0.00 45.29 2.01
4646 5693 2.870372 CTGTGCAGCGCCTAAACC 59.130 61.111 2.29 0.00 0.00 3.27
4647 5694 2.671619 TGTGCAGCGCCTAAACCC 60.672 61.111 2.29 0.00 0.00 4.11
4648 5695 2.359975 GTGCAGCGCCTAAACCCT 60.360 61.111 2.29 0.00 0.00 4.34
4649 5696 1.078708 GTGCAGCGCCTAAACCCTA 60.079 57.895 2.29 0.00 0.00 3.53
4650 5697 1.090052 GTGCAGCGCCTAAACCCTAG 61.090 60.000 2.29 0.00 0.00 3.02
4651 5698 1.523938 GCAGCGCCTAAACCCTAGG 60.524 63.158 2.29 0.06 37.75 3.02
4656 5703 3.316029 CCTAAACCCTAGGCGCCA 58.684 61.111 31.54 14.00 0.00 5.69
4657 5704 1.153229 CCTAAACCCTAGGCGCCAC 60.153 63.158 31.54 1.27 0.00 5.01
4658 5705 1.600107 CTAAACCCTAGGCGCCACA 59.400 57.895 31.54 15.42 0.00 4.17
4659 5706 0.743345 CTAAACCCTAGGCGCCACAC 60.743 60.000 31.54 0.00 0.00 3.82
4660 5707 1.196104 TAAACCCTAGGCGCCACACT 61.196 55.000 31.54 10.73 0.00 3.55
4661 5708 2.748058 AAACCCTAGGCGCCACACTG 62.748 60.000 31.54 15.16 0.00 3.66
4662 5709 3.706373 CCCTAGGCGCCACACTGT 61.706 66.667 31.54 9.39 0.00 3.55
4663 5710 2.355986 CCCTAGGCGCCACACTGTA 61.356 63.158 31.54 10.17 0.00 2.74
4664 5711 1.594833 CCTAGGCGCCACACTGTAA 59.405 57.895 31.54 1.85 0.00 2.41
4665 5712 0.739813 CCTAGGCGCCACACTGTAAC 60.740 60.000 31.54 0.00 0.00 2.50
4666 5713 1.076533 CTAGGCGCCACACTGTAACG 61.077 60.000 31.54 0.00 0.00 3.18
4667 5714 1.808531 TAGGCGCCACACTGTAACGT 61.809 55.000 31.54 5.27 0.00 3.99
4668 5715 2.549282 GCGCCACACTGTAACGTG 59.451 61.111 0.00 0.00 40.67 4.49
4669 5716 2.549282 CGCCACACTGTAACGTGC 59.451 61.111 0.00 0.00 38.45 5.34
4670 5717 2.241190 CGCCACACTGTAACGTGCA 61.241 57.895 0.00 0.00 38.45 4.57
4671 5718 1.569493 GCCACACTGTAACGTGCAG 59.431 57.895 15.99 15.99 38.45 4.41
4672 5719 1.569493 CCACACTGTAACGTGCAGC 59.431 57.895 17.10 0.00 38.45 5.25
4674 5721 2.170985 CACTGTAACGTGCAGCGC 59.829 61.111 17.10 0.00 46.11 5.92
4675 5722 3.041940 ACTGTAACGTGCAGCGCC 61.042 61.111 17.10 0.00 46.11 6.53
4676 5723 2.738521 CTGTAACGTGCAGCGCCT 60.739 61.111 2.29 0.00 46.11 5.52
4677 5724 1.445410 CTGTAACGTGCAGCGCCTA 60.445 57.895 2.29 0.00 46.11 3.93
4678 5725 1.413767 CTGTAACGTGCAGCGCCTAG 61.414 60.000 2.29 0.00 46.11 3.02
4679 5726 2.508439 TAACGTGCAGCGCCTAGC 60.508 61.111 2.29 7.01 46.11 3.42
