Multiple sequence alignment - TraesCS7D01G215500

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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 TraesCS7D01G215500 chr7D 100.000 5378 0 0 1 5378 175640451 175645828 0.000000e+00 9932.0
1 TraesCS7D01G215500 chr7D 79.500 400 56 11 2321 2717 17430844 17431220 1.490000e-65 261.0
2 TraesCS7D01G215500 chr7D 82.278 316 42 6 2410 2724 571484978 571484676 1.490000e-65 261.0
3 TraesCS7D01G215500 chr7D 82.979 141 20 4 454 591 34757005 34756866 2.030000e-24 124.0
4 TraesCS7D01G215500 chr7B 91.471 2685 147 29 2720 5378 140928674 140931302 0.000000e+00 3615.0
5 TraesCS7D01G215500 chr7B 92.746 2371 92 22 1 2331 140926344 140928674 0.000000e+00 3352.0
6 TraesCS7D01G215500 chr7A 94.983 1754 47 17 597 2331 177323202 177324933 0.000000e+00 2713.0
7 TraesCS7D01G215500 chr7A 94.277 1555 72 10 3833 5378 177326008 177327554 0.000000e+00 2362.0
8 TraesCS7D01G215500 chr7A 97.135 1082 28 3 2720 3800 177324933 177326012 0.000000e+00 1823.0
9 TraesCS7D01G215500 chr7A 92.883 281 18 2 318 597 177322649 177322928 1.800000e-109 407.0
10 TraesCS7D01G215500 chr7A 89.254 335 21 2 1 327 177321901 177322228 6.490000e-109 405.0
11 TraesCS7D01G215500 chr7A 82.957 399 53 11 2319 2713 719648429 719648816 3.990000e-91 346.0
12 TraesCS7D01G215500 chr7A 79.688 320 37 12 2398 2717 411086582 411086291 7.060000e-49 206.0
13 TraesCS7D01G215500 chr3D 93.464 306 18 2 2327 2632 571017166 571016863 2.280000e-123 453.0
14 TraesCS7D01G215500 chr4D 86.250 400 45 4 2319 2717 429121484 429121874 4.980000e-115 425.0
15 TraesCS7D01G215500 chr4D 82.993 294 41 6 2321 2614 399221000 399220716 1.920000e-64 257.0
16 TraesCS7D01G215500 chr4D 83.230 161 21 3 2553 2713 92186676 92186830 5.610000e-30 143.0
17 TraesCS7D01G215500 chr2D 86.579 380 41 4 2331 2709 648452941 648453311 1.390000e-110 411.0
18 TraesCS7D01G215500 chr2D 84.615 130 17 3 463 591 555108723 555108596 5.650000e-25 126.0
19 TraesCS7D01G215500 chr6B 85.500 400 48 3 2328 2726 444910607 444910997 5.010000e-110 409.0
20 TraesCS7D01G215500 chr6B 85.974 385 45 2 2328 2712 444921487 444921862 2.330000e-108 403.0
21 TraesCS7D01G215500 chr6B 91.935 62 3 2 2658 2717 679764887 679764948 9.600000e-13 86.1
22 TraesCS7D01G215500 chr4A 80.998 421 66 9 2321 2737 56715603 56715193 6.720000e-84 322.0
23 TraesCS7D01G215500 chr4A 86.923 130 16 1 463 591 514080141 514080012 1.560000e-30 145.0
24 TraesCS7D01G215500 chr3B 79.218 409 49 15 1656 2044 640692001 640692393 8.940000e-63 252.0
25 TraesCS7D01G215500 chr1A 79.310 319 35 13 2401 2717 352320890 352320601 1.530000e-45 195.0
26 TraesCS7D01G215500 chr1A 85.859 99 12 2 5131 5229 456939726 456939822 2.650000e-18 104.0
27 TraesCS7D01G215500 chr1A 85.714 63 3 3 5175 5231 557964558 557964496 1.620000e-05 62.1
28 TraesCS7D01G215500 chr5D 80.508 236 19 9 2481 2715 264065397 264065606 7.210000e-34 156.0
29 TraesCS7D01G215500 chr5D 85.496 131 17 2 463 593 535006240 535006368 9.400000e-28 135.0
30 TraesCS7D01G215500 chr4B 83.951 162 18 5 2553 2713 128536020 128536174 1.210000e-31 148.0
31 TraesCS7D01G215500 chr6D 84.058 138 20 2 463 599 256728473 256728609 1.220000e-26 132.0
32 TraesCS7D01G215500 chr6D 84.058 138 20 2 463 599 256729270 256729406 1.220000e-26 132.0
33 TraesCS7D01G215500 chr6D 84.091 132 19 2 463 592 349988457 349988588 5.650000e-25 126.0
34 TraesCS7D01G215500 chr2A 84.211 133 21 0 2585 2717 71216407 71216275 4.370000e-26 130.0
35 TraesCS7D01G215500 chr1B 84.946 93 11 3 5140 5229 478720833 478720925 2.060000e-14 91.6
36 TraesCS7D01G215500 chr2B 84.706 85 12 1 5128 5211 32632008 32631924 3.450000e-12 84.2
37 TraesCS7D01G215500 chr5B 87.143 70 5 3 2652 2721 609093263 609093198 5.780000e-10 76.8


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 TraesCS7D01G215500 chr7D 175640451 175645828 5377 False 9932.0 9932 100.0000 1 5378 1 chr7D.!!$F2 5377
1 TraesCS7D01G215500 chr7B 140926344 140931302 4958 False 3483.5 3615 92.1085 1 5378 2 chr7B.!!$F1 5377
2 TraesCS7D01G215500 chr7A 177321901 177327554 5653 False 1542.0 2713 93.7064 1 5378 5 chr7A.!!$F2 5377


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
819 1550 1.743995 CCGGTCGGAATCAACACCC 60.744 63.158 2.83 0.00 37.50 4.61 F
2363 3130 0.515127 CGTGCGTTGCAACAGGAATA 59.485 50.000 28.01 5.49 41.47 1.75 F
2671 3438 0.766131 TGTAAGGAAGGTTGGCCGAA 59.234 50.000 0.00 0.00 40.50 4.30 F
3324 4108 1.071471 CTGTGGCCCTGTTCTCGTT 59.929 57.895 0.00 0.00 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2665 3432 0.253327 ATTTCACCTCTCCTTCGGCC 59.747 55.000 0.0 0.0 0.0 6.13 R
3293 4077 0.249031 GCCACAGTTCAGTTTGCACC 60.249 55.000 0.0 0.0 0.0 5.01 R
4131 4915 1.871039 TGTTGAAGTTTCCGTAGCAGC 59.129 47.619 0.0 0.0 0.0 5.25 R
5056 5840 0.449388 CTGGGCGACTTTTCATGAGC 59.551 55.000 0.0 0.0 0.0 4.26 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
110 119 2.304180 GCCATGGATCAGGTAGCTACAT 59.696 50.000 24.75 16.12 0.00 2.29
160 169 6.016192 CAGGTAGCCGAGATTGACTCTTTATA 60.016 42.308 0.00 0.00 42.92 0.98
195 204 7.391833 GTCTCCTTTCATTTCCACTACTTCATT 59.608 37.037 0.00 0.00 0.00 2.57
330 769 8.672815 TCTTGAAATTGAACGTTATGATATGCA 58.327 29.630 0.00 0.00 0.00 3.96
