Multiple sequence alignment - TraesCS6B01G368000

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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 TraesCS6B01G368000 chr6B 100.000 4073 0 0 1 4073 641908891 641912963 0.000000e+00 7522.0
1 TraesCS6B01G368000 chr6B 93.839 211 11 2 3424 3633 636742941 636742732 2.360000e-82 316.0
2 TraesCS6B01G368000 chr6B 93.396 212 12 2 3424 3634 720142271 720142061 3.060000e-81 313.0
3 TraesCS6B01G368000 chr6B 79.051 253 49 3 79 327 671881833 671882085 1.950000e-38 171.0
4 TraesCS6B01G368000 chr6A 95.433 1467 39 11 1632 3090 571178200 571176754 0.000000e+00 2313.0
5 TraesCS6B01G368000 chr6A 92.237 438 19 10 1029 1456 571180344 571179912 1.250000e-169 606.0
6 TraesCS6B01G368000 chr6A 95.848 289 9 2 709 995 571180712 571180425 7.970000e-127 464.0
7 TraesCS6B01G368000 chr6A 92.417 211 14 2 3424 3633 558457496 558457705 2.380000e-77 300.0
8 TraesCS6B01G368000 chr6A 92.417 211 14 2 3424 3633 558460816 558461025 2.380000e-77 300.0
9 TraesCS6B01G368000 chr6A 76.060 401 81 13 79 477 27777884 27777497 1.160000e-45 195.0
10 TraesCS6B01G368000 chr6A 85.065 154 6 8 3093 3230 571176690 571176538 1.530000e-29 141.0
11 TraesCS6B01G368000 chr6A 84.375 96 8 7 3330 3421 571171018 571170926 2.020000e-13 87.9
12 TraesCS6B01G368000 chr6A 83.000 100 9 6 1488 1579 571179908 571179809 2.610000e-12 84.2
13 TraesCS6B01G368000 chr6A 91.379 58 4 1 3249 3305 571171078 571171021 1.210000e-10 78.7
14 TraesCS6B01G368000 chr6D 96.831 1357 30 6 1735 3090 426336282 426337626 0.000000e+00 2255.0
15 TraesCS6B01G368000 chr6D 90.849 1672 78 18 1 1606 426334426 426336088 0.000000e+00 2170.0
16 TraesCS6B01G368000 chr6D 94.409 626 33 2 2244 2869 426339767 426340390 0.000000e+00 961.0
17 TraesCS6B01G368000 chr6D 87.811 402 16 12 3046 3423 426340977 426341369 1.340000e-119 440.0
18 TraesCS6B01G368000 chr6D 77.847 483 94 10 50 528 337847148 337846675 1.850000e-73 287.0
19 TraesCS6B01G368000 chr6D 95.858 169 7 0 3905 4073 426372027 426372195 1.440000e-69 274.0
20 TraesCS6B01G368000 chr6D 81.447 318 54 5 79 393 389587194 389587509 5.220000e-64 255.0
21 TraesCS6B01G368000 chr6D 85.714 196 15 6 3103 3296 426337687 426337871 1.160000e-45 195.0
22 TraesCS6B01G368000 chr6D 85.890 163 12 5 3770 3921 426371564 426371726 3.260000e-36 163.0
23 TraesCS6B01G368000 chr6D 87.417 151 6 4 2905 3054 426340378 426340516 1.170000e-35 161.0
24 TraesCS6B01G368000 chr6D 84.536 97 14 1 3327 3423 426339043 426339138 1.210000e-15 95.3