4696 5743 3.578456 CCCTTAGGCGTTGCACAG 58.422 61.111 0.00 0.00 0.00 3.66
4697 5744 1.302511 CCCTTAGGCGTTGCACAGT 60.303 57.895 0.00 0.00 0.00 3.55
4698 5745 1.577328 CCCTTAGGCGTTGCACAGTG 61.577 60.000 0.00 0.00 0.00 3.66
4699 5746 0.602638 CCTTAGGCGTTGCACAGTGA 60.603 55.000 4.15 0.00 0.00 3.41
4700 5747 0.512952 CTTAGGCGTTGCACAGTGAC 59.487 55.000 4.15 0.00 0.00 3.67
4701 5748 0.105964 TTAGGCGTTGCACAGTGACT 59.894 50.000 4.15 0.00 0.00 3.41
4702 5749 0.105964 TAGGCGTTGCACAGTGACTT 59.894 50.000 4.15 0.00 0.00 3.01
4703 5750 0.105964 AGGCGTTGCACAGTGACTTA 59.894 50.000 4.15 0.00 0.00 2.24
4704 5751 0.941542 GGCGTTGCACAGTGACTTAA 59.058 50.000 4.15 0.00 0.00 1.85
4705 5752 1.069906 GGCGTTGCACAGTGACTTAAG 60.070 52.381 4.15 0.00 0.00 1.85
4706 5753 1.660333 GCGTTGCACAGTGACTTAAGC 60.660 52.381 4.15 0.00 0.00 3.09
4707 5754 1.397190 CGTTGCACAGTGACTTAAGCG 60.397 52.381 4.15 0.00 0.00 4.68
4708 5755 0.586319 TTGCACAGTGACTTAAGCGC 59.414 50.000 4.15 0.00 0.00 5.92
4709 5756 1.130613 GCACAGTGACTTAAGCGCG 59.869 57.895 4.15 0.00 0.00 6.86
4710 5757 1.781555 CACAGTGACTTAAGCGCGG 59.218 57.895 8.83 5.82 0.00 6.46
4711 5758 2.027625 ACAGTGACTTAAGCGCGGC 61.028 57.895 8.83 0.00 0.00 6.53
4712 5759 1.738099 CAGTGACTTAAGCGCGGCT 60.738 57.895 8.83 2.05 42.56 5.52
4713 5760 1.738099 AGTGACTTAAGCGCGGCTG 60.738 57.895 8.83 0.00 39.62 4.85
4714 5761 3.118454 TGACTTAAGCGCGGCTGC 61.118 61.111 8.83 7.70 39.62 5.25
4715 5762 3.865830 GACTTAAGCGCGGCTGCC 61.866 66.667 13.01 9.11 39.62 4.85
4728 5775 4.087892 CTGCCCCAGACCGACCAG 62.088 72.222 0.00 0.00 32.44 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.447244 AACGGACTTGCAAGAGAGAG 57.553 50.000 32.50 18.88 0.00 3.20
156 168 9.595823 GGTGTAGCACTGTTTTCTTCTAATATA 57.404 33.333 0.00 0.00 34.40 0.86
193 205 7.060600 TGTTACTTGCATCTCATAGTTTTCG 57.939 36.000 0.00 0.00 0.00 3.46
208 220 5.157067 GCTGGAGATTTTCTTGTTACTTGC 58.843 41.667 0.00 0.00 0.00 4.01
288 305 4.627467 CGACCTGGTCATGTTTCTCTTTAG 59.373 45.833 25.42 1.27 32.09 1.85
298 315 1.142060 TGTTTTCCGACCTGGTCATGT 59.858 47.619 25.42 0.00 39.52 3.21
358 375 1.103398 GGAAACATCCCGAGGGCATG 61.103 60.000 2.58 10.48 34.68 4.06
402 503 9.607988 TCCGATCAAAAACTAAGCATTTCTATA 57.392 29.630 0.00 0.00 0.00 1.31