409 848 3.186409 CGAAATGTGTGTGGTGTTCTAGG 59.814 47.826 0.00 0.00 0.00 3.02
474 913 9.614792 GTCCCTACACATTTAGATGTTCTATTT 57.385 33.333 0.00 0.00 43.92 1.40
683 1408 2.064434 TCCACTTGCATGAACCACAA 57.936 45.000 6.60 0.00 0.00 3.33
799 1526 1.798813 CAAGAAGCCTCGTAAAAGCGT 59.201 47.619 0.00 0.00 0.00 5.07
819 1550 1.743995 CCGGTCGGAATCAACACCC 60.744 63.158 2.83 0.00 37.50 4.61
998 1729 4.668289 TCGGTTTGAAAAGAGACAAAAGC 58.332 39.130 0.00 0.00 37.66 3.51
999 1730 4.156922 TCGGTTTGAAAAGAGACAAAAGCA 59.843 37.500 0.00 0.00 37.66 3.91
1141 1872 4.457496 CCCTCATGGTGAGCGCGT 62.457 66.667 8.43 0.00 42.98 6.01
1209 1940 1.600058 TGGAGGGATTTCATGCTCCT 58.400 50.000 13.77 4.64 32.63 3.69
1243 1974 5.063564 GCTTGTAGATTCGGGTTGTTCTAAG 59.936 44.000 0.00 0.00 0.00 2.18
1463 2196 5.220989 GGTTTCCCTGTGTACTTTTCTGAAC 60.221 44.000 0.00 0.00 0.00 3.18
1494 2227 1.673033 GGAGTGGTTCAGATGTCGTGG 60.673 57.143 0.00 0.00 0.00 4.94
1508 2241 2.292267 GTCGTGGTTCGGTAGATAGGA 58.708 52.381 0.00 0.00 40.32 2.94
1556 2290 6.183360 GGAATTTCATTGTCATTGCATGGTTC 60.183 38.462 0.00 0.00 0.00 3.62
1592 2337 2.664085 CGCAAGTTTGTCGGTTTTTGTT 59.336 40.909 0.00 0.00 0.00 2.83
1593 2338 3.852536 CGCAAGTTTGTCGGTTTTTGTTA 59.147 39.130 0.00 0.00 0.00 2.41
1594 2339 4.323868 CGCAAGTTTGTCGGTTTTTGTTAA 59.676 37.500 0.00 0.00 0.00 2.01
1595 2340 5.497911 CGCAAGTTTGTCGGTTTTTGTTAAG 60.498 40.000 0.00 0.00 0.00 1.85
1596 2341 5.346551 GCAAGTTTGTCGGTTTTTGTTAAGT 59.653 36.000 0.00 0.00 0.00 2.24
1597 2342 6.128769 GCAAGTTTGTCGGTTTTTGTTAAGTT 60.129 34.615 0.00 0.00 0.00 2.66
1598 2343 7.569774 GCAAGTTTGTCGGTTTTTGTTAAGTTT 60.570 33.333 0.00 0.00 0.00 2.66
1599 2344 7.949903 AGTTTGTCGGTTTTTGTTAAGTTTT 57.050 28.000 0.00 0.00 0.00 2.43
1600 2345 8.367943 AGTTTGTCGGTTTTTGTTAAGTTTTT 57.632 26.923 0.00 0.00 0.00 1.94
1601 2346 8.277018 AGTTTGTCGGTTTTTGTTAAGTTTTTG 58.723 29.630 0.00 0.00 0.00 2.44
1602 2347 7.710766 TTGTCGGTTTTTGTTAAGTTTTTGT 57.289 28.000 0.00 0.00 0.00 2.83
1672 2417 3.955771 TGAGCTTTTGTAACGGTGAAC 57.044 42.857 0.00 0.00 0.00 3.18
1682 2427 2.358125 CGGTGAACGTGGGATGCA 60.358 61.111 0.00 0.00 37.93 3.96
1810 2555 3.609853 TGATTCAAATGGAGAGAACGGG 58.390 45.455 0.00 0.00 0.00 5.28
2035 2780 4.871993 AGAAGCTTTGATCAAGTATGCG 57.128 40.909 8.41 0.00 34.56 4.73
2348 3115 5.744666 TTAAACTAGATAATTGCCCGTGC 57.255 39.130 0.00 0.00 38.26 5.34
2349 3116 1.865865 ACTAGATAATTGCCCGTGCG 58.134 50.000 0.00 0.00 41.78 5.34
2350 3117 1.138266 ACTAGATAATTGCCCGTGCGT 59.862 47.619 0.00 0.00 41.78 5.24
2351 3118 2.210116 CTAGATAATTGCCCGTGCGTT 58.790 47.619 0.00 0.00 41.78 4.84
2352 3119 0.732571 AGATAATTGCCCGTGCGTTG 59.267 50.000 0.00 0.00 41.78 4.10
2353 3120 0.865639 GATAATTGCCCGTGCGTTGC 60.866 55.000 0.00 0.00 41.78 4.17
2354 3121 1.590610 ATAATTGCCCGTGCGTTGCA 61.591 50.000 2.68 2.68 41.78 4.08
2356 3123 3.839642 ATTGCCCGTGCGTTGCAAC 62.840 57.895 19.89 19.89 46.60 4.17
2358 3125 4.980903 GCCCGTGCGTTGCAACAG 62.981 66.667 28.01 20.60 41.47 3.16
2359 3126 4.326766 CCCGTGCGTTGCAACAGG 62.327 66.667 28.01 22.31 41.47 4.00
2360 3127 3.276091 CCGTGCGTTGCAACAGGA 61.276 61.111 28.01 18.68 41.47 3.86
2361 3128 2.712539 CGTGCGTTGCAACAGGAA 59.287 55.556 28.01 5.70 41.47 3.36
2362 3129 1.282570 CGTGCGTTGCAACAGGAAT 59.717 52.632 28.01 0.00 41.47 3.01
2363 3130 0.515127 CGTGCGTTGCAACAGGAATA 59.485 50.000 28.01 5.49 41.47 1.75
2364 3131 1.130373 CGTGCGTTGCAACAGGAATAT 59.870 47.619 28.01 0.00 41.47 1.28
2365 3132 2.350192 CGTGCGTTGCAACAGGAATATA 59.650 45.455 28.01 3.12 41.47 0.86
2366 3133 3.181515 CGTGCGTTGCAACAGGAATATAA 60.182 43.478 28.01 0.84 41.47 0.98
2367 3134 4.670478 CGTGCGTTGCAACAGGAATATAAA 60.670 41.667 28.01 0.00 41.47 1.40
2368 3135 4.557301 GTGCGTTGCAACAGGAATATAAAC 59.443 41.667 28.01 7.60 41.47 2.01
2369 3136 4.216472 TGCGTTGCAACAGGAATATAAACA 59.784 37.500 28.01 8.80 34.76 2.83
2370 3137 5.105957 TGCGTTGCAACAGGAATATAAACAT 60.106 36.000 28.01 0.00 34.76 2.71
2371 3138 5.804979 GCGTTGCAACAGGAATATAAACATT 59.195 36.000 28.01 0.00 0.00 2.71
2372 3139 6.020678 GCGTTGCAACAGGAATATAAACATTC 60.021 38.462 28.01 0.00 34.71 2.67
2373 3140 7.250569 CGTTGCAACAGGAATATAAACATTCT 58.749 34.615 28.01 0.00 35.61 2.40
2374 3141 8.394877 CGTTGCAACAGGAATATAAACATTCTA 58.605 33.333 28.01 0.00 35.61 2.10
2391 3158 9.490379 AAACATTCTAATAGATTATCCCGTGAC 57.510 33.333 0.00 0.00 0.00 3.67
2392 3159 8.423906 ACATTCTAATAGATTATCCCGTGACT 57.576 34.615 0.00 0.00 0.00 3.41
2393 3160 8.307483 ACATTCTAATAGATTATCCCGTGACTG 58.693 37.037 0.00 0.00 0.00 3.51
2394 3161 7.834881 TTCTAATAGATTATCCCGTGACTGT 57.165 36.000 0.00 0.00 0.00 3.55
2395 3162 8.929260 TTCTAATAGATTATCCCGTGACTGTA 57.071 34.615 0.00 0.00 0.00 2.74
2396 3163 8.332996 TCTAATAGATTATCCCGTGACTGTAC 57.667 38.462 0.00 0.00 0.00 2.90
2397 3164 3.984508 AGATTATCCCGTGACTGTACG 57.015 47.619 0.00 0.00 43.35 3.67
2398 3165 3.285484 AGATTATCCCGTGACTGTACGT 58.715 45.455 0.00 0.00 42.24 3.57
2399 3166 3.314635 AGATTATCCCGTGACTGTACGTC 59.685 47.826 0.00 9.87 42.24 4.34
2400 3167 2.408271 TATCCCGTGACTGTACGTCT 57.592 50.000 15.47 1.77 43.25 4.18
2401 3168 2.408271 ATCCCGTGACTGTACGTCTA 57.592 50.000 15.47 3.87 43.25 2.59
