Multiple sequence alignment - TraesCS3A01G252300

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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 TraesCS3A01G252300 chr3A 100.000 5941 0 0 1 5941 472804241 472798301 0.000000e+00 10972.0
1 TraesCS3A01G252300 chr3A 81.203 399 54 15 2950 3333 581433521 581433913 9.680000e-78 302.0
2 TraesCS3A01G252300 chr3A 83.721 129 20 1 3888 4016 519750073 519750200 2.910000e-23 121.0
3 TraesCS3A01G252300 chr3A 84.677 124 13 4 3083 3202 512033365 512033244 1.050000e-22 119.0
4 TraesCS3A01G252300 chr3D 93.510 5100 154 51 698 5747 354082282 354077310 0.000000e+00 7420.0
5 TraesCS3A01G252300 chr3D 80.591 711 89 31 1 699 354083079 354082406 2.470000e-138 503.0
6 TraesCS3A01G252300 chr3D 80.417 240 42 3 2974 3209 520550110 520550348 1.700000e-40 178.0
7 TraesCS3A01G252300 chr3D 84.971 173 18 5 5768 5938 354077253 354077087 1.020000e-37 169.0
8 TraesCS3A01G252300 chr3B 96.465 1188 27 6 3528 4704 454716649 454715466 0.000000e+00 1947.0
9 TraesCS3A01G252300 chr3B 95.176 767 22 12 556 1312 454724411 454723650 0.000000e+00 1197.0
10 TraesCS3A01G252300 chr3B 84.404 1199 75 47 4705 5849 454715346 454714206 0.000000e+00 1075.0
11 TraesCS3A01G252300 chr3B 93.056 648 26 6 1303 1946 454723430 454722798 0.000000e+00 929.0
12 TraesCS3A01G252300 chr3B 98.985 394 4 0 3154 3547 454719864 454719471 0.000000e+00 706.0
13 TraesCS3A01G252300 chr3B 87.500 544 41 11 1 540 454725142 454724622 2.370000e-168 603.0
14 TraesCS3A01G252300 chr3B 94.429 359 14 2 1945 2300 454722171 454722526 1.130000e-151 547.0
15 TraesCS3A01G252300 chr3B 80.267 375 56 11 2974 3341 742756391 742756028 3.530000e-67 267.0
16 TraesCS3A01G252300 chr3B 89.888 89 4 2 5833 5920 454714180 454714096 6.290000e-20 110.0
17 TraesCS3A01G252300 chr2A 84.727 550 68 8 3149 3692 1153824 1154363 2.440000e-148 536.0
18 TraesCS3A01G252300 chr2A 92.453 53 2 2 1879 1931 56879382 56879432 2.300000e-09 75.0
19 TraesCS3A01G252300 chr2A 97.500 40 1 0 1892 1931 578163332 578163371 1.070000e-07 69.4
20 TraesCS3A01G252300 chr5A 84.409 558 71 8 3141 3692 674966216 674965669 8.760000e-148 534.0
21 TraesCS3A01G252300 chr5A 81.566 396 52 15 2953 3333 137292221 137291832 2.080000e-79 307.0
22 TraesCS3A01G252300 chr5A 81.454 399 53 16 2950 3333 638445696 638446088 2.080000e-79 307.0
23 TraesCS3A01G252300 chr4B 83.630 562 66 15 2950 3498 265546102 265546650 6.870000e-139 505.0
24 TraesCS3A01G252300 chr4B 80.570 597 86 11 3322 3905 419762867 419762288 3.290000e-117 433.0
25 TraesCS3A01G252300 chr2B 80.678 590 89 17 3326 3902 59693007 59693584 9.140000e-118 435.0
26 TraesCS3A01G252300 chr2B 82.071 396 49 15 2953 3333 788730038 788729650 9.610000e-83 318.0
27 TraesCS3A01G252300 chr2B 85.492 193 19 2 3306 3498 788729646 788729463 6.080000e-45 193.0
28 TraesCS3A01G252300 chr2B 84.553 123 15 2 3083 3202 689240714 689240593 1.050000e-22 119.0
29 TraesCS3A01G252300 chr2B 84.553 123 15 2 3083 3202 689257631 689257510 1.050000e-22 119.0
30 TraesCS3A01G252300 chr1B 80.952 399 56 13 2950 3333 51394207 51394600 1.250000e-76 298.0
31 TraesCS3A01G252300 chr1B 85.492 193 19 2 3306 3498 51394604 51394787 6.080000e-45 193.0
32 TraesCS3A01G252300 chr1B 82.796 186 32 0 3326 3511 613234312 613234127 3.680000e-37 167.0
33 TraesCS3A01G252300 chr1B 81.301 123 20 3 3881 4001 429595915 429596036 4.900000e-16 97.1
34 TraesCS3A01G252300 chr7A 86.528 193 17 2 3306 3498 714994208 714994025 2.810000e-48 204.0
35 TraesCS3A01G252300 chr4A 81.395 172 29 2 2965 3135 666778839 666779008 2.890000e-28 137.0
36 TraesCS3A01G252300 chr5B 85.156 128 18 1 3888 4015 54715678 54715552 4.830000e-26 130.0
37 TraesCS3A01G252300 chr5B 82.946 129 21 1 3888 4016 328373997 328373870 1.350000e-21 115.0
38 TraesCS3A01G252300 chr7D 78.173 197 33 7 81 273 412104758 412104948 3.760000e-22 117.0
39 TraesCS3A01G252300 chr2D 85.047 107 14 2 3893 3998 372929920 372929815 2.260000e-19 108.0