504 633 1.303309 GATGCAGAATGACGAAGGGG 58.697 55.000 0.00 0.00 39.69 4.79
543 672 2.103771 TCTCTCACTCAACAGCTGCTTT 59.896 45.455 15.27 0.00 0.00 3.51
544 673 1.690893 TCTCTCACTCAACAGCTGCTT 59.309 47.619 15.27 4.59 0.00 3.91
571 700 2.665000 CACGGCAGGGACATCACT 59.335 61.111 0.00 0.00 0.00 3.41
918 1164 1.697284 CGAGGATGAGGATGAGGACA 58.303 55.000 0.00 0.00 0.00 4.02
939 1185 1.156736 CCTTCTTGTCGTGCCGAATT 58.843 50.000 0.00 0.00 37.72 2.17
942 1188 2.342279 CCCTTCTTGTCGTGCCGA 59.658 61.111 0.00 0.00 0.00 5.54
1297 1582 2.990479 GTTGGAGACGGGCATCCT 59.010 61.111 1.85 0.00 36.50 3.24
1545 1850 2.358737 CCGGTGCTGTCCCAGAAC 60.359 66.667 0.00 0.00 39.21 3.01
1680 1985 1.409064 AGCTTCTTGCCGTCGATGATA 59.591 47.619 6.11 0.00 44.23 2.15
1803 2108 1.669049 CCACGTAGGCGGTGGTATCA 61.669 60.000 14.65 0.00 43.45 2.15
1836 2141 1.066502 TGTGCTATTGCTAGAACGGCA 60.067 47.619 0.00 0.00 36.41 5.69
1845 2150 3.572632 AGGATGATGTGTGCTATTGCT 57.427 42.857 0.00 0.00 40.48 3.91
1922 2275 4.471904 TGTGCTCCTTACCTGACATTAG 57.528 45.455 0.00 0.00 0.00 1.73
1985 2368 2.987149 AGCTACGAACAGATGAAACACG 59.013 45.455 0.00 0.00 0.00 4.49
1993 2377 4.785511 AACAGTGTAGCTACGAACAGAT 57.214 40.909 18.74 2.04 0.00 2.90
2179 2608 0.033601 TGGTGTTGTCCTGCCAAAGT 60.034 50.000 0.00 0.00 0.00 2.66
2371 2800 1.033746 ATGCACCGATGAGGCCAAAG 61.034 55.000 5.01 0.00 46.52 2.77
2412 2841 1.201921 CGTAAATGGAGCTGTTCACGC 60.202 52.381 0.00 0.00 0.00 5.34
2421 2850 1.668419 AGCCATGACGTAAATGGAGC 58.332 50.000 26.35 15.30 46.44 4.70
2821 3274 3.529533 CATCAAACAAAACAAGCCCACA 58.470 40.909 0.00 0.00 0.00 4.17
2993 3584 4.241981 TCCTGTTCATGGGATATGGATGA 58.758 43.478 0.00 0.00 0.00 2.92
3513 4132 1.198713 GCTCTCAACCCTCTCATGGA 58.801 55.000 0.00 0.00 0.00 3.41
3524 4148 3.366781 GGATTTTCTTGGCTGCTCTCAAC 60.367 47.826 0.00 0.00 0.00 3.18
3559 4188 2.511373 CCGAGCGCACCAATAGCA 60.511 61.111 11.47 0.00 0.00 3.49
3598 4344 7.126733 ACTAGACTAGGAATCTAAAAGCAGGA 58.873 38.462 14.03 0.00 0.00 3.86
3690 4447 6.764379 TCACTTGATTAAGATACACACACCA 58.236 36.000 3.94 0.00 37.36 4.17
3720 4487 4.873746 TCGGGAAGAATCACCTATCATC 57.126 45.455 0.00 0.00 0.00 2.92
4417 5464 1.606313 CCAGGTTGCCGGTTTCCAT 60.606 57.895 1.90 0.00 0.00 3.41