25 TraesCS6B01G368000 chr4B 93.396 212 12 2 3423 3633 328323715 328323925 3.060000e-81 313.0
26 TraesCS6B01G368000 chr4B 92.453 212 10 4 3424 3633 462779175 462779382 8.560000e-77 298.0
27 TraesCS6B01G368000 chr5B 92.991 214 12 3 3422 3634 667824512 667824301 3.950000e-80 309.0
28 TraesCS6B01G368000 chr5B 92.488 213 11 5 3423 3633 622203040 622202831 2.380000e-77 300.0
29 TraesCS6B01G368000 chr5B 79.562 137 26 2 1088 1223 314193914 314193779 3.350000e-16 97.1
30 TraesCS6B01G368000 chr5B 92.157 51 4 0 1 51 186381339 186381389 5.650000e-09 73.1
31 TraesCS6B01G368000 chr4A 92.958 213 13 2 3423 3634 733355688 733355899 3.950000e-80 309.0
32 TraesCS6B01G368000 chr7D 75.783 479 99 12 52 526 602074033 602074498 4.100000e-55 226.0
33 TraesCS6B01G368000 chr7D 74.648 426 88 16 124 544 611169565 611169975 1.950000e-38 171.0
34 TraesCS6B01G368000 chr4D 78.022 364 74 4 50 410 129755850 129756210 1.470000e-54 224.0
35 TraesCS6B01G368000 chr2D 74.747 495 106 18 52 540 367156095 367155614 1.920000e-48 204.0
36 TraesCS6B01G368000 chr5D 79.562 137 26 2 1088 1223 276924926 276925061 3.350000e-16 97.1
37 TraesCS6B01G368000 chr1B 100.000 29 0 0 2768 2796 91880322 91880294 2.000000e-03 54.7


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 TraesCS6B01G368000 chr6B 641908891 641912963 4072 False 7522.000000 7522 100.000000 1 4073 1 chr6B.!!$F1 4072
1 TraesCS6B01G368000 chr6A 571176538 571180712 4174 True 721.640000 2313 90.316600 709 3230 5 chr6A.!!$R3 2521
2 TraesCS6B01G368000 chr6A 558457496 558461025 3529 False 300.000000 300 92.417000 3424 3633 2 chr6A.!!$F1 209
3 TraesCS6B01G368000 chr6D 426334426 426341369 6943 False 896.757143 2255 89.652429 1 3423 7 chr6D.!!$F2 3422
4 TraesCS6B01G368000 chr6D 426371564 426372195 631 False 218.500000 274 90.874000 3770 4073 2 chr6D.!!$F3 303

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
150 155 0.328258 AACGCCCTAGAGCCACAATT 59.672 50.0 0.0 0.0 0.0 2.32 F
1295 1364 0.107752 TCGCTTCCATATGTGCTGCA 60.108 50.0 0.0 0.0 0.0 4.41 F
1812 3516 0.178970 ATCTGACGGGCGGGTACTAT 60.179 55.0 0.0 0.0 0.0 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 3747 2.359850 GGCGTGGGCATGTTCTCA 60.360 61.111 0.00 0.00 42.47 3.27 R
3045 4749 0.314302 GATCGTATCCGTGGGACTGG 59.686 60.000 0.00 0.00 32.98 4.00 R
3705 8849 0.042188 CAGCTGGAAAACACGTGTCG 60.042 55.000 23.61 7.57 0.00 4.35 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
34 35 2.376109 AGACCATCGAACGACCACTAT 58.624 47.619 0.00 0.00 0.00 2.12