2402 3169 2.408271 TCCCGTGACTGTACGTCTAT 57.592 50.000 15.47 0.00 43.25 1.98
2403 3170 2.715046 TCCCGTGACTGTACGTCTATT 58.285 47.619 15.47 0.00 43.25 1.73
2404 3171 3.872696 TCCCGTGACTGTACGTCTATTA 58.127 45.455 15.47 0.00 43.25 0.98
2405 3172 4.454678 TCCCGTGACTGTACGTCTATTAT 58.545 43.478 15.47 0.00 43.25 1.28
2406 3173 4.883585 TCCCGTGACTGTACGTCTATTATT 59.116 41.667 15.47 0.00 43.25 1.40
2407 3174 6.054941 TCCCGTGACTGTACGTCTATTATTA 58.945 40.000 15.47 0.00 43.25 0.98
2408 3175 6.017934 TCCCGTGACTGTACGTCTATTATTAC 60.018 42.308 15.47 6.06 43.25 1.89
2409 3176 6.238456 CCCGTGACTGTACGTCTATTATTACA 60.238 42.308 15.47 0.00 43.25 2.41
2410 3177 7.358066 CCGTGACTGTACGTCTATTATTACAT 58.642 38.462 15.47 0.00 43.25 2.29
2411 3178 7.859377 CCGTGACTGTACGTCTATTATTACATT 59.141 37.037 15.47 0.00 43.25 2.71
2412 3179 8.679385 CGTGACTGTACGTCTATTATTACATTG 58.321 37.037 15.47 0.00 43.25 2.82
2413 3180 9.726232 GTGACTGTACGTCTATTATTACATTGA 57.274 33.333 15.47 0.00 43.25 2.57
2416 3183 9.193133 ACTGTACGTCTATTATTACATTGATGC 57.807 33.333 0.00 0.00 0.00 3.91
2417 3184 8.222984 TGTACGTCTATTATTACATTGATGCG 57.777 34.615 0.00 0.00 0.00 4.73
2418 3185 6.153212 ACGTCTATTATTACATTGATGCGC 57.847 37.500 0.00 0.00 0.00 6.09
2419 3186 5.926542 ACGTCTATTATTACATTGATGCGCT 59.073 36.000 9.73 0.00 0.00 5.92
2420 3187 7.088272 ACGTCTATTATTACATTGATGCGCTA 58.912 34.615 9.73 0.00 0.00 4.26
2421 3188 7.597369 ACGTCTATTATTACATTGATGCGCTAA 59.403 33.333 9.73 1.37 0.00 3.09
2422 3189 8.432359 CGTCTATTATTACATTGATGCGCTAAA 58.568 33.333 9.73 0.00 0.00 1.85
2449 3216 8.172159 TCTTAGCAAATTTTTGTATGCAATCG 57.828 30.769 0.00 0.00 41.18 3.34
2450 3217 5.207305 AGCAAATTTTTGTATGCAATCGC 57.793 34.783 0.00 0.00 41.18 4.58
2451 3218 4.093261 AGCAAATTTTTGTATGCAATCGCC 59.907 37.500 0.00 0.00 41.18 5.54
2452 3219 4.142945 GCAAATTTTTGTATGCAATCGCCA 60.143 37.500 0.00 0.00 40.24 5.69
2453 3220 5.616424 GCAAATTTTTGTATGCAATCGCCAA 60.616 36.000 0.00 0.00 40.24 4.52
2454 3221 6.544622 CAAATTTTTGTATGCAATCGCCAAT 58.455 32.000 0.00 0.00 34.18 3.16
2455 3222 7.675870 GCAAATTTTTGTATGCAATCGCCAATA 60.676 33.333 0.00 0.00 40.24 1.90
2456 3223 8.336806 CAAATTTTTGTATGCAATCGCCAATAT 58.663 29.630 0.00 0.00 34.18 1.28
2457 3224 8.436046 AATTTTTGTATGCAATCGCCAATATT 57.564 26.923 0.00 0.00 37.32 1.28
2458 3225 7.840342 TTTTTGTATGCAATCGCCAATATTT 57.160 28.000 0.00 0.00 37.32 1.40
2459 3226 8.932945 TTTTTGTATGCAATCGCCAATATTTA 57.067 26.923 0.00 0.00 37.32 1.40
2460 3227 7.922505 TTTGTATGCAATCGCCAATATTTAC 57.077 32.000 0.00 0.00 37.32 2.01
2461 3228 6.007936 TGTATGCAATCGCCAATATTTACC 57.992 37.500 0.00 0.00 37.32 2.85
2462 3229 5.767665 TGTATGCAATCGCCAATATTTACCT 59.232 36.000 0.00 0.00 37.32 3.08
2463 3230 4.566545 TGCAATCGCCAATATTTACCTG 57.433 40.909 0.00 0.00 37.32 4.00
2464 3231 3.243367 TGCAATCGCCAATATTTACCTGC 60.243 43.478 0.00 0.00 37.32 4.85
2465 3232 3.857010 GCAATCGCCAATATTTACCTGCC 60.857 47.826 0.00 0.00 0.00 4.85
2466 3233 2.719531 TCGCCAATATTTACCTGCCA 57.280 45.000 0.00 0.00 0.00 4.92
2467 3234 3.222173 TCGCCAATATTTACCTGCCAT 57.778 42.857 0.00 0.00 0.00 4.40
2468 3235 3.146066 TCGCCAATATTTACCTGCCATC 58.854 45.455 0.00 0.00 0.00 3.51
2469 3236 3.149196 CGCCAATATTTACCTGCCATCT 58.851 45.455 0.00 0.00 0.00 2.90
2470 3237 3.569701 CGCCAATATTTACCTGCCATCTT 59.430 43.478 0.00 0.00 0.00 2.40
2471 3238 4.759693 CGCCAATATTTACCTGCCATCTTA 59.240 41.667 0.00 0.00 0.00 2.10
2472 3239 5.415701 CGCCAATATTTACCTGCCATCTTAT 59.584 40.000 0.00 0.00 0.00 1.73
2473 3240 6.071952 CGCCAATATTTACCTGCCATCTTATT 60.072 38.462 0.00 0.00 0.00 1.40
2474 3241 7.092716 GCCAATATTTACCTGCCATCTTATTG 58.907 38.462 0.00 0.00 0.00 1.90
2475 3242 7.605449 CCAATATTTACCTGCCATCTTATTGG 58.395 38.462 0.00 0.00 38.73 3.16
2476 3243 7.233348 CCAATATTTACCTGCCATCTTATTGGT 59.767 37.037 9.24 0.00 39.46 3.67
2477 3244 9.295825 CAATATTTACCTGCCATCTTATTGGTA 57.704 33.333 0.00 0.00 39.11 3.25
2478 3245 9.875708 AATATTTACCTGCCATCTTATTGGTAA 57.124 29.630 0.00 0.00 39.11 2.85
2479 3246 7.582667 ATTTACCTGCCATCTTATTGGTAAC 57.417 36.000 0.00 0.00 39.02 2.50
2480 3247 3.898482 ACCTGCCATCTTATTGGTAACC 58.102 45.455 0.00 0.00 39.11 2.85
2481 3248 3.268334 ACCTGCCATCTTATTGGTAACCA 59.732 43.478 0.00 0.00 39.11 3.67
2482 3249 3.632145 CCTGCCATCTTATTGGTAACCAC 59.368 47.826 0.00 0.00 39.11 4.16
2483 3250 4.526970 CTGCCATCTTATTGGTAACCACT 58.473 43.478 0.00 0.00 39.11 4.00
2484 3251 4.929479 TGCCATCTTATTGGTAACCACTT 58.071 39.130 0.00 0.00 39.11 3.16
2485 3252 6.068461 TGCCATCTTATTGGTAACCACTTA 57.932 37.500 0.00 0.00 39.11 2.24
2486 3253 6.668645 TGCCATCTTATTGGTAACCACTTAT 58.331 36.000 0.00 0.00 39.11 1.73
2487 3254 7.122715 TGCCATCTTATTGGTAACCACTTATT 58.877 34.615 0.00 0.00 39.11 1.40
2488 3255 7.617723 TGCCATCTTATTGGTAACCACTTATTT 59.382 33.333 0.00 0.00 39.11 1.40
2489 3256 7.920682 GCCATCTTATTGGTAACCACTTATTTG 59.079 37.037 0.00 0.00 39.11 2.32
2490 3257 8.413229 CCATCTTATTGGTAACCACTTATTTGG 58.587 37.037 0.00 0.00 35.97 3.28
2582 3349 7.197071 TGGGACAATCGATTATATTTTTCGG 57.803 36.000 10.97 0.00 31.92 4.30
2583 3350 6.993308 TGGGACAATCGATTATATTTTTCGGA 59.007 34.615 10.97 0.00 31.92 4.55