4441 5488 7.864379 GGCATCAGGTTAAATATGTGATTTCTG 59.136 37.037 0.00 0.00 0.00 3.02
4444 5491 6.610830 TGGGCATCAGGTTAAATATGTGATTT 59.389 34.615 0.00 0.00 0.00 2.17
4445 5492 6.135454 TGGGCATCAGGTTAAATATGTGATT 58.865 36.000 0.00 0.00 0.00 2.57
4446 5493 5.704354 TGGGCATCAGGTTAAATATGTGAT 58.296 37.500 0.00 0.00 0.00 3.06
4447 5494 5.122707 TGGGCATCAGGTTAAATATGTGA 57.877 39.130 0.00 0.00 0.00 3.58
4448 5495 5.850557 TTGGGCATCAGGTTAAATATGTG 57.149 39.130 0.00 0.00 0.00 3.21
4449 5496 6.610830 TGATTTGGGCATCAGGTTAAATATGT 59.389 34.615 0.00 0.00 0.00 2.29
4450 5497 7.053316 TGATTTGGGCATCAGGTTAAATATG 57.947 36.000 0.00 0.00 0.00 1.78
4451 5498 7.673641 TTGATTTGGGCATCAGGTTAAATAT 57.326 32.000 0.00 0.00 34.59 1.28
4452 5499 7.487822 TTTGATTTGGGCATCAGGTTAAATA 57.512 32.000 0.00 0.00 34.59 1.40
4453 5500 6.371595 TTTGATTTGGGCATCAGGTTAAAT 57.628 33.333 0.00 0.00 34.59 1.40
4454 5501 5.815233 TTTGATTTGGGCATCAGGTTAAA 57.185 34.783 0.00 0.00 34.59 1.52
4455 5502 5.483231 TGATTTGATTTGGGCATCAGGTTAA 59.517 36.000 0.00 0.00 34.59 2.01
4456 5503 5.022122 TGATTTGATTTGGGCATCAGGTTA 58.978 37.500 0.00 0.00 34.59 2.85
4457 5504 3.839490 TGATTTGATTTGGGCATCAGGTT 59.161 39.130 0.00 0.00 34.59 3.50
4458 5505 3.196254 GTGATTTGATTTGGGCATCAGGT 59.804 43.478 0.00 0.00 34.59 4.00
4459 5506 3.196039 TGTGATTTGATTTGGGCATCAGG 59.804 43.478 0.00 0.00 34.59 3.86
4460 5507 4.459390 TGTGATTTGATTTGGGCATCAG 57.541 40.909 0.00 0.00 34.59 2.90
4461 5508 4.886496 TTGTGATTTGATTTGGGCATCA 57.114 36.364 0.00 0.00 0.00 3.07
4462 5509 5.121142 CAGTTTGTGATTTGATTTGGGCATC 59.879 40.000 0.00 0.00 0.00 3.91
4463 5510 4.998672 CAGTTTGTGATTTGATTTGGGCAT 59.001 37.500 0.00 0.00 0.00 4.40
4464 5511 4.100653 TCAGTTTGTGATTTGATTTGGGCA 59.899 37.500 0.00 0.00 0.00 5.36
4465 5512 4.448732 GTCAGTTTGTGATTTGATTTGGGC 59.551 41.667 0.00 0.00 37.56 5.36
4466 5513 5.846203 AGTCAGTTTGTGATTTGATTTGGG 58.154 37.500 0.00 0.00 37.56 4.12
4467 5514 8.373740 AGCAAGTCAGTTTGTGATTTGATTTGG 61.374 37.037 12.78 0.00 46.06 3.28
4468 5515 6.477688 AGCAAGTCAGTTTGTGATTTGATTTG 59.522 34.615 12.78 4.77 46.06 2.32
4469 5516 6.576185 AGCAAGTCAGTTTGTGATTTGATTT 58.424 32.000 12.78 0.00 46.06 2.17
4470 5517 6.152932 AGCAAGTCAGTTTGTGATTTGATT 57.847 33.333 12.78 0.10 46.06 2.57