40 TraesCS3A01G252300 chr6A 84.946 93 13 1 951 1043 346137326 346137417 6.340000e-15 93.5
41 TraesCS3A01G252300 chr1D 79.032 124 22 3 3881 4001 317438171 317438293 1.370000e-11 82.4
42 TraesCS3A01G252300 chr1A 79.200 125 21 4 3881 4001 398459556 398459679 1.370000e-11 82.4


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 TraesCS3A01G252300 chr3A 472798301 472804241 5940 True 10972.000000 10972 100.000000 1 5941 1 chr3A.!!$R1 5940
1 TraesCS3A01G252300 chr3D 354077087 354083079 5992 True 2697.333333 7420 86.357333 1 5938 3 chr3D.!!$R1 5937
2 TraesCS3A01G252300 chr3B 454714096 454725142 11046 True 938.142857 1947 92.210571 1 5920 7 chr3B.!!$R2 5919
3 TraesCS3A01G252300 chr2A 1153824 1154363 539 False 536.000000 536 84.727000 3149 3692 1 chr2A.!!$F1 543
4 TraesCS3A01G252300 chr5A 674965669 674966216 547 True 534.000000 534 84.409000 3141 3692 1 chr5A.!!$R2 551
5 TraesCS3A01G252300 chr4B 265546102 265546650 548 False 505.000000 505 83.630000 2950 3498 1 chr4B.!!$F1 548
6 TraesCS3A01G252300 chr4B 419762288 419762867 579 True 433.000000 433 80.570000 3322 3905 1 chr4B.!!$R1 583
7 TraesCS3A01G252300 chr2B 59693007 59693584 577 False 435.000000 435 80.678000 3326 3902 1 chr2B.!!$F1 576
8 TraesCS3A01G252300 chr2B 788729463 788730038 575 True 255.500000 318 83.781500 2953 3498 2 chr2B.!!$R3 545
9 TraesCS3A01G252300 chr1B 51394207 51394787 580 False 245.500000 298 83.222000 2950 3498 2 chr1B.!!$F2 548

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
259 262 0.037447 AAGCCAAGAGAGAACTGCCC 59.963 55.000 0.0 0.0 0.00 5.36 F
1173 1505 0.110373 GCGGCTGGTTTTGTCTAACG 60.110 55.000 0.0 0.0 0.00 3.18 F
1416 1984 0.339859 TGTCTGGGCTATGAGGTCCT 59.660 55.000 0.0 0.0 0.00 3.85 F
2571 3878 0.251354 TTGTCCTCTGGCTCATGCTC 59.749 55.000 0.0 0.0 39.59 4.26 F
2572 3879 1.145819 GTCCTCTGGCTCATGCTCC 59.854 63.158 0.0 0.0 39.59 4.70 F
3614 9326 1.297968 TCATCATTCCTTCCAGCCCA 58.702 50.000 0.0 0.0 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1670 2239 0.747255 GGAATAGAGAGCTCACCGCA 59.253 55.000 17.77 0.00 42.61 5.69 R
2572 3879 0.957395 AACTCCAGCATTCAGTGGCG 60.957 55.000 0.00 0.00 33.43 5.69 R
3062 5823 6.089820 GCAGCTTTTCAAAATGATTGAATCGA 59.910 34.615 4.62 0.00 38.12 3.59 R
4304 10032 1.881324 TCATCACTCAACGACCGTACA 59.119 47.619 0.00 0.00 0.00 2.90 R
4491 10224 8.528044 TGTATCAATTATCATGGCATGCATAT 57.472 30.769 22.56 13.28 0.00 1.78 R
5115 10980 0.242286 CTGACCTCCTGACACGAGTG 59.758 60.000 1.13 1.13 0.00 3.51 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
33 34 1.701847 AGCAGGAGGACACAAACATCT 59.298 47.619 0.00 0.00 0.00 2.90
35 36 3.327757 AGCAGGAGGACACAAACATCTAA 59.672 43.478 0.00 0.00 0.00 2.10
50 51 5.312120 ACATCTAAAGAAGACATCGACGT 57.688 39.130 0.00 0.00 36.93 4.34
51 52 5.710984 ACATCTAAAGAAGACATCGACGTT 58.289 37.500 0.00 0.00 36.93 3.99
80 81 5.992829 TCTCGCCTACATTAACAAAGAAACA 59.007 36.000 0.00 0.00 0.00 2.83
81 82 6.483974 TCTCGCCTACATTAACAAAGAAACAA 59.516 34.615 0.00 0.00 0.00 2.83
82 83 7.012515 TCTCGCCTACATTAACAAAGAAACAAA 59.987 33.333 0.00 0.00 0.00 2.83
83 84 6.913673 TCGCCTACATTAACAAAGAAACAAAC 59.086 34.615 0.00 0.00 0.00 2.93
110 111 0.170561 CGTCGATCTGAAGGACCGTT 59.829 55.000 0.00 0.00 0.00 4.44
134 135 7.089770 TGAGTAGACATGACACATAACTCTC 57.910 40.000 0.00 0.00 34.58 3.20
166 167 0.327924 TGTGGAAATGGAGCCGATGT 59.672 50.000 0.00 0.00 0.00 3.06
179 180 5.540337 TGGAGCCGATGTAGATTTATTCTCT 59.460 40.000 0.00 0.00 35.79 3.10
180 181 6.096695 GGAGCCGATGTAGATTTATTCTCTC 58.903 44.000 0.00 0.00 35.79 3.20
184 185 5.461526 CGATGTAGATTTATTCTCTCGGCA 58.538 41.667 0.00 0.00 35.79 5.69
185 186 5.343593 CGATGTAGATTTATTCTCTCGGCAC 59.656 44.000 0.00 0.00 35.79 5.01
211 213 0.249826 CACCACCCCAACAATGCAAC 60.250 55.000 0.00 0.00 0.00 4.17
213 215 0.467384 CCACCCCAACAATGCAACAA 59.533 50.000 0.00 0.00 0.00 2.83