2584 3351 7.499563 TGGGACAATCGATTATATTTTTCGGAA 59.500 33.333 10.97 0.00 31.92 4.30
2585 3352 8.347035 GGGACAATCGATTATATTTTTCGGAAA 58.653 33.333 10.97 0.00 33.82 3.13
2586 3353 9.724839 GGACAATCGATTATATTTTTCGGAAAA 57.275 29.630 10.97 11.68 38.96 2.29
2597 3364 6.603940 ATTTTTCGGAAAATTGATGGGAGA 57.396 33.333 15.97 0.00 41.48 3.71
2598 3365 5.643379 TTTTCGGAAAATTGATGGGAGAG 57.357 39.130 11.68 0.00 0.00 3.20
2599 3366 4.568072 TTCGGAAAATTGATGGGAGAGA 57.432 40.909 0.00 0.00 0.00 3.10
2600 3367 4.568072 TCGGAAAATTGATGGGAGAGAA 57.432 40.909 0.00 0.00 0.00 2.87
2601 3368 4.917385 TCGGAAAATTGATGGGAGAGAAA 58.083 39.130 0.00 0.00 0.00 2.52
2602 3369 5.509498 TCGGAAAATTGATGGGAGAGAAAT 58.491 37.500 0.00 0.00 0.00 2.17
2603 3370 5.590259 TCGGAAAATTGATGGGAGAGAAATC 59.410 40.000 0.00 0.00 0.00 2.17
2604 3371 5.357878 CGGAAAATTGATGGGAGAGAAATCA 59.642 40.000 0.00 0.00 0.00 2.57
2605 3372 6.040166 CGGAAAATTGATGGGAGAGAAATCAT 59.960 38.462 0.00 0.00 30.76 2.45
2606 3373 7.229306 CGGAAAATTGATGGGAGAGAAATCATA 59.771 37.037 0.00 0.00 30.76 2.15
2607 3374 8.574737 GGAAAATTGATGGGAGAGAAATCATAG 58.425 37.037 0.00 0.00 30.76 2.23
2608 3375 9.347240 GAAAATTGATGGGAGAGAAATCATAGA 57.653 33.333 0.00 0.00 30.76 1.98
2609 3376 9.705103 AAAATTGATGGGAGAGAAATCATAGAA 57.295 29.630 0.00 0.00 30.76 2.10
2610 3377 8.921353 AATTGATGGGAGAGAAATCATAGAAG 57.079 34.615 0.00 0.00 30.76 2.85
2611 3378 7.681259 TTGATGGGAGAGAAATCATAGAAGA 57.319 36.000 0.00 0.00 30.76 2.87
2612 3379 7.300556 TGATGGGAGAGAAATCATAGAAGAG 57.699 40.000 0.00 0.00 0.00 2.85
2613 3380 7.071917 TGATGGGAGAGAAATCATAGAAGAGA 58.928 38.462 0.00 0.00 0.00 3.10
2614 3381 6.975196 TGGGAGAGAAATCATAGAAGAGAG 57.025 41.667 0.00 0.00 0.00 3.20
2615 3382 6.677552 TGGGAGAGAAATCATAGAAGAGAGA 58.322 40.000 0.00 0.00 0.00 3.10
2616 3383 7.128751 TGGGAGAGAAATCATAGAAGAGAGAA 58.871 38.462 0.00 0.00 0.00 2.87
2617 3384 7.621285 TGGGAGAGAAATCATAGAAGAGAGAAA 59.379 37.037 0.00 0.00 0.00 2.52
2618 3385 8.482128 GGGAGAGAAATCATAGAAGAGAGAAAA 58.518 37.037 0.00 0.00 0.00 2.29
2619 3386 9.883142 GGAGAGAAATCATAGAAGAGAGAAAAA 57.117 33.333 0.00 0.00 0.00 1.94
2644 3411 7.757941 AATCAAAGAAGAGAAGAAAAGAGGG 57.242 36.000 0.00 0.00 0.00 4.30
2645 3412 5.625150 TCAAAGAAGAGAAGAAAAGAGGGG 58.375 41.667 0.00 0.00 0.00 4.79
2646 3413 4.649267 AAGAAGAGAAGAAAAGAGGGGG 57.351 45.455 0.00 0.00 0.00 5.40
2662 3429 2.586648 GGGGGCATATGTAAGGAAGG 57.413 55.000 4.29 0.00 0.00 3.46
2663 3430 1.780919 GGGGGCATATGTAAGGAAGGT 59.219 52.381 4.29 0.00 0.00 3.50
2664 3431 2.177016 GGGGGCATATGTAAGGAAGGTT 59.823 50.000 4.29 0.00 0.00 3.50
2665 3432 3.222603 GGGGCATATGTAAGGAAGGTTG 58.777 50.000 4.29 0.00 0.00 3.77
2666 3433 3.222603 GGGCATATGTAAGGAAGGTTGG 58.777 50.000 4.29 0.00 0.00 3.77
2667 3434 2.623416 GGCATATGTAAGGAAGGTTGGC 59.377 50.000 4.29 0.00 0.00 4.52
2668 3435 2.623416 GCATATGTAAGGAAGGTTGGCC 59.377 50.000 4.29 0.00 0.00 5.36
2669 3436 2.702592 TATGTAAGGAAGGTTGGCCG 57.297 50.000 0.00 0.00 40.50 6.13
2670 3437 0.988832 ATGTAAGGAAGGTTGGCCGA 59.011 50.000 0.00 0.00 40.50 5.54
2671 3438 0.766131 TGTAAGGAAGGTTGGCCGAA 59.234 50.000 0.00 0.00 40.50 4.30
2672 3439 1.271163 TGTAAGGAAGGTTGGCCGAAG 60.271 52.381 0.00 0.00 40.50 3.79
2687 3454 2.029838 CGAAGGAGAGGTGAAATGGG 57.970 55.000 0.00 0.00 0.00 4.00
2688 3455 1.555075 CGAAGGAGAGGTGAAATGGGA 59.445 52.381 0.00 0.00 0.00 4.37
2689 3456 2.027192 CGAAGGAGAGGTGAAATGGGAA 60.027 50.000 0.00 0.00 0.00 3.97
2690 3457 3.348119 GAAGGAGAGGTGAAATGGGAAC 58.652 50.000 0.00 0.00 0.00 3.62
2807 3574 9.429359 AGAAAAGTGACACTAAATGACTATCAG 57.571 33.333 8.91 0.00 0.00 2.90
2975 3743 5.240121 AGCAGCCAAAATGGTAATTTCTTG 58.760 37.500 0.00 0.00 40.46 3.02
3094 3870 7.818930 CCATTTAGTTCACAATATGCCAAGTTT 59.181 33.333 0.00 0.00 0.00 2.66
3133 3916 3.380637 ACGAAGGTACGAATAGCAGACAT 59.619 43.478 0.00 0.00 37.03 3.06
3261 4044 3.985553 TTCCCCACTACTAGGCTATGA 57.014 47.619 0.00 0.00 0.00 2.15
3274 4058 5.724854 ACTAGGCTATGAGGTCCAAAGTTTA 59.275 40.000 0.00 0.00 0.00 2.01
3293 4077 6.408869 AGTTTAAATCCTCATTTTGGCCATG 58.591 36.000 6.09 1.23 33.95 3.66
3324 4108 1.071471 CTGTGGCCCTGTTCTCGTT 59.929 57.895 0.00 0.00 0.00 3.85
3359 4143 2.258755 GTGCATTTACGCAATTCCACC 58.741 47.619 0.00 0.00 45.14 4.61
3361 4145 2.163412 TGCATTTACGCAATTCCACCTC 59.837 45.455 0.00 0.00 39.45 3.85
3808 4592 3.691118 TGAGTAATCCTTGATTGCTGTGC 59.309 43.478 11.36 0.24 43.05 4.57
4107 4891 1.836999 AATAGTGCGACCTGTGCCCA 61.837 55.000 0.00 0.00 0.00 5.36
4130 4914 4.951715 AGCCATGCAAGATCACTATGAAAA 59.048 37.500 0.00 0.00 0.00 2.29
4131 4915 5.067413 AGCCATGCAAGATCACTATGAAAAG 59.933 40.000 0.00 0.00 0.00 2.27
4132 4916 5.279384 CCATGCAAGATCACTATGAAAAGC 58.721 41.667 0.00 0.00 0.00 3.51
4133 4917 5.067413 CCATGCAAGATCACTATGAAAAGCT 59.933 40.000 0.00 0.00 0.00 3.74
4134 4918 5.556355 TGCAAGATCACTATGAAAAGCTG 57.444 39.130 0.00 0.00 0.00 4.24
4136 4920 4.096081 GCAAGATCACTATGAAAAGCTGCT 59.904 41.667 0.00 0.00 0.00 4.24
4137 4921 5.295292 GCAAGATCACTATGAAAAGCTGCTA 59.705 40.000 0.90 0.00 0.00 3.49
4138 4922 6.713520 CAAGATCACTATGAAAAGCTGCTAC 58.286 40.000 0.90 0.00 0.00 3.58
4161 4945 9.511144 CTACGGAAACTTCAACAAAAGTAAAAT 57.489 29.630 0.00 0.00 38.52 1.82