4474 5521 5.357878 TCAAGAGCAAGTCAGTTTGTGATTT 59.642 36.000 0.00 0.00 37.56 2.17
4475 5522 4.883585 TCAAGAGCAAGTCAGTTTGTGATT 59.116 37.500 0.00 0.00 37.56 2.57
4476 5523 4.454678 TCAAGAGCAAGTCAGTTTGTGAT 58.545 39.130 0.00 0.00 37.56 3.06
4477 5524 3.872696 TCAAGAGCAAGTCAGTTTGTGA 58.127 40.909 0.00 0.00 0.00 3.58
4478 5525 4.621068 TTCAAGAGCAAGTCAGTTTGTG 57.379 40.909 0.00 0.00 0.00 3.33
4479 5526 5.643379 TTTTCAAGAGCAAGTCAGTTTGT 57.357 34.783 0.00 0.00 0.00 2.83
4499 5546 8.823818 CAAAAGATTCAGCAGAGTGAAATTTTT 58.176 29.630 0.00 7.27 39.84 1.94
4500 5547 7.983484 ACAAAAGATTCAGCAGAGTGAAATTTT 59.017 29.630 0.00 0.00 39.84 1.82
4501 5548 7.437267 CACAAAAGATTCAGCAGAGTGAAATTT 59.563 33.333 0.00 0.00 39.84 1.82
4502 5549 6.921857 CACAAAAGATTCAGCAGAGTGAAATT 59.078 34.615 0.00 0.00 39.84 1.82
4503 5550 6.040166 ACACAAAAGATTCAGCAGAGTGAAAT 59.960 34.615 0.00 0.00 39.84 2.17
4504 5551 5.357878 ACACAAAAGATTCAGCAGAGTGAAA 59.642 36.000 0.00 0.00 39.84 2.69
4505 5552 4.883585 ACACAAAAGATTCAGCAGAGTGAA 59.116 37.500 0.00 0.00 40.68 3.18
4506 5553 4.274214 CACACAAAAGATTCAGCAGAGTGA 59.726 41.667 0.00 0.00 0.00 3.41
4507 5554 4.534168 CACACAAAAGATTCAGCAGAGTG 58.466 43.478 0.00 0.00 0.00 3.51
4508 5555 3.567164 CCACACAAAAGATTCAGCAGAGT 59.433 43.478 0.00 0.00 0.00 3.24
4509 5556 3.611057 GCCACACAAAAGATTCAGCAGAG 60.611 47.826 0.00 0.00 0.00 3.35
4510 5557 2.294233 GCCACACAAAAGATTCAGCAGA 59.706 45.455 0.00 0.00 0.00 4.26
4511 5558 2.669364 GCCACACAAAAGATTCAGCAG 58.331 47.619 0.00 0.00 0.00 4.24
4512 5559 1.001487 CGCCACACAAAAGATTCAGCA 60.001 47.619 0.00 0.00 0.00 4.41
4513 5560 1.001378 ACGCCACACAAAAGATTCAGC 60.001 47.619 0.00 0.00 0.00 4.26
4514 5561 2.350772 GGACGCCACACAAAAGATTCAG 60.351 50.000 0.00 0.00 0.00 3.02
4515 5562 1.606668 GGACGCCACACAAAAGATTCA 59.393 47.619 0.00 0.00 0.00 2.57
4516 5563 1.399727 CGGACGCCACACAAAAGATTC 60.400 52.381 0.00 0.00 0.00 2.52
4517 5564 0.591170 CGGACGCCACACAAAAGATT 59.409 50.000 0.00 0.00 0.00 2.40
4518 5565 0.250124 TCGGACGCCACACAAAAGAT 60.250 50.000 0.00 0.00 0.00 2.40
4519 5566 1.144276 TCGGACGCCACACAAAAGA 59.856 52.632 0.00 0.00 0.00 2.52
4520 5567 1.278637 GTCGGACGCCACACAAAAG 59.721 57.895 0.00 0.00 0.00 2.27
4521 5568 1.433053 CTGTCGGACGCCACACAAAA 61.433 55.000 3.34 0.00 0.00 2.44