241 244 8.808240 AATCCTACCCCTATGACTATTTACAA 57.192 34.615 0.00 0.00 0.00 2.41
244 247 5.306114 ACCCCTATGACTATTTACAAGCC 57.694 43.478 0.00 0.00 0.00 4.35
246 249 5.192923 ACCCCTATGACTATTTACAAGCCAA 59.807 40.000 0.00 0.00 0.00 4.52
249 252 6.708054 CCCTATGACTATTTACAAGCCAAGAG 59.292 42.308 0.00 0.00 0.00 2.85
255 258 7.010339 ACTATTTACAAGCCAAGAGAGAACT 57.990 36.000 0.00 0.00 0.00 3.01
257 260 1.889545 ACAAGCCAAGAGAGAACTGC 58.110 50.000 0.00 0.00 0.00 4.40
258 261 1.163554 CAAGCCAAGAGAGAACTGCC 58.836 55.000 0.00 0.00 0.00 4.85
259 262 0.037447 AAGCCAAGAGAGAACTGCCC 59.963 55.000 0.00 0.00 0.00 5.36
260 263 1.377856 GCCAAGAGAGAACTGCCCC 60.378 63.158 0.00 0.00 0.00 5.80
261 264 1.301293 CCAAGAGAGAACTGCCCCC 59.699 63.158 0.00 0.00 0.00 5.40
262 265 1.204113 CCAAGAGAGAACTGCCCCCT 61.204 60.000 0.00 0.00 0.00 4.79
263 266 0.251634 CAAGAGAGAACTGCCCCCTC 59.748 60.000 0.00 0.00 0.00 4.30
264 267 0.912006 AAGAGAGAACTGCCCCCTCC 60.912 60.000 0.00 0.00 0.00 4.30
353 358 1.485124 GGAAAATCGCCCTCCCAAAT 58.515 50.000 0.00 0.00 0.00 2.32
362 367 0.611896 CCCTCCCAAATCGCCTGTTT 60.612 55.000 0.00 0.00 0.00 2.83
364 369 1.247567 CTCCCAAATCGCCTGTTTGT 58.752 50.000 0.00 0.00 35.35 2.83
365 370 2.432444 CTCCCAAATCGCCTGTTTGTA 58.568 47.619 0.00 0.00 35.35 2.41
406 411 3.400054 GGGTGAAGAGACCCGGGG 61.400 72.222 27.92 12.73 46.45 5.73
474 479 2.514205 ATTGCAAATAAGCGGCATCC 57.486 45.000 1.71 0.00 37.39 3.51
552 559 7.624360 AGCAAATTATTGAACGGTTAGATCA 57.376 32.000 0.00 0.00 38.94 2.92
553 560 7.472543 AGCAAATTATTGAACGGTTAGATCAC 58.527 34.615 0.00 0.00 38.94 3.06
554 561 7.336931 AGCAAATTATTGAACGGTTAGATCACT 59.663 33.333 0.00 0.00 38.94 3.41
585 787 5.384787 GTTTAAACAGGATTAAACCGACCG 58.615 41.667 13.51 0.00 44.38 4.79
586 788 2.845363 AACAGGATTAAACCGACCGT 57.155 45.000 0.00 0.00 34.73 4.83
587 789 2.845363 ACAGGATTAAACCGACCGTT 57.155 45.000 0.00 0.00 35.70 4.44
597 799 8.183536 GGATTAAACCGACCGTTTTTACATTAT 58.816 33.333 0.00 0.00 42.15 1.28
598 800 9.558648 GATTAAACCGACCGTTTTTACATTATT 57.441 29.630 0.00 0.00 42.15 1.40
599 801 8.725212 TTAAACCGACCGTTTTTACATTATTG 57.275 30.769 0.00 0.00 42.15 1.90
831 1161 1.384082 CCCCAATCCCTACCCGACT 60.384 63.158 0.00 0.00 0.00 4.18
910 1241 1.370657 GCGGTCGTCTCGATCATCC 60.371 63.158 3.47 0.00 36.73 3.51
1065 1396 3.717294 GCCTCCCTCTCCCGCAAA 61.717 66.667 0.00 0.00 0.00 3.68
1173 1505 0.110373 GCGGCTGGTTTTGTCTAACG 60.110 55.000 0.00 0.00 0.00 3.18
1264 1596 6.229936 TGAATCGCTGGTAAATACTAGGTT 57.770 37.500 6.15 0.00 35.59 3.50
1267 1599 8.426489 TGAATCGCTGGTAAATACTAGGTTTAT 58.574 33.333 6.15 0.00 35.59 1.40
1391 1959 1.962807 TGTGATTTGGGGCAAGTTCTG 59.037 47.619 0.00 0.00 0.00 3.02
1406 1974 3.177228 AGTTCTGTAGATTGTCTGGGCT 58.823 45.455 0.00 0.00 0.00 5.19
1408 1976 4.965532 AGTTCTGTAGATTGTCTGGGCTAT 59.034 41.667 0.00 0.00 0.00 2.97
1409 1977 4.944619 TCTGTAGATTGTCTGGGCTATG 57.055 45.455 0.00 0.00 0.00 2.23
1410 1978 4.546674 TCTGTAGATTGTCTGGGCTATGA 58.453 43.478 0.00 0.00 0.00 2.15
1411 1979 4.586421 TCTGTAGATTGTCTGGGCTATGAG 59.414 45.833 0.00 0.00 0.00 2.90
1412 1980 3.643320 TGTAGATTGTCTGGGCTATGAGG 59.357 47.826 0.00 0.00 0.00 3.86
1413 1981 2.769209 AGATTGTCTGGGCTATGAGGT 58.231 47.619 0.00 0.00 0.00 3.85
1414 1982 2.703007 AGATTGTCTGGGCTATGAGGTC 59.297 50.000 0.00 0.00 0.00 3.85
1415 1983 1.204146 TTGTCTGGGCTATGAGGTCC 58.796 55.000 0.00 0.00 0.00 4.46
1416 1984 0.339859 TGTCTGGGCTATGAGGTCCT 59.660 55.000 0.00 0.00 0.00 3.85
1417 1985 1.573857 TGTCTGGGCTATGAGGTCCTA 59.426 52.381 0.00 0.00 0.00 2.94
1418 1986 2.180086 TGTCTGGGCTATGAGGTCCTAT 59.820 50.000 0.00 0.00 0.00 2.57
1419 1987 3.401342 TGTCTGGGCTATGAGGTCCTATA 59.599 47.826 0.00 0.00 0.00 1.31
1438 2006 1.187567 ATGCCCTTGTTTCACTGCCC 61.188 55.000 0.00 0.00 0.00 5.36
1439 2007 2.574018 GCCCTTGTTTCACTGCCCC 61.574 63.158 0.00 0.00 0.00 5.80
1440 2008 1.152567 CCCTTGTTTCACTGCCCCA 60.153 57.895 0.00 0.00 0.00 4.96