4233 5017 4.576463 ACGTTGCTCTTTCAGAGTGAAATT 59.424 37.500 2.67 0.00 44.37 1.82
4588 5372 2.009681 TACCTGGTTCTGTGCTCTCA 57.990 50.000 3.84 0.00 0.00 3.27
4599 5383 3.811497 TCTGTGCTCTCAGTTGTTGATTG 59.189 43.478 0.00 0.00 34.68 2.67
4635 5419 4.432712 ACTTTGGCTGTTGTTTTGATGAC 58.567 39.130 0.00 0.00 0.00 3.06
4642 5426 2.032799 TGTTGTTTTGATGACGAGCACC 59.967 45.455 0.00 0.00 0.00 5.01
4667 5451 3.443037 CAGTGCTGCTATCTAGTGTGAC 58.557 50.000 0.00 0.00 0.00 3.67
4796 5580 9.438228 TTTGAATTGTCATATTTGTGCAATCAT 57.562 25.926 0.00 0.00 32.60 2.45
4955 5739 5.541953 ACAGTTGCAGCTAGATCATATCA 57.458 39.130 1.52 0.00 0.00 2.15
4991 5775 2.583143 AGTACAACCCAAAGCAGGTTC 58.417 47.619 0.00 0.00 44.42 3.62
5030 5814 5.233902 GCATGCTCTTAATGCTATATCCTCG 59.766 44.000 11.37 0.00 45.62 4.63
5096 5882 2.360801 GGAAGGCTAAACAAACACAGCA 59.639 45.455 0.00 0.00 35.69 4.41
5151 5937 6.297889 CCTCCTCCTAGTATCTGGATGGATTA 60.298 46.154 0.00 0.00 32.96 1.75
5161 5947 2.232452 CTGGATGGATTAGCCTACGGAG 59.768 54.545 0.00 0.00 35.30 4.63
5254 6040 4.816925 ACACAGCCAAAGTTTAGAGAGAAC 59.183 41.667 0.00 0.00 0.00 3.01
5271 6057 8.103948 AGAGAGAACATTATTTGACAACTTGG 57.896 34.615 0.00 0.00 0.00 3.61
5275 6061 6.265196 AGAACATTATTTGACAACTTGGCTCA 59.735 34.615 0.00 0.00 0.00 4.26
5311 6104 8.729805 TCAAATGCCAATTCAACTTTAGTTTT 57.270 26.923 0.00 0.00 35.83 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
160 169 8.743714 GTGGAAATGAAAGGAGACAATCTTAAT 58.256 33.333 0.00 0.00 0.00 1.40
195 204 7.517320 TGCTTGAGGCTTATAAATCAGGATAA 58.483 34.615 7.77 0.00 42.39 1.75
398 837 8.326765 TCCTTATTTATAAGCCTAGAACACCA 57.673 34.615 4.33 0.00 38.69 4.17
409 848 9.646427 CTACTCACTCCATCCTTATTTATAAGC 57.354 37.037 4.33 0.00 38.69 3.09
515 956 6.668541 ACTACGGATTGAAATGTGAGAATG 57.331 37.500 0.00 0.00 0.00 2.67
516 957 8.041323 ACTAACTACGGATTGAAATGTGAGAAT 58.959 33.333 0.00 0.00 0.00 2.40
520 961 7.156000 TGAACTAACTACGGATTGAAATGTGA 58.844 34.615 0.00 0.00 0.00 3.58
683 1408 3.758554 ACGCTTTGGCTATGATTCTGTTT 59.241 39.130 0.00 0.00 36.09 2.83
799 1526 1.294138 GTGTTGATTCCGACCGGGA 59.706 57.895 6.32 0.00 45.40 5.14
998 1729 2.511600 GGGACCGGTCGAGCATTG 60.512 66.667 27.68 4.87 0.00 2.82
999 1730 2.683933 AGGGACCGGTCGAGCATT 60.684 61.111 27.68 6.88 0.00 3.56
1209 1940 1.103803 ATCTACAAGCTCCGCGAGAA 58.896 50.000 8.23 0.00 0.00 2.87
1243 1974 1.060698 GAGACAAAGCAACCGCGATAC 59.939 52.381 8.23 0.00 45.49 2.24
1463 2196 3.706373 CCACTCCCGGGGTCACAG 61.706 72.222 23.50 13.14 0.00 3.66
1494 2227 3.728076 TGCACATCCTATCTACCGAAC 57.272 47.619 0.00 0.00 0.00 3.95
1508 2241 5.416952 CCCTAATCTGAACTTTCTTGCACAT 59.583 40.000 0.00 0.00 0.00 3.21
1556 2290 0.824109 TTGCGAGATCTACCCCTGTG 59.176 55.000 0.00 0.00 0.00 3.66
1592 2337 7.255451 CCATCTCAACAAGGCTACAAAAACTTA 60.255 37.037 0.00 0.00 0.00 2.24
1593 2338 6.461509 CCATCTCAACAAGGCTACAAAAACTT 60.462 38.462 0.00 0.00 0.00 2.66
1594 2339 5.010012 CCATCTCAACAAGGCTACAAAAACT 59.990 40.000 0.00 0.00 0.00 2.66
1595 2340 5.222631 CCATCTCAACAAGGCTACAAAAAC 58.777 41.667 0.00 0.00 0.00 2.43
1596 2341 4.261994 GCCATCTCAACAAGGCTACAAAAA 60.262 41.667 0.00 0.00 43.70 1.94
1597 2342 3.255642 GCCATCTCAACAAGGCTACAAAA 59.744 43.478 0.00 0.00 43.70 2.44
1598 2343 2.819608 GCCATCTCAACAAGGCTACAAA 59.180 45.455 0.00 0.00 43.70 2.83
1599 2344 2.436417 GCCATCTCAACAAGGCTACAA 58.564 47.619 0.00 0.00 43.70 2.41
1600 2345 2.113860 GCCATCTCAACAAGGCTACA 57.886 50.000 0.00 0.00 43.70 2.74
2035 2780 7.653311 ACCTTTGCATTTTGTAACTGAGAATTC 59.347 33.333 0.00 0.00 0.00 2.17
2279 3045 5.951747 TCCTGCTGCTCTAATGGTTAAAAAT 59.048 36.000 0.00 0.00 0.00 1.82
2331 3098 1.865865 ACGCACGGGCAATTATCTAG 58.134 50.000 11.77 0.00 41.24 2.43
2332 3099 1.937223 CAACGCACGGGCAATTATCTA 59.063 47.619 11.77 0.00 41.24 1.98
2333 3100 0.732571 CAACGCACGGGCAATTATCT 59.267 50.000 11.77 0.00 41.24 1.98
2334 3101 0.865639 GCAACGCACGGGCAATTATC 60.866 55.000 11.77 0.00 41.24 1.75
2335 3102 1.138671 GCAACGCACGGGCAATTAT 59.861 52.632 11.77 0.00 41.24 1.28
2336 3103 1.796190 TTGCAACGCACGGGCAATTA 61.796 50.000 11.77 0.00 42.12 1.40
2337 3104 3.144120 TTGCAACGCACGGGCAATT 62.144 52.632 11.77 0.00 42.12 2.32
2338 3105 3.600694 TTGCAACGCACGGGCAAT 61.601 55.556 11.77 0.00 42.12 3.56
2339 3106 4.560856 GTTGCAACGCACGGGCAA 62.561 61.111 14.90 16.74 44.50 4.52
2341 3108 4.980903 CTGTTGCAACGCACGGGC 62.981 66.667 23.79 0.00 38.71 6.13
2342 3109 4.326766 CCTGTTGCAACGCACGGG 62.327 66.667 23.79 12.20 38.71 5.28
2343 3110 2.128853 ATTCCTGTTGCAACGCACGG 62.129 55.000 23.79 19.54 38.71 4.94
2344 3111 0.515127 TATTCCTGTTGCAACGCACG 59.485 50.000 23.79 12.07 38.71 5.34
2345 3112 2.919666 ATATTCCTGTTGCAACGCAC 57.080 45.000 23.79 1.83 38.71 5.34
2346 3113 4.216472 TGTTTATATTCCTGTTGCAACGCA 59.784 37.500 23.79 7.32 36.47 5.24
2347 3114 4.728534 TGTTTATATTCCTGTTGCAACGC 58.271 39.130 23.79 2.38 0.00 4.84
2348 3115 7.250569 AGAATGTTTATATTCCTGTTGCAACG 58.749 34.615 23.79 17.58 37.70 4.10
2365 3132 9.490379 GTCACGGGATAATCTATTAGAATGTTT 57.510 33.333 0.00 0.00 0.00 2.83
2366 3133 8.871125 AGTCACGGGATAATCTATTAGAATGTT 58.129 33.333 0.00 0.00 0.00 2.71