4522 5569 1.885388 CTGTCGGACGCCACACAAA 60.885 57.895 3.34 0.00 0.00 2.83
4523 5570 2.279851 CTGTCGGACGCCACACAA 60.280 61.111 3.34 0.00 0.00 3.33
4524 5571 4.961511 GCTGTCGGACGCCACACA 62.962 66.667 11.98 0.00 0.00 3.72
4525 5572 3.277211 TAGCTGTCGGACGCCACAC 62.277 63.158 17.10 0.00 0.00 3.82
4526 5573 2.986979 TAGCTGTCGGACGCCACA 60.987 61.111 17.10 5.03 0.00 4.17
4527 5574 2.202623 CTAGCTGTCGGACGCCAC 60.203 66.667 17.10 2.36 0.00 5.01
4528 5575 3.449227 CCTAGCTGTCGGACGCCA 61.449 66.667 17.10 7.00 0.00 5.69
4529 5576 4.874977 GCCTAGCTGTCGGACGCC 62.875 72.222 17.10 5.74 0.00 5.68
4540 5587 2.717139 GGTAGGATGTGGCGCCTAGC 62.717 65.000 29.70 19.06 44.87 3.42
4541 5588 1.367840 GGTAGGATGTGGCGCCTAG 59.632 63.158 29.70 0.00 37.43 3.02
4542 5589 2.495409 CGGTAGGATGTGGCGCCTA 61.495 63.158 29.70 17.50 35.73 3.93
4543 5590 3.849951 CGGTAGGATGTGGCGCCT 61.850 66.667 29.70 7.33 38.31 5.52
4546 5593 4.910585 GGGCGGTAGGATGTGGCG 62.911 72.222 0.00 0.00 0.00 5.69
4547 5594 2.942648 GAAGGGCGGTAGGATGTGGC 62.943 65.000 0.00 0.00 0.00 5.01
4548 5595 1.146263 GAAGGGCGGTAGGATGTGG 59.854 63.158 0.00 0.00 0.00 4.17
4549 5596 1.146263 GGAAGGGCGGTAGGATGTG 59.854 63.158 0.00 0.00 0.00 3.21
4550 5597 2.070650 GGGAAGGGCGGTAGGATGT 61.071 63.158 0.00 0.00 0.00 3.06
4551 5598 1.345715 AAGGGAAGGGCGGTAGGATG 61.346 60.000 0.00 0.00 0.00 3.51
4552 5599 0.266753 TAAGGGAAGGGCGGTAGGAT 59.733 55.000 0.00 0.00 0.00 3.24
4553 5600 0.398098 CTAAGGGAAGGGCGGTAGGA 60.398 60.000 0.00 0.00 0.00 2.94
4554 5601 1.408453 CCTAAGGGAAGGGCGGTAGG 61.408 65.000 0.00 0.00 32.55 3.18
4555 5602 2.041206 GCCTAAGGGAAGGGCGGTAG 62.041 65.000 0.00 0.00 37.11 3.18
4556 5603 2.068213 GCCTAAGGGAAGGGCGGTA 61.068 63.158 0.00 0.00 37.11 4.02
4557 5604 3.408853 GCCTAAGGGAAGGGCGGT 61.409 66.667 0.00 0.00 37.11 5.68
4560 5607 2.189784 GACGCCTAAGGGAAGGGC 59.810 66.667 0.00 0.00 42.18 5.19
4561 5608 2.499685 CGACGCCTAAGGGAAGGG 59.500 66.667 0.00 0.00 37.11 3.95
4562 5609 2.202892 GCGACGCCTAAGGGAAGG 60.203 66.667 9.14 0.00 39.87 3.46
4563 5610 1.810030 GTGCGACGCCTAAGGGAAG 60.810 63.158 18.69 0.00 33.58 3.46
4564 5611 2.263540 GTGCGACGCCTAAGGGAA 59.736 61.111 18.69 0.00 33.58 3.97