1441 2009 1.463553 CCCTTGTTTCACTGCCCCAC 61.464 60.000 0.00 0.00 0.00 4.61
1442 2010 0.754957 CCTTGTTTCACTGCCCCACA 60.755 55.000 0.00 0.00 0.00 4.17
1443 2011 1.331214 CTTGTTTCACTGCCCCACAT 58.669 50.000 0.00 0.00 0.00 3.21
1523 2092 2.733593 GCTAGGAATACGCCGCCG 60.734 66.667 0.00 0.00 41.14 6.46
1631 2200 1.255882 CCAATGCCAGGCAAACTACA 58.744 50.000 20.84 0.00 43.62 2.74
1670 2239 0.892358 CTGGCATGGCTGACACACTT 60.892 55.000 21.08 0.00 34.67 3.16
1720 2289 5.988287 TCAATTGCCACATAGATACTGTGA 58.012 37.500 0.00 0.00 45.44 3.58
1724 2293 8.839343 CAATTGCCACATAGATACTGTGAATAA 58.161 33.333 5.07 0.00 45.44 1.40
1916 2489 1.945354 ATCCACACGAATCTCCGCGT 61.945 55.000 4.92 0.00 42.11 6.01
1948 2521 5.916661 TGGTGGAGTTAGATGAGACTTAC 57.083 43.478 0.00 0.00 0.00 2.34
1951 3117 6.071334 TGGTGGAGTTAGATGAGACTTACTTG 60.071 42.308 0.00 0.00 31.39 3.16
2023 3189 5.221843 TGGCAGTATCCCTAATATTGGTCAC 60.222 44.000 0.00 0.00 30.33 3.67
2058 3224 8.523915 TGTGAATCTTATTGGTGCTTATGATT 57.476 30.769 0.00 0.00 0.00 2.57
2111 3277 4.278310 TGGACTACTTAGCTGTGATGCTA 58.722 43.478 0.00 0.00 43.74 3.49
2277 3443 1.114627 GTCAATTGGGCCATTCTCCC 58.885 55.000 7.26 0.00 44.17 4.30
2410 3576 6.896860 TCACCCCAAATAATGAAGATCACAAT 59.103 34.615 0.00 0.00 0.00 2.71
2433 3599 1.753073 CATTTCTCCCAAGATGCCCAC 59.247 52.381 0.00 0.00 0.00 4.61
2480 3787 1.354368 ACCAATAGTTGACCACCCCTG 59.646 52.381 0.00 0.00 0.00 4.45
2482 3789 1.004745 CAATAGTTGACCACCCCTGCT 59.995 52.381 0.00 0.00 0.00 4.24
2483 3790 0.620556 ATAGTTGACCACCCCTGCTG 59.379 55.000 0.00 0.00 0.00 4.41
2484 3791 0.472925 TAGTTGACCACCCCTGCTGA 60.473 55.000 0.00 0.00 0.00 4.26
2523 3830 7.513968 CACTCTACATACTTTGCTGAGTTTTC 58.486 38.462 0.00 0.00 38.40 2.29
2564 3871 1.891150 CTTTTGCATTGTCCTCTGGCT 59.109 47.619 0.00 0.00 0.00 4.75
2566 3873 0.401356 TTGCATTGTCCTCTGGCTCA 59.599 50.000 0.00 0.00 0.00 4.26
2567 3874 0.622136 TGCATTGTCCTCTGGCTCAT 59.378 50.000 0.00 0.00 0.00 2.90
2568 3875 1.022735 GCATTGTCCTCTGGCTCATG 58.977 55.000 0.00 0.00 0.00 3.07
2571 3878 0.251354 TTGTCCTCTGGCTCATGCTC 59.749 55.000 0.00 0.00 39.59 4.26
2572 3879 1.145819 GTCCTCTGGCTCATGCTCC 59.854 63.158 0.00 0.00 39.59 4.70
2746 4074 8.942338 TCACTAACTATGATTGCTTCGTAATT 57.058 30.769 0.00 0.00 0.00 1.40
2829 4157 6.640907 GTGGAAACAGTGATGGAAACAATAAC 59.359 38.462 0.00 0.00 44.21 1.89
3576 9286 8.147058 ACTGAAATGTTATGCAAACCATTGTTA 58.853 29.630 8.33 0.50 38.85 2.41
3614 9326 1.297968 TCATCATTCCTTCCAGCCCA 58.702 50.000 0.00 0.00 0.00 5.36
3767 9491 2.808543 GAGTGCTGGTGGTTCTAGTTTG 59.191 50.000 0.00 0.00 0.00 2.93
3955 9679 4.457834 ACTTTGACCAAGTCTATCGGAG 57.542 45.455 0.00 0.00 42.62 4.63
4054 9778 5.116084 TCTCATTGGTTTATTCTCCTGGG 57.884 43.478 0.00 0.00 0.00 4.45
4186 9914 9.712305 TTAGGTGCATTATCTAGAATTTCTAGC 57.288 33.333 23.16 14.49 44.65 3.42
4195 9923 9.608617 TTATCTAGAATTTCTAGCGTGTAATCG 57.391 33.333 23.16 3.03 44.65 3.34
4304 10032 3.700038 ACCTAGCTTAGTAATGTGTCGCT 59.300 43.478 0.00 0.00 0.00 4.93
4366 10094 5.378230 AGATCATTTATTCAGTCCCAGCA 57.622 39.130 0.00 0.00 0.00 4.41
4367 10095 5.759059 AGATCATTTATTCAGTCCCAGCAA 58.241 37.500 0.00 0.00 0.00 3.91
4491 10224 2.086869 GCATTCCTTCAAGTAGCAGCA 58.913 47.619 0.00 0.00 0.00 4.41
4599 10332 8.764524 ATAGAAGTTGTGAAATAGTGTGACTC 57.235 34.615 0.00 0.00 0.00 3.36
4808 10673 4.342951 CAGTTGCATGGGGTTGATGATAAT 59.657 41.667 0.00 0.00 0.00 1.28
4820 10685 6.268566 GGTTGATGATAATGTTGGAAAGAGC 58.731 40.000 0.00 0.00 0.00 4.09
4981 10846 7.721842 TCCTCCAAATTGTATGTGTTCAGTAAA 59.278 33.333 0.00 0.00 0.00 2.01
4982 10847 8.356657 CCTCCAAATTGTATGTGTTCAGTAAAA 58.643 33.333 0.00 0.00 0.00 1.52
5115 10980 3.213506 TGGCATGTCATGTATAGCAACC 58.786 45.455 14.26 5.02 0.00 3.77
5149 11014 0.036765 GTCAGTTGTGCCCGACCATA 60.037 55.000 0.00 0.00 0.00 2.74
5168 11033 9.650371 CGACCATATTATGATGTAAAACTGTTG 57.350 33.333 5.21 0.00 0.00 3.33