2367 3134 8.307483 CAGTCACGGGATAATCTATTAGAATGT 58.693 37.037 0.00 0.00 0.00 2.71
2368 3135 8.307483 ACAGTCACGGGATAATCTATTAGAATG 58.693 37.037 0.00 0.00 0.00 2.67
2369 3136 8.423906 ACAGTCACGGGATAATCTATTAGAAT 57.576 34.615 0.00 0.00 0.00 2.40
2370 3137 7.834881 ACAGTCACGGGATAATCTATTAGAA 57.165 36.000 0.00 0.00 0.00 2.10
2371 3138 7.118825 CGTACAGTCACGGGATAATCTATTAGA 59.881 40.741 0.00 0.00 38.26 2.10
2372 3139 7.094890 ACGTACAGTCACGGGATAATCTATTAG 60.095 40.741 0.00 0.00 46.12 1.73
2373 3140 6.712095 ACGTACAGTCACGGGATAATCTATTA 59.288 38.462 0.00 0.00 46.12 0.98
2374 3141 5.533903 ACGTACAGTCACGGGATAATCTATT 59.466 40.000 0.00 0.00 46.12 1.73
2375 3142 5.068636 ACGTACAGTCACGGGATAATCTAT 58.931 41.667 0.00 0.00 46.12 1.98
2376 3143 4.454678 ACGTACAGTCACGGGATAATCTA 58.545 43.478 0.00 0.00 46.12 1.98
2377 3144 3.285484 ACGTACAGTCACGGGATAATCT 58.715 45.455 0.00 0.00 46.12 2.40
2378 3145 3.705043 ACGTACAGTCACGGGATAATC 57.295 47.619 0.00 0.00 46.12 1.75
2390 3157 9.193133 GCATCAATGTAATAATAGACGTACAGT 57.807 33.333 0.00 0.00 30.45 3.55
2391 3158 8.365938 CGCATCAATGTAATAATAGACGTACAG 58.634 37.037 0.00 0.00 30.45 2.74
2392 3159 7.148869 GCGCATCAATGTAATAATAGACGTACA 60.149 37.037 0.30 0.00 0.00 2.90
2393 3160 7.061905 AGCGCATCAATGTAATAATAGACGTAC 59.938 37.037 11.47 0.00 0.00 3.67
2394 3161 7.088272 AGCGCATCAATGTAATAATAGACGTA 58.912 34.615 11.47 0.00 0.00 3.57
2395 3162 5.926542 AGCGCATCAATGTAATAATAGACGT 59.073 36.000 11.47 0.00 0.00 4.34
2396 3163 6.395089 AGCGCATCAATGTAATAATAGACG 57.605 37.500 11.47 0.00 0.00 4.18
2423 3190 8.810427 CGATTGCATACAAAAATTTGCTAAGAT 58.190 29.630 5.82 0.00 41.79 2.40
2424 3191 7.201427 GCGATTGCATACAAAAATTTGCTAAGA 60.201 33.333 0.00 0.00 40.46 2.10
2425 3192 6.896088 GCGATTGCATACAAAAATTTGCTAAG 59.104 34.615 0.00 0.00 40.46 2.18
2426 3193 6.183360 GGCGATTGCATACAAAAATTTGCTAA 60.183 34.615 7.38 0.00 45.35 3.09
2427 3194 5.290643 GGCGATTGCATACAAAAATTTGCTA 59.709 36.000 7.38 0.00 45.35 3.49
2428 3195 4.093261 GGCGATTGCATACAAAAATTTGCT 59.907 37.500 7.38 0.00 45.35 3.91
2429 3196 4.142945 TGGCGATTGCATACAAAAATTTGC 60.143 37.500 7.38 0.00 45.35 3.68
2430 3197 5.527511 TGGCGATTGCATACAAAAATTTG 57.472 34.783 7.38 4.40 45.35 2.32
2431 3198 6.740411 ATTGGCGATTGCATACAAAAATTT 57.260 29.167 7.38 0.00 45.35 1.82
2432 3199 8.436046 AATATTGGCGATTGCATACAAAAATT 57.564 26.923 7.38 4.45 45.35 1.82
2433 3200 8.436046 AAATATTGGCGATTGCATACAAAAAT 57.564 26.923 7.38 0.00 45.35 1.82
2434 3201 7.840342 AAATATTGGCGATTGCATACAAAAA 57.160 28.000 7.38 0.00 45.35 1.94
2435 3202 7.436673 GGTAAATATTGGCGATTGCATACAAAA 59.563 33.333 7.38 0.00 45.35 2.44
2436 3203 6.920758 GGTAAATATTGGCGATTGCATACAAA 59.079 34.615 7.38 0.00 45.35 2.83
2437 3204 6.264292 AGGTAAATATTGGCGATTGCATACAA 59.736 34.615 7.38 2.37 45.35 2.41
2438 3205 5.767665 AGGTAAATATTGGCGATTGCATACA 59.232 36.000 7.38 0.00 45.35 2.29
2439 3206 6.086222 CAGGTAAATATTGGCGATTGCATAC 58.914 40.000 7.38 0.00 45.35 2.39
2440 3207 5.335583 GCAGGTAAATATTGGCGATTGCATA 60.336 40.000 7.38 0.00 45.35 3.14
2441 3208 4.559300 GCAGGTAAATATTGGCGATTGCAT 60.559 41.667 7.38 0.00 45.35 3.96
2442 3209 3.243367 GCAGGTAAATATTGGCGATTGCA 60.243 43.478 7.38 0.00 45.35 4.08
2443 3210 3.308530 GCAGGTAAATATTGGCGATTGC 58.691 45.455 0.00 0.00 41.71 3.56
2444 3211 3.317711 TGGCAGGTAAATATTGGCGATTG 59.682 43.478 0.00 0.00 39.95 2.67
2445 3212 3.561143 TGGCAGGTAAATATTGGCGATT 58.439 40.909 0.00 0.00 39.95 3.34
2446 3213 3.222173 TGGCAGGTAAATATTGGCGAT 57.778 42.857 0.00 0.00 39.95 4.58
2447 3214 2.719531 TGGCAGGTAAATATTGGCGA 57.280 45.000 0.00 0.00 39.95 5.54
2448 3215 3.149196 AGATGGCAGGTAAATATTGGCG 58.851 45.455 0.00 0.00 39.95 5.69
2449 3216 6.840780 ATAAGATGGCAGGTAAATATTGGC 57.159 37.500 0.00 0.00 37.84 4.52
2450 3217 7.605449 CCAATAAGATGGCAGGTAAATATTGG 58.395 38.462 16.06 16.06 40.94 3.16
2451 3218 8.181904 ACCAATAAGATGGCAGGTAAATATTG 57.818 34.615 0.00 2.84 44.75 1.90
2452 3219 9.875708 TTACCAATAAGATGGCAGGTAAATATT 57.124 29.630 9.15 0.00 44.75 1.28
2453 3220 9.297037 GTTACCAATAAGATGGCAGGTAAATAT 57.703 33.333 12.23 0.00 44.75 1.28
2454 3221 7.722285 GGTTACCAATAAGATGGCAGGTAAATA 59.278 37.037 12.23 0.00 44.75 1.40
2455 3222 6.549736 GGTTACCAATAAGATGGCAGGTAAAT 59.450 38.462 12.23 0.00 44.75 1.40
2456 3223 5.889289 GGTTACCAATAAGATGGCAGGTAAA 59.111 40.000 12.23 0.00 44.75 2.01
2457 3224 5.044772 TGGTTACCAATAAGATGGCAGGTAA 60.045 40.000 0.00 7.87 44.75 2.85
2458 3225 4.475381 TGGTTACCAATAAGATGGCAGGTA 59.525 41.667 0.00 0.00 44.75 3.08
2459 3226 3.268334 TGGTTACCAATAAGATGGCAGGT 59.732 43.478 0.00 0.00 44.75 4.00
2460 3227 3.632145 GTGGTTACCAATAAGATGGCAGG 59.368 47.826 5.33 0.00 44.75 4.85
2461 3228 4.526970 AGTGGTTACCAATAAGATGGCAG 58.473 43.478 5.33 0.00 44.75 4.85
2462 3229 4.584638 AGTGGTTACCAATAAGATGGCA 57.415 40.909 5.33 0.00 44.75 4.92
2463 3230 7.582667 AATAAGTGGTTACCAATAAGATGGC 57.417 36.000 5.33 0.00 44.75 4.40
2464 3231 8.413229 CCAAATAAGTGGTTACCAATAAGATGG 58.587 37.037 5.33 8.77 38.94 3.51
2538 3305 9.968870 TGTCCCATGTTTTGTACTTTTATTAAC 57.031 29.630 0.00 0.00 0.00 2.01
2541 3308 9.705290 GATTGTCCCATGTTTTGTACTTTTATT 57.295 29.630 0.00 0.00 0.00 1.40
2542 3309 8.026607 CGATTGTCCCATGTTTTGTACTTTTAT 58.973 33.333 0.00 0.00 0.00 1.40