77 78 2.370445 CCCCTCTGTTGGAGCCGAT 61.370 63.158 0.00 0.00 40.57 4.18
97 98 5.107453 CCGATTTGACCTTGTCGATAATAGC 60.107 44.000 0.00 0.00 36.25 2.97
98 99 5.462068 CGATTTGACCTTGTCGATAATAGCA 59.538 40.000 0.00 0.00 36.25 3.49
101 102 3.958147 TGACCTTGTCGATAATAGCAGGA 59.042 43.478 4.09 0.00 34.95 3.86
104 105 5.741011 ACCTTGTCGATAATAGCAGGAAAA 58.259 37.500 4.09 0.00 0.00 2.29
106 107 6.828785 ACCTTGTCGATAATAGCAGGAAAATT 59.171 34.615 4.09 0.00 0.00 1.82
150 155 0.328258 AACGCCCTAGAGCCACAATT 59.672 50.000 0.00 0.00 0.00 2.32
153 158 1.839424 GCCCTAGAGCCACAATTGTT 58.161 50.000 8.77 0.00 0.00 2.83
160 165 2.303600 AGAGCCACAATTGTTACCGGTA 59.696 45.455 11.16 11.16 0.00 4.02
173 178 7.424227 TTGTTACCGGTAAACACTTGAATAG 57.576 36.000 28.11 0.00 0.00 1.73
185 190 7.934855 AACACTTGAATAGATCTGAAGCATT 57.065 32.000 5.18 0.00 0.00 3.56
188 193 7.609146 ACACTTGAATAGATCTGAAGCATTTGA 59.391 33.333 5.18 0.00 0.00 2.69
200 205 4.159321 TGAAGCATTTGACACCAAAACTCA 59.841 37.500 0.00 0.00 44.49 3.41
236 241 0.984230 CTAACCTCACTGCCCCAAGA 59.016 55.000 0.00 0.00 0.00 3.02
264 269 0.386113 GAAATCTACGCCGGAGCTCT 59.614 55.000 14.64 0.00 36.60 4.09
282 287 1.154197 CTGTCGACTACGTCCAGACA 58.846 55.000 17.92 13.00 39.68 3.41
286 291 1.154197 CGACTACGTCCAGACAGACA 58.846 55.000 0.00 0.00 36.52 3.41
303 308 3.056536 CAGACAAACTCGAGGAGGATCAA 60.057 47.826 18.41 0.00 36.25 2.57
414 423 2.045280 CGGAGGAGAGGCACATAGG 58.955 63.158 0.00 0.00 0.00 2.57
415 424 0.468214 CGGAGGAGAGGCACATAGGA 60.468 60.000 0.00 0.00 0.00 2.94
416 425 1.044611 GGAGGAGAGGCACATAGGAC 58.955 60.000 0.00 0.00 0.00 3.85
417 426 1.689575 GGAGGAGAGGCACATAGGACA 60.690 57.143 0.00 0.00 0.00 4.02
418 427 2.324541 GAGGAGAGGCACATAGGACAT 58.675 52.381 0.00 0.00 0.00 3.06
419 428 3.501349 GAGGAGAGGCACATAGGACATA 58.499 50.000 0.00 0.00 0.00 2.29
420 429 4.093011 GAGGAGAGGCACATAGGACATAT 58.907 47.826 0.00 0.00 0.00 1.78
427 436 3.136626 GGCACATAGGACATATATCCCCC 59.863 52.174 0.00 0.00 39.91 5.40
429 438 4.475016 GCACATAGGACATATATCCCCCTT 59.525 45.833 0.00 0.00 39.91 3.95
511 520 3.786213 AGAGTGGAGGGGAGAGTTTAT 57.214 47.619 0.00 0.00 0.00 1.40
543 552 3.393426 AGGGTAGATGAGGAAACGGTA 57.607 47.619 0.00 0.00 0.00 4.02
549 558 6.405619 GGGTAGATGAGGAAACGGTATATAGC 60.406 46.154 1.65 1.65 0.00 2.97
670 679 8.862325 AAGCAATATCAATATTATCCCGACAA 57.138 30.769 0.00 0.00 32.05 3.18
676 685 9.823647 ATATCAATATTATCCCGACAATCACTC 57.176 33.333 0.00 0.00 0.00 3.51
702 711 1.714899 AACAGTCACCGTTGCAGTGC 61.715 55.000 8.58 8.58 35.14 4.40