5196 11062 9.150348 GAAAAACAAAAGTGGAAAAGAAGATGA 57.850 29.630 0.00 0.00 0.00 2.92
5231 11100 6.867662 ATACTACCTGCTTGCATATGTTTC 57.132 37.500 4.29 0.00 0.00 2.78
5233 11102 5.256474 ACTACCTGCTTGCATATGTTTCTT 58.744 37.500 4.29 0.00 0.00 2.52
5234 11103 4.708726 ACCTGCTTGCATATGTTTCTTC 57.291 40.909 4.29 0.00 0.00 2.87
5235 11104 4.081406 ACCTGCTTGCATATGTTTCTTCA 58.919 39.130 4.29 0.00 0.00 3.02
5236 11105 4.157289 ACCTGCTTGCATATGTTTCTTCAG 59.843 41.667 4.29 5.04 0.00 3.02
5238 11107 5.355071 CCTGCTTGCATATGTTTCTTCAGTA 59.645 40.000 4.29 0.00 0.00 2.74
5239 11108 6.182039 TGCTTGCATATGTTTCTTCAGTAC 57.818 37.500 4.29 0.00 0.00 2.73
5240 11109 5.939883 TGCTTGCATATGTTTCTTCAGTACT 59.060 36.000 4.29 0.00 0.00 2.73
5241 11110 6.430925 TGCTTGCATATGTTTCTTCAGTACTT 59.569 34.615 4.29 0.00 0.00 2.24
5242 11111 6.744537 GCTTGCATATGTTTCTTCAGTACTTG 59.255 38.462 4.29 0.00 0.00 3.16
5243 11112 7.573843 GCTTGCATATGTTTCTTCAGTACTTGT 60.574 37.037 4.29 0.00 0.00 3.16
5246 11115 7.118245 TGCATATGTTTCTTCAGTACTTGTCTG 59.882 37.037 4.29 0.00 0.00 3.51
5248 11117 8.993121 CATATGTTTCTTCAGTACTTGTCTGTT 58.007 33.333 0.00 0.00 34.86 3.16
5249 11118 6.903883 TGTTTCTTCAGTACTTGTCTGTTC 57.096 37.500 0.00 0.00 34.86 3.18
5302 11171 5.775686 TGTCATGTTACACCGTATATAGGC 58.224 41.667 0.00 0.00 0.00 3.93
5303 11172 5.166398 GTCATGTTACACCGTATATAGGCC 58.834 45.833 0.00 0.00 0.00 5.19
5377 11268 5.067674 GTCCAATTATTGTGATTAGCCAGCA 59.932 40.000 4.15 0.00 0.00 4.41
5418 11316 2.029964 TCGAGGTTGGGTTGCGAC 59.970 61.111 0.00 0.00 0.00 5.19
5420 11318 2.317609 CGAGGTTGGGTTGCGACTG 61.318 63.158 3.59 0.00 0.00 3.51
5421 11319 1.070786 GAGGTTGGGTTGCGACTGA 59.929 57.895 3.59 0.00 0.00 3.41
5423 11321 1.227853 GGTTGGGTTGCGACTGACT 60.228 57.895 3.59 0.00 0.00 3.41
5424 11322 0.818040 GGTTGGGTTGCGACTGACTT 60.818 55.000 3.59 0.00 0.00 3.01
5506 11415 2.603021 GAGGGTGGCTGATCTGATCTA 58.397 52.381 17.82 4.75 0.00 1.98
5507 11416 2.562298 GAGGGTGGCTGATCTGATCTAG 59.438 54.545 17.82 13.77 0.00 2.43
5509 11418 1.622811 GGTGGCTGATCTGATCTAGGG 59.377 57.143 17.82 7.44 0.00 3.53
5510 11419 2.324541 GTGGCTGATCTGATCTAGGGT 58.675 52.381 17.82 0.00 0.00 4.34
5511 11420 2.036992 GTGGCTGATCTGATCTAGGGTG 59.963 54.545 17.82 3.89 0.00 4.61
5572 11481 2.288640 GGCTTTGATATGCTGCCCATTC 60.289 50.000 0.00 0.00 37.81 2.67
5590 11499 1.524621 CGGGTAAGGCCAGCATCAG 60.525 63.158 5.01 0.00 39.65 2.90
5660 11569 0.545787 TAGGGAAGGAAGGAACGCCA 60.546 55.000 0.00 0.00 36.29 5.69
5696 11606 1.598882 GGGGGATCGCATCTTTCTTC 58.401 55.000 12.32 0.00 0.00 2.87
5704 11614 0.179179 GCATCTTTCTTCGCTGTGGC 60.179 55.000 0.00 0.00 0.00 5.01
5719 11632 2.334946 TGGCCTGCGAATGCTGAAC 61.335 57.895 3.32 0.00 42.14 3.18
5740 11653 3.011760 GAAAGCGTCACCGAAGCCG 62.012 63.158 0.00 0.00 37.75 5.52
5747 11680 2.176546 CACCGAAGCCGTTGCATG 59.823 61.111 0.00 0.00 41.13 4.06
5755 11688 0.541392 AGCCGTTGCATGTATCTCCA 59.459 50.000 0.00 0.00 41.13 3.86
5763 11696 1.938577 GCATGTATCTCCAGCTGTGTG 59.061 52.381 13.81 5.52 0.00 3.82
5764 11697 2.419159 GCATGTATCTCCAGCTGTGTGA 60.419 50.000 13.81 10.70 0.00 3.58
5799 11753 1.643832 GAAGCGGCATCGATGGAAC 59.356 57.895 26.00 10.03 39.00 3.62
5862 11858 4.697756 TCACAAGGAAGCCGCGGG 62.698 66.667 29.38 10.83 0.00 6.13
5874 11870 2.820479 CGCGGGCGGATTGGTTTA 60.820 61.111 4.92 0.00 35.56 2.01
5875 11871 2.795973 GCGGGCGGATTGGTTTAC 59.204 61.111 0.00 0.00 0.00 2.01
5885 11881 1.997606 GATTGGTTTACCTCGTGACGG 59.002 52.381 4.70 0.00 36.82 4.79
5921 11917 1.071699 CACCACCCGGAAGAAAGAAGA 59.928 52.381 0.73 0.00 35.59 2.87
5922 11918 1.348036 ACCACCCGGAAGAAAGAAGAG 59.652 52.381 0.73 0.00 35.59 2.85
5923 11919 1.623811 CCACCCGGAAGAAAGAAGAGA 59.376 52.381 0.73 0.00 0.00 3.10
5924 11920 2.038557 CCACCCGGAAGAAAGAAGAGAA 59.961 50.000 0.73 0.00 0.00 2.87
5932 11928 0.363846 GAAAGAAGAGAAGCGCGACG 59.636 55.000 12.10 0.00 0.00 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 3.057386 TGTTAATGTAGGCGAGACGACAA 60.057 43.478 0.00 0.00 37.34 3.18
