Multiple sequence alignment - TraesCS3A01G273000

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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 TraesCS3A01G273000 chr3A 100.000 4096 0 0 1 4096 502168918 502164823 0.000000e+00 7564.0
1 TraesCS3A01G273000 chr3A 88.571 175 20 0 1074 1248 511755605 511755431 3.210000e-51 213.0
2 TraesCS3A01G273000 chr3A 84.343 198 31 0 2197 2394 511754557 511754360 1.160000e-45 195.0
3 TraesCS3A01G273000 chr3B 90.539 1744 75 33 1738 3450 492612522 492610838 0.000000e+00 2224.0
4 TraesCS3A01G273000 chr3B 93.423 821 36 9 1 812 492614271 492613460 0.000000e+00 1201.0
5 TraesCS3A01G273000 chr3B 89.398 830 49 24 812 1623 492613412 492612604 0.000000e+00 1009.0
6 TraesCS3A01G273000 chr3B 88.571 175 20 0 1074 1248 508710769 508710595 3.210000e-51 213.0
7 TraesCS3A01G273000 chr3B 84.343 198 31 0 2197 2394 508709702 508709505 1.160000e-45 195.0
8 TraesCS3A01G273000 chr3B 92.754 69 3 2 2274 2341 69644338 69644405 9.370000e-17 99.0
9 TraesCS3A01G273000 chr3D 87.741 2023 97 73 812 2788 378036433 378034516 0.000000e+00 2222.0
10 TraesCS3A01G273000 chr3D 90.686 773 45 9 2832 3602 378032973 378032226 0.000000e+00 1003.0
11 TraesCS3A01G273000 chr3D 89.861 503 28 8 35 529 378038598 378038111 3.480000e-175 625.0
12 TraesCS3A01G273000 chr3D 88.571 175 20 0 1074 1248 391600446 391600272 3.210000e-51 213.0
13 TraesCS3A01G273000 chr3D 80.719 306 24 14 537 812 378036775 378036475 5.370000e-49 206.0
14 TraesCS3A01G273000 chr3D 84.343 198 31 0 2197 2394 391599245 391599048 1.160000e-45 195.0
15 TraesCS3A01G273000 chr7A 91.211 512 41 4 3586 4096 106290192 106289684 0.000000e+00 693.0
16 TraesCS3A01G273000 chr7A 91.903 494 38 2 3603 4096 429416848 429417339 0.000000e+00 689.0
17 TraesCS3A01G273000 chr5A 91.935 496 38 2 3601 4096 48772057 48772550 0.000000e+00 693.0
18 TraesCS3A01G273000 chr5A 91.767 498 37 4 3599 4096 586611242 586611735 0.000000e+00 689.0
19 TraesCS3A01G273000 chr5A 91.784 499 35 6 3600 4096 589409705 589409211 0.000000e+00 689.0
20 TraesCS3A01G273000 chr5A 91.532 496 36 5 3603 4096 646240030 646239539 0.000000e+00 678.0
21 TraesCS3A01G273000 chr5A 90.964 498 43 2 3600 4096 351477893 351478389 0.000000e+00 669.0
22 TraesCS3A01G273000 chr1A 92.213 488 37 1 3609 4096 593072552 593072066 0.000000e+00 689.0
23 TraesCS3A01G273000 chr1A 88.128 219 24 2 2172 2389 529664880 529665097 4.060000e-65 259.0
24 TraesCS3A01G273000 chr1A 87.310 197 20 4 2882 3074 529665392 529665587 1.920000e-53 220.0
25 TraesCS3A01G273000 chr4A 91.018 501 42 3 3597 4096 166195150 166194652 0.000000e+00 673.0
26 TraesCS3A01G273000 chr1B 88.679 212 16 5 2182 2389 582544474 582544681 6.800000e-63 252.0
27 TraesCS3A01G273000 chr1B 90.503 179 15 1 1071 1249 582543996 582544172 6.840000e-58 235.0
28 TraesCS3A01G273000 chr1B 85.845 219 26 4 2882 3096 582544976 582545193 1.150000e-55 228.0
29 TraesCS3A01G273000 chr1D 87.387 222 20 5 2172 2389 431426553 431426770 8.790000e-62 248.0
30 TraesCS3A01G273000 chr1D 85.845 219 26 4 2882 3096 431427065 431427282 1.150000e-55 228.0
31 TraesCS3A01G273000 chr1D 90.588 170 16 0 1080 1249 431426032 431426201 4.120000e-55 226.0
32 TraesCS3A01G273000 chr7D 84.667 150 10 4 266 415 576075999 576076135 1.990000e-28 137.0
33 TraesCS3A01G273000 chr7D 96.970 33 0 1 1042 1074 88379343 88379374 2.000000e-03 54.7
34 TraesCS3A01G273000 chr6A 82.667 75 10 1 2952 3023 430341516 430341442 3.420000e-06 63.9


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 TraesCS3A01G273000 chr3A 502164823 502168918 4095 True 7564.000000 7564 100.000000 1 4096 1 chr3A.!!$R1 4095
1 TraesCS3A01G273000 chr3A 511754360 511755605 1245 True 204.000000 213 86.457000 1074 2394 2 chr3A.!!$R2 1320
2 TraesCS3A01G273000 chr3B 492610838 492614271 3433 True 1478.000000 2224 91.120000 1 3450 3 chr3B.!!$R1 3449
3 TraesCS3A01G273000 chr3B 508709505 508710769 1264 True 204.000000 213 86.457000 1074 2394 2 chr3B.!!$R2 1320