2543 3310 7.228906 TCGATTGTCCCATGTTTTGTACTTTTA 59.771 33.333 0.00 0.00 0.00 1.52
2544 3311 6.039941 TCGATTGTCCCATGTTTTGTACTTTT 59.960 34.615 0.00 0.00 0.00 2.27
2545 3312 5.533154 TCGATTGTCCCATGTTTTGTACTTT 59.467 36.000 0.00 0.00 0.00 2.66
2546 3313 5.067273 TCGATTGTCCCATGTTTTGTACTT 58.933 37.500 0.00 0.00 0.00 2.24
2547 3314 4.647611 TCGATTGTCCCATGTTTTGTACT 58.352 39.130 0.00 0.00 0.00 2.73
2548 3315 5.560966 ATCGATTGTCCCATGTTTTGTAC 57.439 39.130 0.00 0.00 0.00 2.90
2549 3316 7.873719 ATAATCGATTGTCCCATGTTTTGTA 57.126 32.000 20.87 0.00 0.00 2.41
2550 3317 6.773976 ATAATCGATTGTCCCATGTTTTGT 57.226 33.333 20.87 0.00 0.00 2.83
2551 3318 9.748708 AAATATAATCGATTGTCCCATGTTTTG 57.251 29.630 20.87 0.00 0.00 2.44
2554 3321 9.965824 GAAAAATATAATCGATTGTCCCATGTT 57.034 29.630 20.87 7.37 0.00 2.71
2555 3322 8.289618 CGAAAAATATAATCGATTGTCCCATGT 58.710 33.333 20.87 1.24 38.82 3.21
2556 3323 7.750458 CCGAAAAATATAATCGATTGTCCCATG 59.250 37.037 20.87 3.27 38.82 3.66
2557 3324 7.663905 TCCGAAAAATATAATCGATTGTCCCAT 59.336 33.333 20.87 8.14 38.82 4.00
2558 3325 6.993308 TCCGAAAAATATAATCGATTGTCCCA 59.007 34.615 20.87 0.00 38.82 4.37
2559 3326 7.429636 TCCGAAAAATATAATCGATTGTCCC 57.570 36.000 20.87 1.43 38.82 4.46
2560 3327 9.724839 TTTTCCGAAAAATATAATCGATTGTCC 57.275 29.630 20.87 0.97 38.82 4.02
2571 3338 9.415008 TCTCCCATCAATTTTCCGAAAAATATA 57.585 29.630 10.27 0.00 42.82 0.86
2572 3339 8.305046 TCTCCCATCAATTTTCCGAAAAATAT 57.695 30.769 10.27 2.48 42.82 1.28
2573 3340 7.613801 TCTCTCCCATCAATTTTCCGAAAAATA 59.386 33.333 10.27 0.31 42.82 1.40
2574 3341 6.437162 TCTCTCCCATCAATTTTCCGAAAAAT 59.563 34.615 10.27 0.00 44.97 1.82
2575 3342 5.772672 TCTCTCCCATCAATTTTCCGAAAAA 59.227 36.000 10.27 0.00 38.66 1.94
2576 3343 5.321102 TCTCTCCCATCAATTTTCCGAAAA 58.679 37.500 8.71 8.71 34.41 2.29
2577 3344 4.917385 TCTCTCCCATCAATTTTCCGAAA 58.083 39.130 0.00 0.00 0.00 3.46
2578 3345 4.568072 TCTCTCCCATCAATTTTCCGAA 57.432 40.909 0.00 0.00 0.00 4.30
2579 3346 4.568072 TTCTCTCCCATCAATTTTCCGA 57.432 40.909 0.00 0.00 0.00 4.55
2580 3347 5.357878 TGATTTCTCTCCCATCAATTTTCCG 59.642 40.000 0.00 0.00 0.00 4.30
2581 3348 6.780457 TGATTTCTCTCCCATCAATTTTCC 57.220 37.500 0.00 0.00 0.00 3.13
2582 3349 9.347240 TCTATGATTTCTCTCCCATCAATTTTC 57.653 33.333 0.00 0.00 30.79 2.29
2583 3350 9.705103 TTCTATGATTTCTCTCCCATCAATTTT 57.295 29.630 0.00 0.00 30.79 1.82
2584 3351 9.352191 CTTCTATGATTTCTCTCCCATCAATTT 57.648 33.333 0.00 0.00 30.79 1.82
2585 3352 8.721479 TCTTCTATGATTTCTCTCCCATCAATT 58.279 33.333 0.00 0.00 30.79 2.32
2586 3353 8.272659 TCTTCTATGATTTCTCTCCCATCAAT 57.727 34.615 0.00 0.00 30.79 2.57
2587 3354 7.566509 TCTCTTCTATGATTTCTCTCCCATCAA 59.433 37.037 0.00 0.00 30.79 2.57
2588 3355 7.071917 TCTCTTCTATGATTTCTCTCCCATCA 58.928 38.462 0.00 0.00 0.00 3.07
2589 3356 7.451255 TCTCTCTTCTATGATTTCTCTCCCATC 59.549 40.741 0.00 0.00 0.00 3.51
2590 3357 7.304479 TCTCTCTTCTATGATTTCTCTCCCAT 58.696 38.462 0.00 0.00 0.00 4.00
2591 3358 6.677552 TCTCTCTTCTATGATTTCTCTCCCA 58.322 40.000 0.00 0.00 0.00 4.37
2592 3359 7.595819 TTCTCTCTTCTATGATTTCTCTCCC 57.404 40.000 0.00 0.00 0.00 4.30
2593 3360 9.883142 TTTTTCTCTCTTCTATGATTTCTCTCC 57.117 33.333 0.00 0.00 0.00 3.71
2618 3385 8.637099 CCCTCTTTTCTTCTCTTCTTTGATTTT 58.363 33.333 0.00 0.00 0.00 1.82
2619 3386 7.232330 CCCCTCTTTTCTTCTCTTCTTTGATTT 59.768 37.037 0.00 0.00 0.00 2.17
2620 3387 6.718912 CCCCTCTTTTCTTCTCTTCTTTGATT 59.281 38.462 0.00 0.00 0.00 2.57
2621 3388 6.244654 CCCCTCTTTTCTTCTCTTCTTTGAT 58.755 40.000 0.00 0.00 0.00 2.57
2622 3389 5.456763 CCCCCTCTTTTCTTCTCTTCTTTGA 60.457 44.000 0.00 0.00 0.00 2.69
2623 3390 4.764308 CCCCCTCTTTTCTTCTCTTCTTTG 59.236 45.833 0.00 0.00 0.00 2.77
2624 3391 4.991776 CCCCCTCTTTTCTTCTCTTCTTT 58.008 43.478 0.00 0.00 0.00 2.52
2625 3392 4.649267 CCCCCTCTTTTCTTCTCTTCTT 57.351 45.455 0.00 0.00 0.00 2.52
2643 3410 1.780919 ACCTTCCTTACATATGCCCCC 59.219 52.381 1.58 0.00 0.00 5.40
2644 3411 3.222603 CAACCTTCCTTACATATGCCCC 58.777 50.000 1.58 0.00 0.00 5.80
2645 3412 3.222603 CCAACCTTCCTTACATATGCCC 58.777 50.000 1.58 0.00 0.00 5.36
2646 3413 2.623416 GCCAACCTTCCTTACATATGCC 59.377 50.000 1.58 0.00 0.00 4.40
2647 3414 2.623416 GGCCAACCTTCCTTACATATGC 59.377 50.000 1.58 0.00 0.00 3.14
2648 3415 2.878406 CGGCCAACCTTCCTTACATATG 59.122 50.000 2.24 0.00 0.00 1.78
2649 3416 2.775384 TCGGCCAACCTTCCTTACATAT 59.225 45.455 2.24 0.00 0.00 1.78
2650 3417 2.189676 TCGGCCAACCTTCCTTACATA 58.810 47.619 2.24 0.00 0.00 2.29
2651 3418 0.988832 TCGGCCAACCTTCCTTACAT 59.011 50.000 2.24 0.00 0.00 2.29
2652 3419 0.766131 TTCGGCCAACCTTCCTTACA 59.234 50.000 2.24 0.00 0.00 2.41
2653 3420 1.450025 CTTCGGCCAACCTTCCTTAC 58.550 55.000 2.24 0.00 0.00 2.34
2654 3421 0.326927 CCTTCGGCCAACCTTCCTTA 59.673 55.000 2.24 0.00 0.00 2.69
2655 3422 1.074951 CCTTCGGCCAACCTTCCTT 59.925 57.895 2.24 0.00 0.00 3.36
2656 3423 1.842381 CTCCTTCGGCCAACCTTCCT 61.842 60.000 2.24 0.00 0.00 3.36
2657 3424 1.377333 CTCCTTCGGCCAACCTTCC 60.377 63.158 2.24 0.00 0.00 3.46
2658 3425 0.391793 CTCTCCTTCGGCCAACCTTC 60.392 60.000 2.24 0.00 0.00 3.46
2659 3426 1.679898 CTCTCCTTCGGCCAACCTT 59.320 57.895 2.24 0.00 0.00 3.50