4565 5612 3.766691 GGTGCGACGCCTAAGGGA 61.767 66.667 18.69 0.00 33.58 4.20
4566 5613 3.718210 GAGGTGCGACGCCTAAGGG 62.718 68.421 18.69 0.00 45.19 3.95
4567 5614 2.202756 GAGGTGCGACGCCTAAGG 60.203 66.667 18.69 0.00 45.19 2.69
4568 5615 2.202756 GGAGGTGCGACGCCTAAG 60.203 66.667 18.69 0.00 45.19 2.18
4569 5616 2.678934 AGGAGGTGCGACGCCTAA 60.679 61.111 18.69 0.00 45.19 2.69
4570 5617 3.449227 CAGGAGGTGCGACGCCTA 61.449 66.667 18.69 0.00 45.19 3.93
4588 5635 3.052082 CTTGGACTGCCACGCTGG 61.052 66.667 0.00 0.25 45.94 4.85
4589 5636 3.052082 CCTTGGACTGCCACGCTG 61.052 66.667 0.00 0.00 45.94 5.18
4629 5676 2.690778 GGGTTTAGGCGCTGCACAG 61.691 63.158 7.64 0.00 0.00 3.66
4630 5677 1.832719 TAGGGTTTAGGCGCTGCACA 61.833 55.000 7.64 0.00 33.59 4.57
4631 5678 1.078708 TAGGGTTTAGGCGCTGCAC 60.079 57.895 7.64 0.00 33.59 4.57
4632 5679 1.220749 CTAGGGTTTAGGCGCTGCA 59.779 57.895 7.64 0.00 33.59 4.41
4633 5680 1.523938 CCTAGGGTTTAGGCGCTGC 60.524 63.158 7.64 0.00 33.59 5.25
4634 5681 4.857251 CCTAGGGTTTAGGCGCTG 57.143 61.111 7.64 0.00 33.59 5.18
4639 5686 1.153229 GTGGCGCCTAGGGTTTAGG 60.153 63.158 29.70 0.00 37.75 2.69
4640 5687 0.743345 GTGTGGCGCCTAGGGTTTAG 60.743 60.000 29.70 0.00 0.00 1.85
4641 5688 1.196104 AGTGTGGCGCCTAGGGTTTA 61.196 55.000 29.70 0.07 0.00 2.01
4642 5689 2.033602 GTGTGGCGCCTAGGGTTT 59.966 61.111 29.70 0.00 0.00 3.27
4643 5690 2.928396 AGTGTGGCGCCTAGGGTT 60.928 61.111 29.70 5.41 0.00 4.11
4644 5691 3.706373 CAGTGTGGCGCCTAGGGT 61.706 66.667 29.70 5.45 0.00 4.34
4645 5692 1.895020 TTACAGTGTGGCGCCTAGGG 61.895 60.000 29.70 15.51 0.00 3.53
4646 5693 0.739813 GTTACAGTGTGGCGCCTAGG 60.740 60.000 29.70 14.77 0.00 3.02
4647 5694 1.076533 CGTTACAGTGTGGCGCCTAG 61.077 60.000 29.70 14.72 0.00 3.02
4648 5695 1.080366 CGTTACAGTGTGGCGCCTA 60.080 57.895 29.70 14.39 0.00 3.93
4649 5696 2.357034 CGTTACAGTGTGGCGCCT 60.357 61.111 29.70 8.67 0.00 5.52
4650 5697 2.663852 ACGTTACAGTGTGGCGCC 60.664 61.111 22.73 22.73 0.00 6.53
4651 5698 2.549282 CACGTTACAGTGTGGCGC 59.451 61.111 17.30 0.00 37.35 6.53
4652 5699 2.158058 CTGCACGTTACAGTGTGGCG 62.158 60.000 5.88 12.43 43.61 5.69
4653 5700 1.569493 CTGCACGTTACAGTGTGGC 59.431 57.895 5.88 2.61 43.61 5.01
4654 5701 1.569493 GCTGCACGTTACAGTGTGG 59.431 57.895 14.93 0.00 43.61 4.17