4 TraesCS3A01G273000 chr3D 378032226 378038598 6372 True 1014.000000 2222 87.251750 35 3602 4 chr3D.!!$R1 3567
5 TraesCS3A01G273000 chr3D 391599048 391600446 1398 True 204.000000 213 86.457000 1074 2394 2 chr3D.!!$R2 1320
6 TraesCS3A01G273000 chr7A 106289684 106290192 508 True 693.000000 693 91.211000 3586 4096 1 chr7A.!!$R1 510
7 TraesCS3A01G273000 chr1A 529664880 529665587 707 False 239.500000 259 87.719000 2172 3074 2 chr1A.!!$F1 902
8 TraesCS3A01G273000 chr1B 582543996 582545193 1197 False 238.333333 252 88.342333 1071 3096 3 chr1B.!!$F1 2025
9 TraesCS3A01G273000 chr1D 431426032 431427282 1250 False 234.000000 248 87.940000 1080 3096 3 chr1D.!!$F1 2016

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
314 329 0.959372 TCGAACTCGAGTCCCCTCAC 60.959 60.000 20.33 4.09 44.22 3.51 F
402 417 1.007387 CCAAGCGCCCTGAACAAAC 60.007 57.895 2.29 0.00 0.00 2.93 F
1673 3312 0.305922 GCCATTGCGCATCTGTACTC 59.694 55.000 12.75 0.00 0.00 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1454 2926 0.456221 ACGGAGACATCGTCATCACC 59.544 55.0 0.0 0.0 35.87 4.02 R
1913 3753 0.519077 CCAGAAGCCGAGCTGAAAAC 59.481 55.0 0.0 0.0 39.62 2.43 R
3621 7014 0.102120 TTGGCACGCTTGAACCAAAG 59.898 50.0 0.0 0.0 39.17 2.77 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
109 114 2.645163 TCAATGCTGTAACGCGTTTTG 58.355 42.857 31.50 24.83 37.03 2.44
198 203 9.587772 GTGGTCGATGCAAGTAAATATAGATAT 57.412 33.333 0.00 0.00 0.00 1.63
240 247 1.086634 GTGACTCGAAGCTCCCATGC 61.087 60.000 0.00 0.00 0.00 4.06
261 268 2.426024 CTGCAAAGGCTGATATGCAACT 59.574 45.455 15.32 0.00 46.97 3.16
299 309 1.849829 CGCAATGCACGTATACTCGAA 59.150 47.619 5.91 0.00 34.70 3.71
300 310 2.346376 CGCAATGCACGTATACTCGAAC 60.346 50.000 5.91 0.00 34.70 3.95
301 311 2.858344 GCAATGCACGTATACTCGAACT 59.142 45.455 0.00 0.00 34.70 3.01
302 312 3.061139 GCAATGCACGTATACTCGAACTC 60.061 47.826 0.00 0.00 34.70 3.01
303 313 2.447089 TGCACGTATACTCGAACTCG 57.553 50.000 0.56 0.00 41.45 4.18
314 329 0.959372 TCGAACTCGAGTCCCCTCAC 60.959 60.000 20.33 4.09 44.22 3.51
317 332 1.135333 GAACTCGAGTCCCCTCACATC 59.865 57.143 20.33 5.40 37.59 3.06
365 380 7.060979 ACACATCATTCATTGAATTTTCGAACG 59.939 33.333 9.19 3.41 38.03 3.95
371 386 4.901314 TCATTGAATTTTCGAACGAACACG 59.099 37.500 9.15 0.00 33.41 4.49
383 398 7.280730 TCGAACGAACACGTATCAAATTAAT 57.719 32.000 0.00 0.00 39.39 1.40
402 417 1.007387 CCAAGCGCCCTGAACAAAC 60.007 57.895 2.29 0.00 0.00 2.93
419 434 8.648557 TGAACAAACATGCATACTATCTACTC 57.351 34.615 0.00 0.00 0.00 2.59
420 435 7.710907 TGAACAAACATGCATACTATCTACTCC 59.289 37.037 0.00 0.00 0.00 3.85
444 459 4.320870 ACTACTTTGTCACCATTTACGGG 58.679 43.478 0.00 0.00 0.00 5.28
480 503 7.618502 TGTACTAGCAAAACTGTCAAAAAGA 57.381 32.000 0.00 0.00 0.00 2.52
508 531 4.943705 AGTTACCACTTGCACCAATCTATG 59.056 41.667 0.00 0.00 0.00 2.23
525 548 2.439156 GGGTGCATGCTGTCCTCC 60.439 66.667 20.33 10.88 0.00 4.30
570 1919 4.899239 CCGGCCGACATCCTGAGC 62.899 72.222 30.73 0.00 0.00 4.26
588 1945 1.672356 CCCAGGCCTGACGTGAAAG 60.672 63.158 34.91 14.22 36.20 2.62
865 2298 3.402628 ACCAGCTGCCCTATAAATACG 57.597 47.619 8.66 0.00 0.00 3.06
962 2398 2.041115 GGCCTCGAACCTTCCAAGC 61.041 63.158 0.00 0.00 0.00 4.01
1191 2630 1.299165 CTACGGCATCGACTTCCCG 60.299 63.158 11.75 11.75 45.80 5.14
1250 2689 4.456883 CCGTCGACGCCATCTGTAAGAT 62.457 54.545 31.73 0.00 46.86 2.40
1389 2861 3.290308 AGTCGAGTTAAGACTGCACAG 57.710 47.619 0.00 0.00 46.12 3.66
1395 2867 1.661112 GTTAAGACTGCACAGATCGGC 59.339 52.381 4.31 0.00 0.00 5.54
1415 2887 3.370061 GGCTGAATGTACGAGGTGTTTAC 59.630 47.826 0.00 0.00 0.00 2.01
1428 2900 2.359848 GGTGTTTACTTGTGGTCAACCC 59.640 50.000 0.00 0.00 32.71 4.11
1438 2910 3.479979 GTCAACCCGAGACCCCTT 58.520 61.111 0.00 0.00 0.00 3.95
1454 2926 1.151668 CCTTCAGTCCTTCACTTGCG 58.848 55.000 0.00 0.00 30.26 4.85
1472 2944 0.592500 CGGTGATGACGATGTCTCCG 60.593 60.000 12.05 12.05 33.15 4.63
1521 3144 1.468520 AGGAAAAACATCCATGACGCG 59.531 47.619 3.53 3.53 42.27 6.01