51 52 2.488937 TGTTAATGTAGGCGAGACGACA 59.511 45.455 0.00 0.00 37.34 4.35
80 81 4.730949 TCAGATCGACGGGATTAAGTTT 57.269 40.909 0.00 0.00 34.82 2.66
81 82 4.441634 CCTTCAGATCGACGGGATTAAGTT 60.442 45.833 0.00 0.00 34.82 2.66
82 83 3.068307 CCTTCAGATCGACGGGATTAAGT 59.932 47.826 0.00 0.00 34.82 2.24
83 84 3.318275 TCCTTCAGATCGACGGGATTAAG 59.682 47.826 9.18 0.00 34.82 1.85
110 111 6.659242 TGAGAGTTATGTGTCATGTCTACTCA 59.341 38.462 0.00 0.00 34.66 3.41
166 167 3.552273 GCGGTGCCGAGAGAATAAATCTA 60.552 47.826 15.45 0.00 39.24 1.98
218 220 6.269307 GCTTGTAAATAGTCATAGGGGTAGGA 59.731 42.308 0.00 0.00 0.00 2.94
241 244 1.682257 GGGCAGTTCTCTCTTGGCT 59.318 57.895 0.00 0.00 0.00 4.75
244 247 0.251634 GAGGGGGCAGTTCTCTCTTG 59.748 60.000 0.00 0.00 0.00 3.02
246 249 1.306568 GGAGGGGGCAGTTCTCTCT 60.307 63.158 0.00 0.00 0.00 3.10
249 252 3.412408 GGGGAGGGGGCAGTTCTC 61.412 72.222 0.00 0.00 0.00 2.87
286 289 3.080121 CTTCCCTCTCTGCCCGCT 61.080 66.667 0.00 0.00 0.00 5.52
291 294 2.371259 GGACCCCTTCCCTCTCTGC 61.371 68.421 0.00 0.00 38.70 4.26
322 327 1.068610 CGATTTTCCCACAATGTGCGT 60.069 47.619 8.05 0.00 31.34 5.24
353 358 1.053424 AGTTCCCTACAAACAGGCGA 58.947 50.000 0.00 0.00 34.02 5.54
362 367 2.090719 CCTCTATCCCCAGTTCCCTACA 60.091 54.545 0.00 0.00 0.00 2.74
364 369 2.521286 TCCTCTATCCCCAGTTCCCTA 58.479 52.381 0.00 0.00 0.00 3.53
365 370 1.330155 TCCTCTATCCCCAGTTCCCT 58.670 55.000 0.00 0.00 0.00 4.20
412 417 3.381370 GAGATAACTCCCCGTTGGC 57.619 57.895 0.00 0.00 37.05 4.52
434 439 0.462937 TACATTGCTAACCGCCGCAT 60.463 50.000 0.00 0.00 38.05 4.73
437 442 3.105203 CAATTTACATTGCTAACCGCCG 58.895 45.455 0.00 0.00 38.05 6.46
447 452 5.063186 TGCCGCTTATTTGCAATTTACATTG 59.937 36.000 0.00 0.00 42.60 2.82
457 462 1.726865 CGGATGCCGCTTATTTGCA 59.273 52.632 0.00 0.00 41.17 4.08
474 479 8.824779 GTTAAATCTAACTAAACGAAACTTGCG 58.175 33.333 0.00 0.00 35.48 4.85
552 559 8.999905 TTAATCCTGTTTAAACCCACTAAAGT 57.000 30.769 15.59 0.00 0.00 2.66
553 560 9.687210 GTTTAATCCTGTTTAAACCCACTAAAG 57.313 33.333 15.59 4.49 42.34 1.85
580 782 6.085718 CACACACAATAATGTAAAAACGGTCG 59.914 38.462 0.00 0.00 37.82 4.79
582 784 5.688176 GCACACACAATAATGTAAAAACGGT 59.312 36.000 0.00 0.00 37.82 4.83
583 785 5.164234 CGCACACACAATAATGTAAAAACGG 60.164 40.000 0.00 0.00 37.82 4.44
585 787 5.688176 ACCGCACACACAATAATGTAAAAAC 59.312 36.000 0.00 0.00 37.82 2.43
586 788 5.687730 CACCGCACACACAATAATGTAAAAA 59.312 36.000 0.00 0.00 37.82 1.94
587 789 5.215903 CACCGCACACACAATAATGTAAAA 58.784 37.500 0.00 0.00 37.82 1.52
597 799 2.487428 GCAACACCGCACACACAA 59.513 55.556 0.00 0.00 0.00 3.33
598 800 3.870422 CGCAACACCGCACACACA 61.870 61.111 0.00 0.00 0.00 3.72
715 1045 4.585162 TGTTAATTGGGACACGGTGAATTT 59.415 37.500 16.29 0.00 39.29 1.82
786 1116 0.622136 GGTGGGGGTCCGATAAAAGT 59.378 55.000 0.00 0.00 35.24 2.66
831 1161 4.319911 CGTTTGGTGGAAGCTTCGATTTTA 60.320 41.667 19.91 1.91 33.76 1.52
896 1227 1.942552 GAGCGGATGATCGAGACGA 59.057 57.895 0.00 0.00 41.13 4.20
1118 1450 4.132336 GAGAAATCCCCCGGTACAATTAC 58.868 47.826 0.00 0.00 0.00 1.89
1165 1497 1.460504 AGATCTCACCGCGTTAGACA 58.539 50.000 4.92 0.00 0.00 3.41
1173 1505 2.035193 TCTCTGCATTAGATCTCACCGC 59.965 50.000 0.00 0.00 34.21 5.68
1267 1599 6.273495 AGCCAAAGGAACCCCATAAATAAAAA 59.727 34.615 0.00 0.00 33.88 1.94
1391 1959 3.643792 ACCTCATAGCCCAGACAATCTAC 59.356 47.826 0.00 0.00 0.00 2.59
1406 1974 4.763355 ACAAGGGCATATAGGACCTCATA 58.237 43.478 13.30 0.00 45.79 2.15
1408 1976 3.060479 ACAAGGGCATATAGGACCTCA 57.940 47.619 13.30 0.00 45.79 3.86
1409 1977 4.141482 TGAAACAAGGGCATATAGGACCTC 60.141 45.833 13.30 0.00 45.79 3.85
1411 1979 3.883489 GTGAAACAAGGGCATATAGGACC 59.117 47.826 0.00 0.00 36.32 4.46
1412 1980 4.576463 CAGTGAAACAAGGGCATATAGGAC 59.424 45.833 0.00 0.00 41.43 3.85