703 712 1.889105 CAGTCACCGTTGCAGTGCT 60.889 57.895 17.60 0.00 35.14 4.40
704 713 0.599991 CAGTCACCGTTGCAGTGCTA 60.600 55.000 17.60 5.78 35.14 3.49
813 827 1.609320 GGAGAAACTGACCACCAGAGC 60.609 57.143 0.00 0.00 45.78 4.09
821 835 2.262915 CCACCAGAGCGAGACCAC 59.737 66.667 0.00 0.00 0.00 4.16
912 926 1.076705 CCCCCTTTTAGCTGCCCTC 60.077 63.158 0.00 0.00 0.00 4.30
1295 1364 0.107752 TCGCTTCCATATGTGCTGCA 60.108 50.000 0.00 0.00 0.00 4.41
1333 1402 1.339631 TGGTTTGGTCGATCATGTCCC 60.340 52.381 0.00 0.00 0.00 4.46
1335 1404 2.169769 GGTTTGGTCGATCATGTCCCTA 59.830 50.000 0.00 0.00 0.00 3.53
1343 1412 2.166459 CGATCATGTCCCTAGTGTGTGT 59.834 50.000 0.00 0.00 0.00 3.72
1344 1413 3.525537 GATCATGTCCCTAGTGTGTGTG 58.474 50.000 0.00 0.00 0.00 3.82
1366 1435 2.933260 TTCATGTTGAATGCATGCATGC 59.067 40.909 38.71 38.71 41.77 4.06
1530 1610 7.678194 TTTGAGCTAAAAACGTTGATGAAAG 57.322 32.000 0.00 0.00 0.00 2.62
1531 1611 6.371809 TGAGCTAAAAACGTTGATGAAAGT 57.628 33.333 0.00 0.00 0.00 2.66
1533 1613 7.254852 TGAGCTAAAAACGTTGATGAAAGTTT 58.745 30.769 0.00 3.35 43.08 2.66
1534 1614 8.399425 TGAGCTAAAAACGTTGATGAAAGTTTA 58.601 29.630 9.09 0.00 41.21 2.01
1535 1615 8.556517 AGCTAAAAACGTTGATGAAAGTTTAC 57.443 30.769 9.09 1.48 41.21 2.01
1538 1618 9.511144 CTAAAAACGTTGATGAAAGTTTACCTT 57.489 29.630 9.09 3.94 41.21 3.50
1540 1620 9.857957 AAAAACGTTGATGAAAGTTTACCTTAA 57.142 25.926 9.09 0.00 41.21 1.85
1586 1674 3.269486 CAGCTGATGCATGCATAAGTC 57.731 47.619 35.32 28.41 42.74 3.01
1591 1698 4.639334 CTGATGCATGCATAAGTCTACCT 58.361 43.478 32.27 8.08 36.70 3.08
1649 3294 5.356751 TGAGCGCCAAATAAATCATTGTAGT 59.643 36.000 2.29 0.00 0.00 2.73
1652 3297 8.615878 AGCGCCAAATAAATCATTGTAGTATA 57.384 30.769 2.29 0.00 0.00 1.47
1653 3298 9.062524 AGCGCCAAATAAATCATTGTAGTATAA 57.937 29.630 2.29 0.00 0.00 0.98
1654 3299 9.840427 GCGCCAAATAAATCATTGTAGTATAAT 57.160 29.630 0.00 0.00 0.00 1.28
1708 3353 9.713740 GTACGATATAGCAAACTAATAGCGTAT 57.286 33.333 13.09 0.00 38.06 3.06
1812 3516 0.178970 ATCTGACGGGCGGGTACTAT 60.179 55.000 0.00 0.00 0.00 2.12
2219 3923 1.997669 CTCTACCAGTTCGCCAAGAC 58.002 55.000 0.00 0.00 0.00 3.01
2394 4098 1.674057 CGAGTTCAGCTGGGACCTT 59.326 57.895 15.13 0.00 0.00 3.50
2427 4131 3.237741 CAGATCCTCCTCGCCCCC 61.238 72.222 0.00 0.00 0.00 5.40
2496 4200 2.733593 AACTTCGTCTGCGCCGTC 60.734 61.111 4.18 0.00 38.14 4.79
2586 4290 2.669229 TCGCAGTACGTCACCGGA 60.669 61.111 9.46 0.00 44.19 5.14
2715 4419 1.411977 CAGCAGATGGACTACCTCCTG 59.588 57.143 0.00 0.00 40.26 3.86