1544 3167 1.427819 GGCGGCCACGATTTTAGTG 59.572 57.895 15.62 0.00 44.60 2.74
1556 3179 1.623081 TTTTAGTGAAGGAGCGCGCG 61.623 55.000 28.44 28.44 0.00 6.86
1616 3240 4.704833 CCCCGTGACTGTGCCTGG 62.705 72.222 0.00 0.00 0.00 4.45
1630 3254 2.202987 CTGGAGCCAGGTGATCGC 60.203 66.667 8.69 0.00 40.17 4.58
1634 3258 2.685017 AGCCAGGTGATCGCTGGA 60.685 61.111 21.63 0.00 40.50 3.86
1636 3260 1.153086 GCCAGGTGATCGCTGGAAT 60.153 57.895 21.63 0.00 40.50 3.01
1673 3312 0.305922 GCCATTGCGCATCTGTACTC 59.694 55.000 12.75 0.00 0.00 2.59
1674 3313 1.655484 CCATTGCGCATCTGTACTCA 58.345 50.000 12.75 0.00 0.00 3.41
1683 3322 2.791560 GCATCTGTACTCATGCGTGTAG 59.208 50.000 5.68 4.94 0.00 2.74
1744 3388 5.239525 GGTTATGAAGTTCACCTGCATATCC 59.760 44.000 7.96 0.99 40.69 2.59
1765 3409 1.144969 TGTCGATTTTGTCTGGCGTC 58.855 50.000 0.00 0.00 0.00 5.19
1844 3585 1.479323 ACTTCCATTCCATGCATGCAC 59.521 47.619 25.37 0.00 0.00 4.57
1857 3611 3.655486 TGCATGCACCATCAAAAGAAAG 58.345 40.909 18.46 0.00 0.00 2.62
1861 3615 5.399858 CATGCACCATCAAAAGAAAGAGAG 58.600 41.667 0.00 0.00 0.00 3.20
1911 3751 5.220135 CCCGCACGTTTAATAAATTTTCTGC 60.220 40.000 0.00 0.00 0.00 4.26
1913 3753 6.449458 CGCACGTTTAATAAATTTTCTGCTG 58.551 36.000 0.00 0.00 0.00 4.41
1914 3754 6.087555 CGCACGTTTAATAAATTTTCTGCTGT 59.912 34.615 0.00 0.00 0.00 4.40
2118 3971 9.413734 ACGTGATATATATGATCCTCTTGATGA 57.586 33.333 0.00 0.00 32.41 2.92
2127 3980 6.908870 TGATCCTCTTGATGAAATAACGTG 57.091 37.500 0.00 0.00 32.41 4.49
2128 3981 5.817296 TGATCCTCTTGATGAAATAACGTGG 59.183 40.000 0.00 0.00 32.41 4.94
2129 3982 3.938963 TCCTCTTGATGAAATAACGTGGC 59.061 43.478 0.00 0.00 0.00 5.01
2130 3983 3.065371 CCTCTTGATGAAATAACGTGGCC 59.935 47.826 0.00 0.00 0.00 5.36
2131 3984 3.941483 CTCTTGATGAAATAACGTGGCCT 59.059 43.478 3.32 0.00 0.00 5.19
2132 3985 5.092554 TCTTGATGAAATAACGTGGCCTA 57.907 39.130 3.32 0.00 0.00 3.93
2151 4004 3.861113 CCTAGCTAATTAACGTTGCACGA 59.139 43.478 11.99 0.00 46.05 4.35
2177 4055 0.322098 CCAAACATGGTACGCAGGGA 60.322 55.000 0.00 0.00 0.00 4.20
2369 4247 2.923035 ACCAGCCGGCAGTACACT 60.923 61.111 31.54 1.71 34.57 3.55
2428 4306 0.101399 CAGCAGCTCAGGGTACGTAG 59.899 60.000 0.00 0.00 0.00 3.51
2455 4333 0.455633 ACGTACGATCGAGTGTTGGC 60.456 55.000 24.34 1.50 34.70 4.52
2456 4334 0.179171 CGTACGATCGAGTGTTGGCT 60.179 55.000 24.34 0.00 0.00 4.75
2457 4335 1.269166 GTACGATCGAGTGTTGGCTG 58.731 55.000 24.34 0.00 0.00 4.85
2458 4336 1.135489 GTACGATCGAGTGTTGGCTGA 60.135 52.381 24.34 0.00 0.00 4.26
2459 4337 0.532573 ACGATCGAGTGTTGGCTGAT 59.467 50.000 24.34 0.00 0.00 2.90
2460 4338 0.926155 CGATCGAGTGTTGGCTGATG 59.074 55.000 10.26 0.00 0.00 3.07
2461 4339 0.654683 GATCGAGTGTTGGCTGATGC 59.345 55.000 0.00 0.00 38.76 3.91
2463 4341 0.036105 TCGAGTGTTGGCTGATGCAT 60.036 50.000 0.00 0.00 41.91 3.96
2464 4342 0.098200 CGAGTGTTGGCTGATGCATG 59.902 55.000 2.46 0.00 41.91 4.06
2465 4343 0.454600 GAGTGTTGGCTGATGCATGG 59.545 55.000 2.46 0.00 41.91 3.66
2467 4345 1.304630 TGTTGGCTGATGCATGGCT 60.305 52.632 2.46 0.00 41.91 4.75
2469 4347 1.000646 TTGGCTGATGCATGGCTCA 60.001 52.632 2.46 6.17 41.91 4.26
2470 4348 0.396556 TTGGCTGATGCATGGCTCAT 60.397 50.000 2.46 0.00 41.91 2.90
2471 4349 0.822121 TGGCTGATGCATGGCTCATC 60.822 55.000 2.46 0.00 41.91 2.92
2472 4350 0.537600 GGCTGATGCATGGCTCATCT 60.538 55.000 2.46 0.00 40.59 2.90
2479 4357 3.581024 TGCATGGCTCATCTTGAAAAC 57.419 42.857 0.00 0.00 0.00 2.43
2514 4397 4.336153 TGTTGGCTGATGCTGTGTATTATG 59.664 41.667 0.00 0.00 39.59 1.90
2517 4400 3.251729 GGCTGATGCTGTGTATTATGTGG 59.748 47.826 0.00 0.00 39.59 4.17
2822 6213 1.667756 CCGAGCTGCACGTTTGTACTA 60.668 52.381 17.58 0.00 0.00 1.82
2823 6214 1.385743 CGAGCTGCACGTTTGTACTAC 59.614 52.381 11.32 0.00 0.00 2.73
2824 6215 1.725164 GAGCTGCACGTTTGTACTACC 59.275 52.381 1.02 0.00 0.00 3.18
2825 6216 0.437295 GCTGCACGTTTGTACTACCG 59.563 55.000 0.00 0.00 0.00 4.02
2826 6217 1.931709 GCTGCACGTTTGTACTACCGA 60.932 52.381 0.81 0.00 0.00 4.69