1413 1981 4.780815 CAGTGAAACAAGGGCATATAGGA 58.219 43.478 0.00 0.00 41.43 2.94
1414 1982 3.316308 GCAGTGAAACAAGGGCATATAGG 59.684 47.826 0.00 0.00 41.43 2.57
1415 1983 3.316308 GGCAGTGAAACAAGGGCATATAG 59.684 47.826 0.00 0.00 41.43 1.31
1416 1984 3.287222 GGCAGTGAAACAAGGGCATATA 58.713 45.455 0.00 0.00 41.43 0.86
1417 1985 2.102578 GGCAGTGAAACAAGGGCATAT 58.897 47.619 0.00 0.00 41.43 1.78
1418 1986 1.544724 GGCAGTGAAACAAGGGCATA 58.455 50.000 0.00 0.00 41.43 3.14
1419 1987 1.187567 GGGCAGTGAAACAAGGGCAT 61.188 55.000 0.00 0.00 41.43 4.40
1440 2008 8.752187 AGAAATAAAAATCACATACTGCCATGT 58.248 29.630 0.00 0.00 39.76 3.21
1441 2009 9.590451 AAGAAATAAAAATCACATACTGCCATG 57.410 29.630 0.00 0.00 0.00 3.66
1443 2011 9.638239 GAAAGAAATAAAAATCACATACTGCCA 57.362 29.630 0.00 0.00 0.00 4.92
1474 2043 6.424207 GTCCATCCTCCGAATCTGTAATAAAC 59.576 42.308 0.00 0.00 0.00 2.01
1523 2092 1.082104 CAAACCCGCTTTCACGCTC 60.082 57.895 0.00 0.00 0.00 5.03
1670 2239 0.747255 GGAATAGAGAGCTCACCGCA 59.253 55.000 17.77 0.00 42.61 5.69
1831 2403 9.177608 TGGGAGTTAGATGAGATTTTGTTAATG 57.822 33.333 0.00 0.00 0.00 1.90
1841 2413 4.357325 ACAGTGTGGGAGTTAGATGAGAT 58.643 43.478 0.00 0.00 0.00 2.75
1916 2489 9.177608 CTCATCTAACTCCACCATTTGATTTTA 57.822 33.333 0.00 0.00 0.00 1.52
1961 3127 6.662865 ATGGGTATGTCTAGTTCTCATCTG 57.337 41.667 0.00 0.00 0.00 2.90
1978 3144 6.014242 TGCCACAATTGAATAAACAATGGGTA 60.014 34.615 13.59 0.00 39.88 3.69
2111 3277 9.892130 AGCATTCTAAAGTACAGCTTTACTAAT 57.108 29.630 12.82 6.48 44.90 1.73
2131 3297 2.154462 ACCAAGTAGTGTGCAGCATTC 58.846 47.619 0.00 0.00 0.00 2.67
2277 3443 5.524971 AGCATCCAAACATGTCAATATGG 57.475 39.130 0.00 3.63 32.32 2.74
2410 3576 2.621407 GGGCATCTTGGGAGAAATGTCA 60.621 50.000 0.00 0.00 35.07 3.58
2418 3584 1.379044 GTGGTGGGCATCTTGGGAG 60.379 63.158 0.00 0.00 0.00 4.30
2433 3599 4.278170 TGAGACAAAATAAAGCCACTGTGG 59.722 41.667 22.46 22.46 41.55 4.17
2480 3787 2.698763 GCCTCCTTTGCAGCTCAGC 61.699 63.158 0.00 0.00 0.00 4.26
2482 3789 1.601759 GTGCCTCCTTTGCAGCTCA 60.602 57.895 0.00 0.00 39.87 4.26
2483 3790 1.303155 AGTGCCTCCTTTGCAGCTC 60.303 57.895 0.00 0.00 39.87 4.09
2484 3791 1.303155 GAGTGCCTCCTTTGCAGCT 60.303 57.895 0.00 0.00 39.87 4.24
2571 3878 2.046023 TCCAGCATTCAGTGGCGG 60.046 61.111 0.00 0.00 33.43 6.13
2572 3879 0.957395 AACTCCAGCATTCAGTGGCG 60.957 55.000 0.00 0.00 33.43 5.69
2647 3975 7.549842 TGCAATGGAAGAATATGGACATTTTTG 59.450 33.333 0.00 0.00 0.00 2.44
2720 4048 7.987268 TTACGAAGCAATCATAGTTAGTGAG 57.013 36.000 0.00 0.00 0.00 3.51
2781 4109 7.814107 CCACTGTCACTTTGCATAAAACAATAT 59.186 33.333 0.00 0.00 0.00 1.28
2829 4157 6.348540 GCATATTTATAGGAAACGCCAAGGAG 60.349 42.308 0.00 0.00 40.02 3.69
3062 5823 6.089820 GCAGCTTTTCAAAATGATTGAATCGA 59.910 34.615 4.62 0.00 38.12 3.59
3614 9326 5.865085 TCAGTAGTGCCAGAAATAACAACT 58.135 37.500 0.00 0.00 0.00 3.16
3749 9473 3.290948 AACAAACTAGAACCACCAGCA 57.709 42.857 0.00 0.00 0.00 4.41
3767 9491 6.313744 ACACTGCACCTAACAGAATTTAAC 57.686 37.500 0.00 0.00 38.55 2.01
3955 9679 8.902540 TTGGTGTTGTAGATGTTGATATATCC 57.097 34.615 10.25 0.00 0.00 2.59
4054 9778 5.001232 TCACCCACTGTTTGCTCTTTATAC 58.999 41.667 0.00 0.00 0.00 1.47
4304 10032 1.881324 TCATCACTCAACGACCGTACA 59.119 47.619 0.00 0.00 0.00 2.90
4491 10224 8.528044 TGTATCAATTATCATGGCATGCATAT 57.472 30.769 22.56 13.28 0.00 1.78
4745 10610 8.097038 ACTCATGTCACTAACACAACTATGATT 58.903 33.333 0.00 0.00 41.75 2.57
4752 10617 4.449068 CCAGACTCATGTCACTAACACAAC 59.551 45.833 0.00 0.00 45.20 3.32
4755 10620 4.021894 AGACCAGACTCATGTCACTAACAC 60.022 45.833 0.00 0.00 45.20 3.32
4808 10673 4.895297 AGGATTTTCTTGCTCTTTCCAACA 59.105 37.500 0.00 0.00 0.00 3.33
4820 10685 3.057315 ACATTGCCGACAGGATTTTCTTG 60.057 43.478 0.00 0.00 41.02 3.02
4981 10846 6.293407 CGTTCAGACAACCTTATCACACAATT 60.293 38.462 0.00 0.00 0.00 2.32
4982 10847 5.179368 CGTTCAGACAACCTTATCACACAAT 59.821 40.000 0.00 0.00 0.00 2.71