2718 4422 0.266152 AGATGGACTACCTCCTGGGG 59.734 60.000 0.00 0.00 40.26 4.96
3040 4744 4.452733 CCAACCTCGTCGCCTCCC 62.453 72.222 0.00 0.00 0.00 4.30
3041 4745 3.691342 CAACCTCGTCGCCTCCCA 61.691 66.667 0.00 0.00 0.00 4.37
3042 4746 3.382832 AACCTCGTCGCCTCCCAG 61.383 66.667 0.00 0.00 0.00 4.45
3043 4747 4.680537 ACCTCGTCGCCTCCCAGT 62.681 66.667 0.00 0.00 0.00 4.00
3044 4748 3.827898 CCTCGTCGCCTCCCAGTC 61.828 72.222 0.00 0.00 0.00 3.51
3045 4749 3.827898 CTCGTCGCCTCCCAGTCC 61.828 72.222 0.00 0.00 0.00 3.85
3099 8209 0.730265 GGTTGATTCGCCGCATGTTA 59.270 50.000 0.00 0.00 0.00 2.41
3231 8350 8.635765 ACTTTATGACCAAATTGATGTGTACT 57.364 30.769 0.00 0.00 0.00 2.73
3232 8351 8.730680 ACTTTATGACCAAATTGATGTGTACTC 58.269 33.333 0.00 0.00 0.00 2.59
3233 8352 7.624360 TTATGACCAAATTGATGTGTACTCC 57.376 36.000 0.00 0.00 0.00 3.85
3234 8353 4.979335 TGACCAAATTGATGTGTACTCCA 58.021 39.130 0.00 0.00 0.00 3.86
3235 8354 5.569355 TGACCAAATTGATGTGTACTCCAT 58.431 37.500 0.00 0.00 0.00 3.41
3236 8355 6.009589 TGACCAAATTGATGTGTACTCCATT 58.990 36.000 0.00 0.00 0.00 3.16
3237 8356 6.150976 TGACCAAATTGATGTGTACTCCATTC 59.849 38.462 0.00 0.00 0.00 2.67
3238 8357 6.009589 ACCAAATTGATGTGTACTCCATTCA 58.990 36.000 0.00 0.00 0.00 2.57
3239 8358 6.664816 ACCAAATTGATGTGTACTCCATTCAT 59.335 34.615 0.00 0.00 0.00 2.57
3240 8359 6.976349 CCAAATTGATGTGTACTCCATTCATG 59.024 38.462 0.00 0.00 0.00 3.07
3241 8360 7.363181 CCAAATTGATGTGTACTCCATTCATGT 60.363 37.037 0.00 0.00 0.00 3.21
3283 8402 6.777526 ATCTCGCATTCAGACTAATTAAGC 57.222 37.500 0.00 0.00 0.00 3.09
3287 8415 6.948353 TCGCATTCAGACTAATTAAGCATTC 58.052 36.000 0.00 0.00 0.00 2.67
3291 8419 8.139989 GCATTCAGACTAATTAAGCATTCCATT 58.860 33.333 0.00 0.00 0.00 3.16
3307 8435 6.074676 GCATTCCATTTTTAGCTAATTCTGCG 60.075 38.462 7.08 0.85 35.28 5.18
3348 8476 3.445008 ACATTCACTAAGCTCTCTGGGA 58.555 45.455 0.00 0.00 0.00 4.37
3377 8516 4.787598 CTCCACGGCTATCAATTTTATGC 58.212 43.478 0.00 0.00 0.00 3.14
3379 8518 3.305335 CCACGGCTATCAATTTTATGCCC 60.305 47.826 0.00 0.00 37.29 5.36
3380 8519 2.890945 ACGGCTATCAATTTTATGCCCC 59.109 45.455 0.00 0.00 37.29 5.80
3381 8520 2.890311 CGGCTATCAATTTTATGCCCCA 59.110 45.455 0.00 0.00 37.29 4.96
3403 8546 0.537143 TTTGACTGGGTCATGCGCTT 60.537 50.000 9.73 0.00 42.40 4.68
3414 8557 2.110835 TGCGCTTGGAGCACTTCA 59.889 55.556 9.73 0.00 42.58 3.02
3443 8586 0.885196 GACGAGACTTGTCTGCTCCT 59.115 55.000 14.68 0.00 33.54 3.69
3451 8594 3.138798 GTCTGCTCCTCCGGCGTA 61.139 66.667 6.01 0.00 0.00 4.42