2827 6218 1.983605 CTGCACGTTTGTACTACCGAG 59.016 52.381 0.81 0.00 0.00 4.63
2828 6219 1.608109 TGCACGTTTGTACTACCGAGA 59.392 47.619 0.81 0.00 0.00 4.04
2829 6220 2.248487 GCACGTTTGTACTACCGAGAG 58.752 52.381 0.81 0.00 0.00 3.20
2830 6221 2.351157 GCACGTTTGTACTACCGAGAGT 60.351 50.000 0.81 0.00 0.00 3.24
2844 6235 2.354510 CCGAGAGTAGTCTGAAGCTGAG 59.645 54.545 4.36 0.00 30.97 3.35
2857 6248 1.211456 AGCTGAGAGAAATGGAGGGG 58.789 55.000 0.00 0.00 0.00 4.79
2859 6250 1.407989 GCTGAGAGAAATGGAGGGGTG 60.408 57.143 0.00 0.00 0.00 4.61
2860 6251 1.912043 CTGAGAGAAATGGAGGGGTGT 59.088 52.381 0.00 0.00 0.00 4.16
2861 6252 1.630369 TGAGAGAAATGGAGGGGTGTG 59.370 52.381 0.00 0.00 0.00 3.82
2999 6390 3.948719 GACGCCTTCCACCCCACA 61.949 66.667 0.00 0.00 0.00 4.17
3110 6501 3.623510 GGCTCTAGTTATGCAACAACCTC 59.376 47.826 10.11 0.00 37.10 3.85
3114 6505 5.488341 TCTAGTTATGCAACAACCTCCTTC 58.512 41.667 10.11 0.00 37.10 3.46
3141 6532 9.509956 TCCAAAGAGAAAAAGAAATTATACGGA 57.490 29.630 0.00 0.00 0.00 4.69
3149 6540 7.490962 AAAAGAAATTATACGGATCGCATGA 57.509 32.000 0.00 0.00 0.00 3.07
3152 6543 7.672983 AGAAATTATACGGATCGCATGAATT 57.327 32.000 0.00 0.00 0.00 2.17
3157 6548 8.716646 ATTATACGGATCGCATGAATTATCAA 57.283 30.769 0.00 0.00 39.49 2.57
3168 6559 6.238566 CGCATGAATTATCAACATCAGAACCT 60.239 38.462 0.00 0.00 39.49 3.50
3169 6560 7.041848 CGCATGAATTATCAACATCAGAACCTA 60.042 37.037 0.00 0.00 39.49 3.08
3170 6561 8.790718 GCATGAATTATCAACATCAGAACCTAT 58.209 33.333 0.00 0.00 39.49 2.57
3188 6580 7.337942 AGAACCTATATGCTGGCTATATTTTGC 59.662 37.037 0.00 0.00 0.00 3.68
3191 6583 6.600822 CCTATATGCTGGCTATATTTTGCTGT 59.399 38.462 0.00 0.00 0.00 4.40
3223 6615 1.271163 TGGTCCGTGGGAATGAAAGTC 60.271 52.381 0.00 0.00 31.38 3.01
3253 6645 2.549329 TGTTACTTCAGTGCACTGCATG 59.451 45.455 36.76 28.65 41.91 4.06
3296 6688 1.790043 TGTGCATCTGAACAACGTACG 59.210 47.619 15.01 15.01 28.73 3.67
3297 6689 1.790623 GTGCATCTGAACAACGTACGT 59.209 47.619 16.72 16.72 0.00 3.57
3298 6690 2.981805 GTGCATCTGAACAACGTACGTA 59.018 45.455 23.12 4.01 0.00 3.57
3299 6691 2.981805 TGCATCTGAACAACGTACGTAC 59.018 45.455 23.12 15.90 0.00 3.67
3316 6708 4.319177 ACGTACGAGTACTTGTAAGGAGT 58.681 43.478 28.80 20.46 34.56 3.85
3386 6779 3.264998 TCATCCATCATTGTGCTTCGA 57.735 42.857 0.00 0.00 0.00 3.71
3425 6818 9.185192 CAGTTCCAAGAAAACTATCATTGTTTC 57.815 33.333 0.00 0.00 36.72 2.78
3441 6834 2.736721 TGTTTCTGTATGAAGAGCGTGC 59.263 45.455 0.00 0.00 35.89 5.34
3446 6839 1.068474 GTATGAAGAGCGTGCGTGTT 58.932 50.000 0.00 0.00 0.00 3.32
3450 6843 0.654472 GAAGAGCGTGCGTGTTTGTG 60.654 55.000 0.00 0.00 0.00 3.33
3451 6844 1.366111 AAGAGCGTGCGTGTTTGTGT 61.366 50.000 0.00 0.00 0.00 3.72
3452 6845 1.651132 GAGCGTGCGTGTTTGTGTG 60.651 57.895 0.00 0.00 0.00 3.82
3453 6846 2.099446 GCGTGCGTGTTTGTGTGT 59.901 55.556 0.00 0.00 0.00 3.72
3454 6847 2.214292 GCGTGCGTGTTTGTGTGTG 61.214 57.895 0.00 0.00 0.00 3.82
3455 6848 1.133664 CGTGCGTGTTTGTGTGTGT 59.866 52.632 0.00 0.00 0.00 3.72
3456 6849 1.125274 CGTGCGTGTTTGTGTGTGTG 61.125 55.000 0.00 0.00 0.00 3.82
3457 6850 1.154131 TGCGTGTTTGTGTGTGTGC 60.154 52.632 0.00 0.00 0.00 4.57
3458 6851 2.214292 GCGTGTTTGTGTGTGTGCG 61.214 57.895 0.00 0.00 0.00 5.34
3459 6852 1.133664 CGTGTTTGTGTGTGTGCGT 59.866 52.632 0.00 0.00 0.00 5.24
3460 6853 0.453615 CGTGTTTGTGTGTGTGCGTT 60.454 50.000 0.00 0.00 0.00 4.84
3461 6854 1.692296 GTGTTTGTGTGTGTGCGTTT 58.308 45.000 0.00 0.00 0.00 3.60
3462 6855 2.055100 GTGTTTGTGTGTGTGCGTTTT 58.945 42.857 0.00 0.00 0.00 2.43
3463 6856 2.473235 GTGTTTGTGTGTGTGCGTTTTT 59.527 40.909 0.00 0.00 0.00 1.94
3486 6879 3.981071 ACGGAAAAGGACATCTGATGA 57.019 42.857 23.59 0.00 0.00 2.92
3489 6882 4.878397 ACGGAAAAGGACATCTGATGATTC 59.122 41.667 23.59 16.38 0.00 2.52
3509 6902 2.885266 TCGCATCATACCAGACTAGTCC 59.115 50.000 19.38 1.81 0.00 3.85
3516 6909 1.330655 ACCAGACTAGTCCATGGCCG 61.331 60.000 24.24 7.79 36.21 6.13
3526 6919 1.135960 TCCATGGCCGTTGGATATGA 58.864 50.000 20.41 1.56 38.35 2.15