5115 10980 0.242286 CTGACCTCCTGACACGAGTG 59.758 60.000 1.13 1.13 0.00 3.51
5168 11033 8.757164 TCTTCTTTTCCACTTTTGTTTTTCTC 57.243 30.769 0.00 0.00 0.00 2.87
5196 11062 4.962995 AGCAGGTAGTATATCAACACAGGT 59.037 41.667 0.00 0.00 0.00 4.00
5231 11100 7.491372 TGTGTAAAGAACAGACAAGTACTGAAG 59.509 37.037 0.00 0.00 39.29 3.02
5233 11102 6.869695 TGTGTAAAGAACAGACAAGTACTGA 58.130 36.000 0.00 0.00 39.29 3.41
5234 11103 7.715265 ATGTGTAAAGAACAGACAAGTACTG 57.285 36.000 0.00 0.00 39.29 2.74
5235 11104 7.169308 CGAATGTGTAAAGAACAGACAAGTACT 59.831 37.037 0.00 0.00 39.29 2.73
5236 11105 7.168637 TCGAATGTGTAAAGAACAGACAAGTAC 59.831 37.037 0.00 0.00 39.29 2.73
5238 11107 6.046593 TCGAATGTGTAAAGAACAGACAAGT 58.953 36.000 0.00 0.00 39.29 3.16
5239 11108 6.346919 CCTCGAATGTGTAAAGAACAGACAAG 60.347 42.308 0.00 0.00 39.29 3.16
5240 11109 5.465390 CCTCGAATGTGTAAAGAACAGACAA 59.535 40.000 0.00 0.00 39.29 3.18
5241 11110 4.988540 CCTCGAATGTGTAAAGAACAGACA 59.011 41.667 0.00 0.00 39.29 3.41
5242 11111 4.989168 ACCTCGAATGTGTAAAGAACAGAC 59.011 41.667 0.00 0.00 39.29 3.51
5243 11112 5.209818 ACCTCGAATGTGTAAAGAACAGA 57.790 39.130 0.00 0.00 39.29 3.41
5246 11115 3.181533 GCGACCTCGAATGTGTAAAGAAC 60.182 47.826 0.00 0.00 43.02 3.01
5248 11117 2.230508 AGCGACCTCGAATGTGTAAAGA 59.769 45.455 0.00 0.00 43.02 2.52
5249 11118 2.607187 AGCGACCTCGAATGTGTAAAG 58.393 47.619 0.00 0.00 43.02 1.85
5302 11171 1.200519 TTCTGGGAGGGATTACACGG 58.799 55.000 0.00 0.00 0.00 4.94
5303 11172 2.700897 AGATTCTGGGAGGGATTACACG 59.299 50.000 0.00 0.00 0.00 4.49
5418 11316 6.580041 GTGCACAATAATTCACAAGAAGTCAG 59.420 38.462 13.17 0.00 37.14 3.51
5420 11318 5.565259 CGTGCACAATAATTCACAAGAAGTC 59.435 40.000 18.64 0.00 37.14 3.01
5421 11319 5.451908 CGTGCACAATAATTCACAAGAAGT 58.548 37.500 18.64 0.00 37.14 3.01
5423 11321 4.225984 GCGTGCACAATAATTCACAAGAA 58.774 39.130 18.64 0.00 38.31 2.52
5424 11322 3.251972 TGCGTGCACAATAATTCACAAGA 59.748 39.130 18.64 0.00 0.00 3.02
5460 11365 4.648626 ATGCACACCAGCGCACCT 62.649 61.111 11.47 0.00 41.79 4.00
5461 11366 4.409218 CATGCACACCAGCGCACC 62.409 66.667 11.47 0.00 41.79 5.01
5464 11369 4.771356 CTGCATGCACACCAGCGC 62.771 66.667 18.46 0.00 37.31 5.92
5465 11370 2.523184 CTTCTGCATGCACACCAGCG 62.523 60.000 18.46 5.29 37.31 5.18
5466 11371 1.211969 CTTCTGCATGCACACCAGC 59.788 57.895 18.46 0.00 0.00 4.85
5467 11372 1.592400 CCCTTCTGCATGCACACCAG 61.592 60.000 18.46 6.94 0.00 4.00
5468 11373 1.604308 CCCTTCTGCATGCACACCA 60.604 57.895 18.46 0.00 0.00 4.17
5572 11481 1.524621 CTGATGCTGGCCTTACCCG 60.525 63.158 3.32 0.00 37.83 5.28
5660 11569 1.903183 CCCCCTTCGAAAGAGTTCTCT 59.097 52.381 0.00 0.00 43.69 3.10
5704 11614 0.674581 TCCTGTTCAGCATTCGCAGG 60.675 55.000 0.00 0.00 45.82 4.85
5740 11653 2.353889 CACAGCTGGAGATACATGCAAC 59.646 50.000 19.93 0.00 0.00 4.17
5747 11680 1.933247 GCTCACACAGCTGGAGATAC 58.067 55.000 19.93 4.50 45.83 2.24
5799 11753 2.169832 TTCAAGCTTCTGGAACCGAG 57.830 50.000 0.00 0.00 0.00 4.63
5857 11853 2.820479 TAAACCAATCCGCCCGCG 60.820 61.111 0.00 0.00 39.44 6.46
5858 11854 2.767445 GGTAAACCAATCCGCCCGC 61.767 63.158 0.00 0.00 35.64 6.13
5859 11855 1.078001 AGGTAAACCAATCCGCCCG 60.078 57.895 1.26 0.00 38.89 6.13
5862 11858 0.725117 CACGAGGTAAACCAATCCGC 59.275 55.000 1.26 0.00 38.89 5.54
5864 11860 1.997606 CGTCACGAGGTAAACCAATCC 59.002 52.381 0.00 0.00 38.89 3.01
5869 11865 1.012486 CAGCCGTCACGAGGTAAACC 61.012 60.000 0.00 0.00 0.00 3.27
5870 11866 1.623973 GCAGCCGTCACGAGGTAAAC 61.624 60.000 0.00 0.00 0.00 2.01
5872 11868 2.089887 TTGCAGCCGTCACGAGGTAA 62.090 55.000 0.00 0.00 0.00 2.85
5874 11870 3.454587 TTTGCAGCCGTCACGAGGT 62.455 57.895 0.00 0.00 0.00 3.85
5875 11871 2.664851 TTTGCAGCCGTCACGAGG 60.665 61.111 0.00 0.00 0.00 4.63
5885 11881 1.134848 TGGTGGTTTTCTGTTTGCAGC 60.135 47.619 0.00 0.00 42.29 5.25


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

AutoCloner maintained by Alex Coulton.