4655 5702 1.201578 CGCTGCACGTTACAGTGTG 59.798 57.895 16.97 5.70 43.61 3.82
4656 5703 2.594962 GCGCTGCACGTTACAGTGT 61.595 57.895 22.90 0.00 45.35 3.55
4657 5704 2.170985 GCGCTGCACGTTACAGTG 59.829 61.111 19.68 19.68 46.13 3.66
4658 5705 2.149803 TAGGCGCTGCACGTTACAGT 62.150 55.000 7.64 0.69 46.11 3.55
4659 5706 1.413767 CTAGGCGCTGCACGTTACAG 61.414 60.000 7.64 10.37 46.11 2.74
4660 5707 1.445410 CTAGGCGCTGCACGTTACA 60.445 57.895 7.64 0.00 46.11 2.41
4661 5708 2.799540 GCTAGGCGCTGCACGTTAC 61.800 63.158 7.64 0.00 46.11 2.50
4662 5709 2.508439 GCTAGGCGCTGCACGTTA 60.508 61.111 7.64 3.85 46.11 3.18
4679 5726 1.302511 ACTGTGCAACGCCTAAGGG 60.303 57.895 0.00 0.00 42.39 3.95
4680 5727 0.602638 TCACTGTGCAACGCCTAAGG 60.603 55.000 2.12 0.00 42.39 2.69
4681 5728 0.512952 GTCACTGTGCAACGCCTAAG 59.487 55.000 2.12 0.00 42.39 2.18
4682 5729 0.105964 AGTCACTGTGCAACGCCTAA 59.894 50.000 2.12 0.00 42.39 2.69
4683 5730 0.105964 AAGTCACTGTGCAACGCCTA 59.894 50.000 2.12 0.00 42.39 3.93
4684 5731 0.105964 TAAGTCACTGTGCAACGCCT 59.894 50.000 2.12 0.00 42.39 5.52
4685 5732 0.941542 TTAAGTCACTGTGCAACGCC 59.058 50.000 2.12 0.00 42.39 5.68
4686 5733 1.660333 GCTTAAGTCACTGTGCAACGC 60.660 52.381 2.12 0.00 42.39 4.84
4687 5734 1.397190 CGCTTAAGTCACTGTGCAACG 60.397 52.381 2.12 0.00 42.39 4.10
4688 5735 1.660333 GCGCTTAAGTCACTGTGCAAC 60.660 52.381 0.00 0.00 36.16 4.17
4689 5736 0.586319 GCGCTTAAGTCACTGTGCAA 59.414 50.000 0.00 0.00 36.16 4.08
4690 5737 1.556591 CGCGCTTAAGTCACTGTGCA 61.557 55.000 5.56 0.00 35.91 4.57
4691 5738 1.130613 CGCGCTTAAGTCACTGTGC 59.869 57.895 5.56 0.00 0.00 4.57
4692 5739 1.781555 CCGCGCTTAAGTCACTGTG 59.218 57.895 5.56 0.17 0.00 3.66
4693 5740 2.027625 GCCGCGCTTAAGTCACTGT 61.028 57.895 5.56 0.00 0.00 3.55
4694 5741 1.738099 AGCCGCGCTTAAGTCACTG 60.738 57.895 5.56 0.00 33.89 3.66
4695 5742 1.738099 CAGCCGCGCTTAAGTCACT 60.738 57.895 5.56 0.00 36.40 3.41
4696 5743 2.778679 CAGCCGCGCTTAAGTCAC 59.221 61.111 5.56 0.00 36.40 3.67
4697 5744 3.118454 GCAGCCGCGCTTAAGTCA 61.118 61.111 5.56 0.00 36.40 3.41
4698 5745 3.865830 GGCAGCCGCGCTTAAGTC 61.866 66.667 5.56 0.00 36.40 3.01
4711 5758 4.087892 CTGGTCGGTCTGGGGCAG 62.088 72.222 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.