3553 6946 3.894427 AGATGAACGTCTGATATGCTCCT 59.106 43.478 0.00 0.00 0.00 3.69
3574 6967 0.315568 AGGATCCGCACGAGATTAGC 59.684 55.000 5.98 0.00 0.00 3.09
3578 6971 0.102481 TCCGCACGAGATTAGCCTTC 59.898 55.000 0.00 0.00 0.00 3.46
3602 6995 2.257034 CGTAACTTCTCCCGCAACTAC 58.743 52.381 0.00 0.00 0.00 2.73
3603 6996 2.352030 CGTAACTTCTCCCGCAACTACA 60.352 50.000 0.00 0.00 0.00 2.74
3604 6997 2.165319 AACTTCTCCCGCAACTACAC 57.835 50.000 0.00 0.00 0.00 2.90
3605 6998 1.045407 ACTTCTCCCGCAACTACACA 58.955 50.000 0.00 0.00 0.00 3.72
3629 7022 3.889538 AGTAGAAAACAGGGCTTTGGTTC 59.110 43.478 0.00 0.00 0.00 3.62
3630 7023 2.745968 AGAAAACAGGGCTTTGGTTCA 58.254 42.857 0.00 0.00 0.00 3.18
3634 7027 1.286880 CAGGGCTTTGGTTCAAGCG 59.713 57.895 0.00 0.00 0.00 4.68
3649 7042 0.897863 AAGCGTGCCAAGCCCATTAA 60.898 50.000 0.00 0.00 34.64 1.40
3651 7044 0.528249 GCGTGCCAAGCCCATTAATG 60.528 55.000 8.58 8.58 0.00 1.90
3652 7045 0.817013 CGTGCCAAGCCCATTAATGT 59.183 50.000 14.25 0.00 0.00 2.71
3675 7068 2.835027 GTTCAGTCAAGAACCGGAACT 58.165 47.619 9.46 3.47 41.52 3.01
3712 7105 4.467084 GATTCGTGCGCCCAGGGA 62.467 66.667 10.89 0.00 0.00 4.20
3762 7155 3.622630 CCGGTTTATGTGGACCCATTTA 58.377 45.455 0.00 0.00 32.14 1.40
3775 7168 4.658901 GGACCCATTTATCCTGGTTCTAGA 59.341 45.833 0.00 0.00 31.44 2.43
3778 7171 5.491078 ACCCATTTATCCTGGTTCTAGACAA 59.509 40.000 0.00 0.00 31.44 3.18
3807 7200 2.688666 AATGGGCCTCGCTCCTGA 60.689 61.111 4.53 0.00 0.00 3.86
3831 7224 3.131478 GCCATTGGTCCCGGTTCG 61.131 66.667 0.00 0.00 0.00 3.95
3841 7234 1.447314 CCCGGTTCGTGCCTAGAAC 60.447 63.158 0.00 7.30 45.16 3.01
3900 7293 1.877443 CGAACCGGGACAAATGAGTTT 59.123 47.619 6.32 0.00 0.00 2.66
3943 7336 0.891373 GAGCAGAGCAGTCCACACTA 59.109 55.000 0.00 0.00 0.00 2.74
3944 7337 1.480137 GAGCAGAGCAGTCCACACTAT 59.520 52.381 0.00 0.00 0.00 2.12
3946 7339 2.093764 AGCAGAGCAGTCCACACTATTC 60.094 50.000 0.00 0.00 0.00 1.75
4026 7419 2.777094 TGAGGTGTTCGATGAAATGCA 58.223 42.857 0.00 0.00 0.00 3.96
4027 7420 3.346315 TGAGGTGTTCGATGAAATGCAT 58.654 40.909 0.00 0.00 40.77 3.96
4032 7425 2.097954 TGTTCGATGAAATGCATGAGCC 59.902 45.455 0.00 0.00 41.13 4.70
4036 7429 1.402968 GATGAAATGCATGAGCCACGT 59.597 47.619 0.00 0.00 41.13 4.49
4079 7472 4.338815 TCGACCTCCGAGCTTCAT 57.661 55.556 0.00 0.00 43.23 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
109 114 1.328279 CCCCACCAAGGTCAGAAAAC 58.672 55.000 0.00 0.00 34.66 2.43
198 203 0.249699 CGCGTGCCTTCATACCCATA 60.250 55.000 0.00 0.00 0.00 2.74
240 247 2.426024 AGTTGCATATCAGCCTTTGCAG 59.574 45.455 0.00 0.00 44.99 4.41
314 329 3.070748 TGTGTCATTACGGGTGTTGATG 58.929 45.455 0.00 0.00 0.00 3.07
317 332 3.500299 TCAATGTGTCATTACGGGTGTTG 59.500 43.478 0.00 0.00 0.00 3.33
365 380 6.410914 CGCTTGGATTAATTTGATACGTGTTC 59.589 38.462 0.00 0.00 0.00 3.18
371 386 4.278419 AGGGCGCTTGGATTAATTTGATAC 59.722 41.667 7.64 0.00 0.00 2.24
383 398 1.152860 TTTGTTCAGGGCGCTTGGA 60.153 52.632 7.64 0.00 0.00 3.53
402 417 9.456147 AAGTAGTAGGAGTAGATAGTATGCATG 57.544 37.037 10.16 0.00 0.00 4.06
444 459 5.739752 TTGCTAGTACATGAATGATGCAC 57.260 39.130 0.00 0.00 35.15 4.57
480 503 1.675552 GTGCAAGTGGTAACTGGTGT 58.324 50.000 0.00 0.00 36.51 4.16
508 531 2.439156 GGAGGACAGCATGCACCC 60.439 66.667 21.98 16.83 42.53 4.61
525 548 5.980324 TTCGTCGTTTTCGTACTATTCAG 57.020 39.130 0.00 0.00 44.46 3.02
570 1919 1.672356 CTTTCACGTCAGGCCTGGG 60.672 63.158 32.23 25.03 0.00 4.45
588 1945 4.664677 ACAGTGCCGGCTCGTGTC 62.665 66.667 29.70 10.71 0.00 3.67
865 2298 3.195698 GACCGGCACATTCGAGCC 61.196 66.667 0.00 3.38 44.74 4.70
893 2326 0.931005 GGAGGAAATGCGTGATCGAC 59.069 55.000 0.00 0.00 39.71 4.20
894 2327 0.527600 CGGAGGAAATGCGTGATCGA 60.528 55.000 0.00 0.00 38.06 3.59
1027 2466 1.898574 CCACCAGAAGCACCACCAC 60.899 63.158 0.00 0.00 0.00 4.16
1250 2689 6.500049 AGAAAAGAAAAGAGATGAGAGAGGGA 59.500 38.462 0.00 0.00 0.00 4.20
1254 2693 9.844257 AGAAAAGAAAAGAAAAGAGATGAGAGA 57.156 29.630 0.00 0.00 0.00 3.10