3455 8598 4.221422 GCTCCTCCGGCGTATGCA 62.221 66.667 9.59 0.00 45.35 3.96
3461 8604 2.203001 CCGGCGTATGCACATCCA 60.203 61.111 9.59 0.00 45.35 3.41
3469 8612 0.845337 TATGCACATCCATGCTCCCA 59.155 50.000 0.00 0.00 46.28 4.37
3471 8614 1.378911 GCACATCCATGCTCCCACA 60.379 57.895 0.00 0.00 42.62 4.17
3495 8638 3.069443 ACGTGGCTTGTTTTGATTGGAAT 59.931 39.130 0.00 0.00 0.00 3.01
3529 8672 1.553651 GCCCCACCCCCTTAAAATCAA 60.554 52.381 0.00 0.00 0.00 2.57
3558 8702 9.853177 GGGGAGATGATTAGATAGAAAAAGAAA 57.147 33.333 0.00 0.00 0.00 2.52
3610 8754 2.366837 ACGGATGGGAGCATGGGA 60.367 61.111 0.00 0.00 0.00 4.37
3634 8778 4.473520 CAGGCAAGCCGGATCCGT 62.474 66.667 31.22 12.64 41.95 4.69
3635 8779 4.473520 AGGCAAGCCGGATCCGTG 62.474 66.667 31.22 23.53 41.95 4.94
3640 8784 4.592192 AGCCGGATCCGTGCATCG 62.592 66.667 34.12 21.02 37.82 3.84
3649 8793 2.819595 CGTGCATCGGGTTCCCAG 60.820 66.667 8.70 1.53 35.71 4.45
3651 8795 4.424711 TGCATCGGGTTCCCAGCC 62.425 66.667 8.70 0.00 37.19 4.85
3652 8796 4.424711 GCATCGGGTTCCCAGCCA 62.425 66.667 8.70 0.00 41.12 4.75
3653 8797 2.124570 CATCGGGTTCCCAGCCAG 60.125 66.667 8.70 0.00 41.12 4.85
3654 8798 3.411517 ATCGGGTTCCCAGCCAGG 61.412 66.667 8.70 0.00 41.12 4.45
3658 8802 4.748144 GGTTCCCAGCCAGGCCAG 62.748 72.222 8.22 0.21 35.39 4.85
3660 8804 3.650950 TTCCCAGCCAGGCCAGTC 61.651 66.667 8.22 0.00 35.39 3.51
3674 8818 0.811281 CCAGTCGGCAAAGGAAATCC 59.189 55.000 0.00 0.00 0.00 3.01
3675 8819 0.811281 CAGTCGGCAAAGGAAATCCC 59.189 55.000 0.00 0.00 36.42 3.85
3676 8820 0.676782 AGTCGGCAAAGGAAATCCCG 60.677 55.000 0.00 0.00 40.87 5.14
3677 8821 0.958876 GTCGGCAAAGGAAATCCCGT 60.959 55.000 0.00 0.00 40.87 5.28
3678 8822 0.250989 TCGGCAAAGGAAATCCCGTT 60.251 50.000 0.00 0.00 40.87 4.44
3679 8823 0.170339 CGGCAAAGGAAATCCCGTTC 59.830 55.000 0.00 0.00 40.87 3.95
3680 8824 1.253100 GGCAAAGGAAATCCCGTTCA 58.747 50.000 0.00 0.00 40.87 3.18
3681 8825 1.202348 GGCAAAGGAAATCCCGTTCAG 59.798 52.381 0.00 0.00 40.87 3.02
3682 8826 1.886542 GCAAAGGAAATCCCGTTCAGT 59.113 47.619 0.00 0.00 40.87 3.41
3683 8827 2.351738 GCAAAGGAAATCCCGTTCAGTG 60.352 50.000 0.00 0.00 40.87 3.66
3684 8828 2.200373 AAGGAAATCCCGTTCAGTGG 57.800 50.000 0.00 0.00 40.87 4.00
3686 8830 1.313091 GGAAATCCCGTTCAGTGGGC 61.313 60.000 0.00 0.00 46.92 5.36
3687 8831 1.304134 AAATCCCGTTCAGTGGGCC 60.304 57.895 0.00 0.00 46.92 5.80
3688 8832 2.075355 AAATCCCGTTCAGTGGGCCA 62.075 55.000 0.00 0.00 46.92 5.36
3689 8833 2.764637 AATCCCGTTCAGTGGGCCAC 62.765 60.000 29.32 29.32 46.92 5.01