2660 3427 2.294078 CCTCTCCTTCGGCCAACCT 61.294 63.158 2.24 0.00 0.00 3.50
2661 3428 2.269241 CCTCTCCTTCGGCCAACC 59.731 66.667 2.24 0.00 0.00 3.77
2662 3429 1.376037 CACCTCTCCTTCGGCCAAC 60.376 63.158 2.24 0.00 0.00 3.77
2663 3430 1.125093 TTCACCTCTCCTTCGGCCAA 61.125 55.000 2.24 0.00 0.00 4.52
2664 3431 1.125093 TTTCACCTCTCCTTCGGCCA 61.125 55.000 2.24 0.00 0.00 5.36
2665 3432 0.253327 ATTTCACCTCTCCTTCGGCC 59.747 55.000 0.00 0.00 0.00 6.13
2666 3433 1.373570 CATTTCACCTCTCCTTCGGC 58.626 55.000 0.00 0.00 0.00 5.54
2667 3434 1.407437 CCCATTTCACCTCTCCTTCGG 60.407 57.143 0.00 0.00 0.00 4.30
2668 3435 1.555075 TCCCATTTCACCTCTCCTTCG 59.445 52.381 0.00 0.00 0.00 3.79
2669 3436 3.348119 GTTCCCATTTCACCTCTCCTTC 58.652 50.000 0.00 0.00 0.00 3.46
2670 3437 2.041755 GGTTCCCATTTCACCTCTCCTT 59.958 50.000 0.00 0.00 0.00 3.36
2671 3438 1.636003 GGTTCCCATTTCACCTCTCCT 59.364 52.381 0.00 0.00 0.00 3.69
2672 3439 1.636003 AGGTTCCCATTTCACCTCTCC 59.364 52.381 0.00 0.00 35.99 3.71
2673 3440 3.441500 AAGGTTCCCATTTCACCTCTC 57.558 47.619 0.00 0.00 40.23 3.20
2674 3441 4.292306 ACATAAGGTTCCCATTTCACCTCT 59.708 41.667 0.00 0.00 40.23 3.69
2675 3442 4.600062 ACATAAGGTTCCCATTTCACCTC 58.400 43.478 0.00 0.00 40.23 3.85
2676 3443 4.675063 ACATAAGGTTCCCATTTCACCT 57.325 40.909 0.00 0.00 43.17 4.00
2766 3533 6.016276 GTCACTTTTCTTTCTTCTTATGGCCA 60.016 38.462 8.56 8.56 0.00 5.36
2807 3574 9.921637 ATATAGCTGAATTCTTGACTAGCTTAC 57.078 33.333 17.71 0.00 41.32 2.34
2975 3743 0.968405 TTGGCCACATGCTCTTTTCC 59.032 50.000 3.88 0.00 40.92 3.13
3061 3829 5.964958 ATTGTGAACTAAATGGTGGTGAG 57.035 39.130 0.00 0.00 0.00 3.51
3113 3889 3.491267 GCATGTCTGCTATTCGTACCTTC 59.509 47.826 0.00 0.00 45.32 3.46
3243 4026 2.158295 ACCTCATAGCCTAGTAGTGGGG 60.158 54.545 1.66 3.40 36.49 4.96
3244 4027 3.158676 GACCTCATAGCCTAGTAGTGGG 58.841 54.545 0.00 0.00 0.00 4.61
3261 4044 7.855784 AAATGAGGATTTAAACTTTGGACCT 57.144 32.000 0.00 0.00 29.49 3.85
3274 4058 3.054948 CACCATGGCCAAAATGAGGATTT 60.055 43.478 10.96 0.00 32.87 2.17
3293 4077 0.249031 GCCACAGTTCAGTTTGCACC 60.249 55.000 0.00 0.00 0.00 5.01
3359 4143 9.630098 ATGTTTTATTCAACTACATTGCAAGAG 57.370 29.630 4.94 4.77 38.29 2.85
3361 4145 9.195411 ACATGTTTTATTCAACTACATTGCAAG 57.805 29.630 4.94 0.00 38.29 4.01
3399 4183 5.827797 TGTTATCATCTGGTAAGGGAAATGC 59.172 40.000 0.00 0.00 0.00 3.56
3808 4592 6.261603 AGAAGGTTTACGACAAAAGGTAAAGG 59.738 38.462 0.00 0.00 38.77 3.11
4107 4891 3.851458 TCATAGTGATCTTGCATGGCT 57.149 42.857 0.00 0.00 0.00 4.75
4130 4914 2.143925 GTTGAAGTTTCCGTAGCAGCT 58.856 47.619 0.00 0.00 0.00 4.24
4131 4915 1.871039 TGTTGAAGTTTCCGTAGCAGC 59.129 47.619 0.00 0.00 0.00 5.25
4132 4916 4.545823 TTTGTTGAAGTTTCCGTAGCAG 57.454 40.909 0.00 0.00 0.00 4.24
4133 4917 4.396790 ACTTTTGTTGAAGTTTCCGTAGCA 59.603 37.500 0.00 0.00 36.49 3.49
4134 4918 4.916870 ACTTTTGTTGAAGTTTCCGTAGC 58.083 39.130 0.00 0.00 36.49 3.58
4136 4920 9.857957 AATTTTACTTTTGTTGAAGTTTCCGTA 57.142 25.926 0.00 0.00 40.24 4.02
4137 4921 8.652463 CAATTTTACTTTTGTTGAAGTTTCCGT 58.348 29.630 0.00 0.00 40.24 4.69
4138 4922 8.865001 TCAATTTTACTTTTGTTGAAGTTTCCG 58.135 29.630 0.00 0.00 40.24 4.30
4161 4945 2.290450 TGCAGGCATGACATCTTCTCAA 60.290 45.455 0.62 0.00 0.00 3.02
4233 5017 5.034852 TCTTGTCCACTTCAATCTTGTCA 57.965 39.130 0.00 0.00 0.00 3.58
4599 5383 7.215719 ACAGCCAAAGTTTTCCTTCTAATAC 57.784 36.000 0.00 0.00 31.27 1.89
4796 5580 2.849294 TTCCACATCACCGTGAATCA 57.151 45.000 5.07 0.00 39.34 2.57
4827 5611 8.150945 ACTTACTTGCTTTCAGTTCTTCAGATA 58.849 33.333 0.00 0.00 0.00 1.98
4862 5646 7.566858 CCGAAAAGGAAATTATTGTTGTCAG 57.433 36.000 0.00 0.00 45.00 3.51
4895 5679 3.784338 CAAGTGGTTTTGCTGTGTTCAT 58.216 40.909 0.00 0.00 0.00 2.57
4977 5761 1.187567 GGCATGAACCTGCTTTGGGT 61.188 55.000 0.00 0.00 41.95 4.51
4980 5764 0.963962 AGTGGCATGAACCTGCTTTG 59.036 50.000 0.00 0.00 41.95 2.77
4991 5775 2.587080 ATGCTTTGGGAGTGGCATG 58.413 52.632 0.00 0.00 42.71 4.06
5030 5814 1.294857 ACGTTTGTTTGGGCATTTGC 58.705 45.000 0.00 0.00 41.14 3.68
5056 5840 0.449388 CTGGGCGACTTTTCATGAGC 59.551 55.000 0.00 0.00 0.00 4.26
5096 5882 7.775397 TTACAGTTGTACTCGCTAAACTTTT 57.225 32.000 0.00 0.00 30.59 2.27
5161 5947 1.141053 ACAAGGAAGGGTATCATCGCC 59.859 52.381 0.00 0.00 0.00 5.54
5229 6015 5.057149 TCTCTCTAAACTTTGGCTGTGTTC 58.943 41.667 0.00 0.00 0.00 3.18
5233 6019 5.036117 TGTTCTCTCTAAACTTTGGCTGT 57.964 39.130 0.00 0.00 0.00 4.40
5254 6040 8.984891 TTAATGAGCCAAGTTGTCAAATAATG 57.015 30.769 1.45 0.00 0.00 1.90
5269 6055 2.570415 TGAACGGGTTTAATGAGCCA 57.430 45.000 0.00 0.00 37.01 4.75
5271 6057 3.612423 GCATTTGAACGGGTTTAATGAGC 59.388 43.478 17.27 7.71 31.94 4.26
5275 6061 4.608948 TTGGCATTTGAACGGGTTTAAT 57.391 36.364 0.00 0.00 0.00 1.40
5311 6104 7.164230 ACGGGCATTTTATGTTTAATCTTCA 57.836 32.000 0.00 0.00 0.00 3.02
5319 6112 6.104146 AGGTTTAACGGGCATTTTATGTTT 57.896 33.333 0.00 0.00 0.00 2.83
5324 6117 3.321111 TGCAAGGTTTAACGGGCATTTTA 59.679 39.130 3.53 0.00 0.00 1.52
5332 6125 4.425520 TCAAAACTTGCAAGGTTTAACGG 58.574 39.130 35.37 24.88 43.70 4.44



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

AutoCloner maintained by Alex Coulton.