1389 2861 1.067212 ACCTCGTACATTCAGCCGATC 59.933 52.381 0.00 0.00 0.00 3.69
1395 2867 5.694910 ACAAGTAAACACCTCGTACATTCAG 59.305 40.000 0.00 0.00 0.00 3.02
1415 2887 2.914379 GTCTCGGGTTGACCACAAG 58.086 57.895 2.12 0.00 40.22 3.16
1428 2900 0.533032 GAAGGACTGAAGGGGTCTCG 59.467 60.000 0.00 0.00 34.47 4.04
1436 2908 1.151668 CCGCAAGTGAAGGACTGAAG 58.848 55.000 0.00 0.00 34.02 3.02
1437 2909 0.468226 ACCGCAAGTGAAGGACTGAA 59.532 50.000 1.05 0.00 34.02 3.02
1438 2910 2.133195 ACCGCAAGTGAAGGACTGA 58.867 52.632 1.05 0.00 34.02 3.41
1454 2926 0.456221 ACGGAGACATCGTCATCACC 59.544 55.000 0.00 0.00 35.87 4.02
1472 2944 4.828387 AGACTACCAACCTAGCTAGCATAC 59.172 45.833 18.83 0.06 0.00 2.39
1531 3154 2.348666 CGCTCCTTCACTAAAATCGTGG 59.651 50.000 0.00 0.00 33.31 4.94
1538 3161 2.092291 CGCGCGCTCCTTCACTAAA 61.092 57.895 30.48 0.00 0.00 1.85
1556 3179 2.887568 CAGCTGCATCGTCCGTCC 60.888 66.667 0.00 0.00 0.00 4.79
1560 3183 3.260483 CTCGCAGCTGCATCGTCC 61.260 66.667 36.03 7.35 42.21 4.79
1616 3240 2.202987 CCAGCGATCACCTGGCTC 60.203 66.667 14.45 0.00 42.98 4.70
1623 3247 2.547211 CCTTGATGATTCCAGCGATCAC 59.453 50.000 0.00 0.00 36.43 3.06
1624 3248 2.842457 CCTTGATGATTCCAGCGATCA 58.158 47.619 0.00 0.00 37.86 2.92
1625 3249 1.534595 GCCTTGATGATTCCAGCGATC 59.465 52.381 0.00 0.00 0.00 3.69
1626 3250 1.142465 AGCCTTGATGATTCCAGCGAT 59.858 47.619 0.00 0.00 0.00 4.58
1627 3251 0.543277 AGCCTTGATGATTCCAGCGA 59.457 50.000 0.00 0.00 0.00 4.93
1628 3252 2.245159 TAGCCTTGATGATTCCAGCG 57.755 50.000 0.00 0.00 0.00 5.18
1630 3254 4.785301 TCCTTTAGCCTTGATGATTCCAG 58.215 43.478 0.00 0.00 0.00 3.86
1634 3258 3.560105 GCCTCCTTTAGCCTTGATGATT 58.440 45.455 0.00 0.00 0.00 2.57
1636 3260 1.212935 GGCCTCCTTTAGCCTTGATGA 59.787 52.381 0.00 0.00 46.14 2.92
1658 3297 1.009078 GCATGAGTACAGATGCGCAA 58.991 50.000 17.11 0.00 0.00 4.85
1673 3312 2.434185 ACACGGGCTACACGCATG 60.434 61.111 0.00 0.00 41.67 4.06
1674 3313 2.434185 CACACGGGCTACACGCAT 60.434 61.111 0.00 0.00 41.67 4.73
1684 3323 0.875728 TTAACGAATTGCCACACGGG 59.124 50.000 0.00 0.00 40.85 5.28
1688 3332 6.811253 ATTAGTCTTTAACGAATTGCCACA 57.189 33.333 0.00 0.00 29.95 4.17
1692 3336 9.698617 ACGATTTATTAGTCTTTAACGAATTGC 57.301 29.630 0.00 0.00 35.23 3.56
1697 3341 8.761575 ACCAACGATTTATTAGTCTTTAACGA 57.238 30.769 0.00 0.00 0.00 3.85
1744 3388 1.464608 ACGCCAGACAAAATCGACATG 59.535 47.619 0.00 0.00 0.00 3.21
1765 3409 9.852091 AACTTATTTAGTCACTAGTTCGTTAGG 57.148 33.333 0.00 0.00 35.54 2.69
1844 3585 8.408601 TGTTCTTTTCTCTCTTTCTTTTGATGG 58.591 33.333 0.00 0.00 0.00 3.51
1911 3751 1.196354 CAGAAGCCGAGCTGAAAACAG 59.804 52.381 0.00 0.00 39.62 3.16
1913 3753 0.519077 CCAGAAGCCGAGCTGAAAAC 59.481 55.000 0.00 0.00 39.62 2.43
1914 3754 0.606401 CCCAGAAGCCGAGCTGAAAA 60.606 55.000 0.00 0.00 39.62 2.29
1964 3814 4.660168 AGAGGAGTTGATCATTGTTTGCT 58.340 39.130 0.00 0.00 0.00 3.91
2110 3963 3.950397 AGGCCACGTTATTTCATCAAGA 58.050 40.909 5.01 0.00 0.00 3.02
2111 3964 4.260784 GCTAGGCCACGTTATTTCATCAAG 60.261 45.833 5.01 0.00 0.00 3.02
2112 3965 3.625764 GCTAGGCCACGTTATTTCATCAA 59.374 43.478 5.01 0.00 0.00 2.57
2116 3969 4.475051 TTAGCTAGGCCACGTTATTTCA 57.525 40.909 5.01 0.00 0.00 2.69
2117 3970 7.350467 GTTAATTAGCTAGGCCACGTTATTTC 58.650 38.462 5.01 0.00 0.00 2.17
2118 3971 6.018507 CGTTAATTAGCTAGGCCACGTTATTT 60.019 38.462 5.01 3.36 0.00 1.40
2119 3972 5.464389 CGTTAATTAGCTAGGCCACGTTATT 59.536 40.000 5.01 0.00 0.00 1.40
2120 3973 4.986659 CGTTAATTAGCTAGGCCACGTTAT 59.013 41.667 5.01 0.00 0.00 1.89
2121 3974 4.142182 ACGTTAATTAGCTAGGCCACGTTA 60.142 41.667 5.01 0.00 36.25 3.18
2122 3975 3.192466 CGTTAATTAGCTAGGCCACGTT 58.808 45.455 5.01 0.00 0.00 3.99
2123 3976 2.167075 ACGTTAATTAGCTAGGCCACGT 59.833 45.455 5.01 14.11 34.92 4.49
2124 3977 2.817901 ACGTTAATTAGCTAGGCCACG 58.182 47.619 5.01 4.18 0.00 4.94
2125 3978 3.242641 GCAACGTTAATTAGCTAGGCCAC 60.243 47.826 5.01 0.00 0.00 5.01
2126 3979 2.940410 GCAACGTTAATTAGCTAGGCCA 59.060 45.455 5.01 0.00 0.00 5.36
2127 3980 2.940410 TGCAACGTTAATTAGCTAGGCC 59.060 45.455 0.00 0.00 0.00 5.19
2128 3981 3.936661 GTGCAACGTTAATTAGCTAGGC 58.063 45.455 0.00 0.00 0.00 3.93
2177 4055 2.464459 GCCGAAGCTTATGCGCTGT 61.464 57.895 9.73 0.00 45.42 4.40
2428 4306 0.730155 TCGATCGTACGTGTTGGCAC 60.730 55.000 15.94 0.00 41.97 5.01
2434 4312 1.400629 CCAACACTCGATCGTACGTGT 60.401 52.381 24.03 24.03 41.92 4.49
2455 4333 2.572290 TCAAGATGAGCCATGCATCAG 58.428 47.619 12.51 0.00 43.50 2.90
2456 4334 2.721425 TCAAGATGAGCCATGCATCA 57.279 45.000 12.51 7.38 43.50 3.07
2457 4335 4.110482 GTTTTCAAGATGAGCCATGCATC 58.890 43.478 0.00 4.20 41.85 3.91
2458 4336 3.428452 CGTTTTCAAGATGAGCCATGCAT 60.428 43.478 0.00 0.00 0.00 3.96
2459 4337 2.095110 CGTTTTCAAGATGAGCCATGCA 60.095 45.455 0.00 0.00 0.00 3.96
2460 4338 2.523015 CGTTTTCAAGATGAGCCATGC 58.477 47.619 0.00 0.00 0.00 4.06
2461 4339 2.095110 TGCGTTTTCAAGATGAGCCATG 60.095 45.455 0.00 0.00 0.00 3.66
2463 4341 1.603456 TGCGTTTTCAAGATGAGCCA 58.397 45.000 0.00 0.00 0.00 4.75
2464 4342 2.523015 CATGCGTTTTCAAGATGAGCC 58.477 47.619 0.00 0.00 0.00 4.70
2465 4343 1.916000 GCATGCGTTTTCAAGATGAGC 59.084 47.619 0.00 0.00 0.00 4.26
2467 4345 3.503891 CATGCATGCGTTTTCAAGATGA 58.496 40.909 14.93 0.00 0.00 2.92
2469 4347 2.883574 CCATGCATGCGTTTTCAAGAT 58.116 42.857 21.69 0.00 0.00 2.40
2470 4348 1.669502 GCCATGCATGCGTTTTCAAGA 60.670 47.619 21.69 0.00 0.00 3.02
2471 4349 0.717224 GCCATGCATGCGTTTTCAAG 59.283 50.000 21.69 5.34 0.00 3.02
2472 4350 0.317799 AGCCATGCATGCGTTTTCAA 59.682 45.000 21.69 0.00 0.00 2.69
2479 4357 2.202690 CCAACAGCCATGCATGCG 60.203 61.111 21.69 15.04 0.00 4.73
2514 4397 1.639298 GGATCTGCAAGCACGTCCAC 61.639 60.000 13.26 0.00 0.00 4.02
2517 4400 0.671781 ACAGGATCTGCAAGCACGTC 60.672 55.000 0.00 0.00 34.37 4.34
2822 6213 2.088423 CAGCTTCAGACTACTCTCGGT 58.912 52.381 0.00 0.00 0.00 4.69
2823 6214 2.354510 CTCAGCTTCAGACTACTCTCGG 59.645 54.545 0.00 0.00 0.00 4.63
2824 6215 3.266636 TCTCAGCTTCAGACTACTCTCG 58.733 50.000 0.00 0.00 0.00 4.04
2825 6216 4.513442 TCTCTCAGCTTCAGACTACTCTC 58.487 47.826 0.00 0.00 0.00 3.20
2826 6217 4.568072 TCTCTCAGCTTCAGACTACTCT 57.432 45.455 0.00 0.00 0.00 3.24
2827 6218 5.637006 TTTCTCTCAGCTTCAGACTACTC 57.363 43.478 0.00 0.00 0.00 2.59
2828 6219 5.105392 CCATTTCTCTCAGCTTCAGACTACT 60.105 44.000 0.00 0.00 0.00 2.57
2829 6220 5.105554 TCCATTTCTCTCAGCTTCAGACTAC 60.106 44.000 0.00 0.00 0.00 2.73
2830 6221 5.019470 TCCATTTCTCTCAGCTTCAGACTA 58.981 41.667 0.00 0.00 0.00 2.59
2844 6235 0.698818 ACCACACCCCTCCATTTCTC 59.301 55.000 0.00 0.00 0.00 2.87
2857 6248 3.064324 GGCCTGCATCCACCACAC 61.064 66.667 0.00 0.00 0.00 3.82
2859 6250 2.753043 CAGGCCTGCATCCACCAC 60.753 66.667 22.33 0.00 0.00 4.16
2860 6251 2.934932 TCAGGCCTGCATCCACCA 60.935 61.111 28.91 4.97 0.00 4.17
2861 6252 2.439156 GTCAGGCCTGCATCCACC 60.439 66.667 28.91 5.43 0.00 4.61
2999 6390 3.011517 AGGATGTTGGCGGCCTCT 61.012 61.111 21.46 5.30 0.00 3.69
3089 6480 3.623510 GGAGGTTGTTGCATAACTAGAGC 59.376 47.826 12.38 0.00 37.68 4.09
3114 6505 9.774742 CCGTATAATTTCTTTTTCTCTTTGGAG 57.225 33.333 0.00 0.00 40.73 3.86
3132 6523 8.604035 GTTGATAATTCATGCGATCCGTATAAT 58.396 33.333 0.00 0.00 30.06 1.28
3139 6530 6.148315 TCTGATGTTGATAATTCATGCGATCC 59.852 38.462 0.00 0.00 0.00 3.36
3141 6532 7.358066 GTTCTGATGTTGATAATTCATGCGAT 58.642 34.615 0.00 0.00 0.00 4.58
3152 6543 7.389232 CCAGCATATAGGTTCTGATGTTGATA 58.611 38.462 0.00 0.00 33.75 2.15
3157 6548 3.649981 AGCCAGCATATAGGTTCTGATGT 59.350 43.478 0.00 0.00 0.00 3.06
3168 6559 6.375174 CCACAGCAAAATATAGCCAGCATATA 59.625 38.462 0.00 0.00 0.00 0.86
3169 6560 5.184479 CCACAGCAAAATATAGCCAGCATAT 59.816 40.000 0.00 0.00 0.00 1.78
3170 6561 4.520111 CCACAGCAAAATATAGCCAGCATA 59.480 41.667 0.00 0.00 0.00 3.14
3171 6562 3.319972 CCACAGCAAAATATAGCCAGCAT 59.680 43.478 0.00 0.00 0.00 3.79
3172 6563 2.689471 CCACAGCAAAATATAGCCAGCA 59.311 45.455 0.00 0.00 0.00 4.41
3173 6564 2.689983 ACCACAGCAAAATATAGCCAGC 59.310 45.455 0.00 0.00 0.00 4.85
3174 6565 3.696051 ACACCACAGCAAAATATAGCCAG 59.304 43.478 0.00 0.00 0.00 4.85
3188 6580 0.532862 GACCACTCCACACACCACAG 60.533 60.000 0.00 0.00 0.00 3.66
3191 6583 2.802724 CGGACCACTCCACACACCA 61.803 63.158 0.00 0.00 36.12 4.17
3223 6615 4.201773 TGCACTGAAGTAACAAAACACTCG 60.202 41.667 0.00 0.00 0.00 4.18
3253 6645 4.271049 ACATACATACATCTTGCTTGTCGC 59.729 41.667 0.00 0.00 39.77 5.19
3296 6688 6.976636 ACTACTCCTTACAAGTACTCGTAC 57.023 41.667 0.00 0.00 36.35 3.67
3298 6690 9.270640 CATATACTACTCCTTACAAGTACTCGT 57.729 37.037 0.00 0.00 0.00 4.18
3299 6691 8.229137 GCATATACTACTCCTTACAAGTACTCG 58.771 40.741 0.00 0.00 0.00 4.18
3300 6692 9.287373 AGCATATACTACTCCTTACAAGTACTC 57.713 37.037 0.00 0.00 0.00 2.59
3336 6728 8.804688 TTAATCACAATAACAAAACCGGAAAG 57.195 30.769 9.46 0.00 0.00 2.62
3340 6732 6.915349 TCCTTAATCACAATAACAAAACCGG 58.085 36.000 0.00 0.00 0.00 5.28
3386 6779 2.653726 TGGAACTGTGCTGTTTCACAT 58.346 42.857 0.00 0.00 44.88 3.21
3425 6818 0.642291 CACGCACGCTCTTCATACAG 59.358 55.000 0.00 0.00 0.00 2.74
3441 6834 0.453615 AACGCACACACACAAACACG 60.454 50.000 0.00 0.00 0.00 4.49
3461 6854 6.712998 TCATCAGATGTCCTTTTCCGTAAAAA 59.287 34.615 10.34 0.00 34.26 1.94
3462 6855 6.234920 TCATCAGATGTCCTTTTCCGTAAAA 58.765 36.000 10.34 0.00 33.58 1.52
3463 6856 5.800296 TCATCAGATGTCCTTTTCCGTAAA 58.200 37.500 10.34 0.00 0.00 2.01
3469 6862 4.333649 TGCGAATCATCAGATGTCCTTTTC 59.666 41.667 10.34 6.53 33.90 2.29
3486 6879 4.021894 GGACTAGTCTGGTATGATGCGAAT 60.022 45.833 21.88 0.00 0.00 3.34
3489 6882 2.623416 TGGACTAGTCTGGTATGATGCG 59.377 50.000 21.88 0.00 0.00 4.73
3509 6902 1.200716 GCATCATATCCAACGGCCATG 59.799 52.381 2.24 0.00 0.00 3.66
3516 6909 4.143242 CGTTCATCTCGCATCATATCCAAC 60.143 45.833 0.00 0.00 0.00 3.77
3526 6919 2.879002 ATCAGACGTTCATCTCGCAT 57.121 45.000 0.00 0.00 0.00 4.73
3553 6946 1.609072 CTAATCTCGTGCGGATCCTCA 59.391 52.381 10.75 4.97 0.00 3.86
3574 6967 2.476854 CGGGAGAAGTTACGTACGAAGG 60.477 54.545 24.41 0.00 0.00 3.46
3578 6971 0.168788 TGCGGGAGAAGTTACGTACG 59.831 55.000 15.01 15.01 0.00 3.67
3602 6995 5.106157 CCAAAGCCCTGTTTTCTACTATGTG 60.106 44.000 0.00 0.00 0.00 3.21
3603 6996 5.010282 CCAAAGCCCTGTTTTCTACTATGT 58.990 41.667 0.00 0.00 0.00 2.29
3604 6997 5.010282 ACCAAAGCCCTGTTTTCTACTATG 58.990 41.667 0.00 0.00 0.00 2.23
3605 6998 5.256806 ACCAAAGCCCTGTTTTCTACTAT 57.743 39.130 0.00 0.00 0.00 2.12
3621 7014 0.102120 TTGGCACGCTTGAACCAAAG 59.898 50.000 0.00 0.00 39.17 2.77
3629 7022 1.594194 TAATGGGCTTGGCACGCTTG 61.594 55.000 15.93 0.00 32.76 4.01
3630 7023 0.897863 TTAATGGGCTTGGCACGCTT 60.898 50.000 15.93 5.14 32.76 4.68
3634 7027 1.202290 CGACATTAATGGGCTTGGCAC 60.202 52.381 19.37 0.00 0.00 5.01
3694 7087 4.776322 CCCTGGGCGCACGAATCA 62.776 66.667 10.83 0.00 0.00 2.57
3696 7089 4.778143 GTCCCTGGGCGCACGAAT 62.778 66.667 10.83 0.00 0.00 3.34
3730 7123 2.099405 CATAAACCGGGACAAATGCCT 58.901 47.619 6.32 0.00 33.05 4.75
3743 7136 5.301805 CAGGATAAATGGGTCCACATAAACC 59.698 44.000 0.00 0.00 36.96 3.27
3775 7168 0.251165 CCATTGGTCCCGGTTCTTGT 60.251 55.000 0.00 0.00 0.00 3.16
3778 7171 3.087065 CCCATTGGTCCCGGTTCT 58.913 61.111 0.00 0.00 0.00 3.01
3788 7181 3.801997 AGGAGCGAGGCCCATTGG 61.802 66.667 0.00 0.00 0.00 3.16
3807 7200 2.440599 GGACCAATGGCTGTGGGT 59.559 61.111 0.00 0.99 40.75 4.51
3831 7224 1.218316 CTGTCCCGGTTCTAGGCAC 59.782 63.158 0.00 0.00 0.00 5.01
3900 7293 2.158564 CGGCGAGGGGGTATATATAGGA 60.159 54.545 0.00 0.00 0.00 2.94
3960 7353 3.338250 AAATGCCCTCCCCTCGCA 61.338 61.111 0.00 0.00 36.84 5.10
4026 7419 5.995897 AGAAAACTTAACTAACGTGGCTCAT 59.004 36.000 0.00 0.00 0.00 2.90
4027 7420 5.362263 AGAAAACTTAACTAACGTGGCTCA 58.638 37.500 0.00 0.00 0.00 4.26
4032 7425 6.087820 CGAGAGGAGAAAACTTAACTAACGTG 59.912 42.308 0.00 0.00 0.00 4.49
4036 7429 6.867293 GCTTCGAGAGGAGAAAACTTAACTAA 59.133 38.462 0.00 0.00 39.93 2.24


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

AutoCloner maintained by Alex Coulton.