3690 8834 4.263572 CCCGTTCAGTGGGCCACA 62.264 66.667 36.28 16.23 40.47 4.17
3691 8835 2.034066 CCGTTCAGTGGGCCACAT 59.966 61.111 36.28 19.67 36.74 3.21
3692 8836 2.334946 CCGTTCAGTGGGCCACATG 61.335 63.158 36.28 28.39 36.74 3.21
3693 8837 1.600636 CGTTCAGTGGGCCACATGT 60.601 57.895 36.28 15.43 36.74 3.21
3694 8838 1.855213 CGTTCAGTGGGCCACATGTG 61.855 60.000 36.28 25.78 36.74 3.21
3695 8839 0.823356 GTTCAGTGGGCCACATGTGT 60.823 55.000 36.28 14.62 36.74 3.72
3696 8840 0.822944 TTCAGTGGGCCACATGTGTG 60.823 55.000 36.28 25.06 45.23 3.82
3706 8850 1.593787 ACATGTGTGAGGGAGAGCG 59.406 57.895 0.00 0.00 0.00 5.03
3707 8851 0.900182 ACATGTGTGAGGGAGAGCGA 60.900 55.000 0.00 0.00 0.00 4.93
3708 8852 0.459237 CATGTGTGAGGGAGAGCGAC 60.459 60.000 0.00 0.00 0.00 5.19
3709 8853 0.900182 ATGTGTGAGGGAGAGCGACA 60.900 55.000 0.00 0.00 0.00 4.35
3710 8854 1.080434 GTGTGAGGGAGAGCGACAC 60.080 63.158 0.00 0.00 0.00 3.67
3711 8855 2.179517 GTGAGGGAGAGCGACACG 59.820 66.667 0.00 0.00 0.00 4.49
3712 8856 2.282251 TGAGGGAGAGCGACACGT 60.282 61.111 0.00 0.00 0.00 4.49
3713 8857 2.179517 GAGGGAGAGCGACACGTG 59.820 66.667 15.48 15.48 0.00 4.49
3714 8858 2.597805 AGGGAGAGCGACACGTGT 60.598 61.111 23.64 23.64 0.00 4.49
3715 8859 2.143594 GAGGGAGAGCGACACGTGTT 62.144 60.000 24.26 6.90 0.00 3.32
3716 8860 1.300697 GGGAGAGCGACACGTGTTT 60.301 57.895 24.26 11.76 0.00 2.83
3717 8861 0.878961 GGGAGAGCGACACGTGTTTT 60.879 55.000 24.26 11.38 0.00 2.43
3718 8862 0.507358 GGAGAGCGACACGTGTTTTC 59.493 55.000 24.26 19.09 0.00 2.29
3719 8863 0.507358 GAGAGCGACACGTGTTTTCC 59.493 55.000 24.26 12.67 0.00 3.13
3720 8864 0.179094 AGAGCGACACGTGTTTTCCA 60.179 50.000 24.26 0.00 0.00 3.53
3721 8865 0.232303 GAGCGACACGTGTTTTCCAG 59.768 55.000 24.26 11.09 0.00 3.86
3722 8866 1.368850 GCGACACGTGTTTTCCAGC 60.369 57.895 24.26 16.59 0.00 4.85
3723 8867 1.772063 GCGACACGTGTTTTCCAGCT 61.772 55.000 24.26 0.00 0.00 4.24
3724 8868 0.042188 CGACACGTGTTTTCCAGCTG 60.042 55.000 24.26 6.78 0.00 4.24
3725 8869 1.295792 GACACGTGTTTTCCAGCTGA 58.704 50.000 24.26 0.00 0.00 4.26
3726 8870 1.668751 GACACGTGTTTTCCAGCTGAA 59.331 47.619 24.26 4.81 0.00 3.02
3727 8871 2.088423 ACACGTGTTTTCCAGCTGAAA 58.912 42.857 17.22 11.04 41.18 2.69
3728 8872 2.159435 ACACGTGTTTTCCAGCTGAAAC 60.159 45.455 17.22 18.51 42.56 2.78
3729 8873 2.088423 ACGTGTTTTCCAGCTGAAACA 58.912 42.857 22.88 22.88 42.56 2.83
3730 8874 2.490115 ACGTGTTTTCCAGCTGAAACAA 59.510 40.909 26.37 13.71 42.56 2.83
3731 8875 2.851824 CGTGTTTTCCAGCTGAAACAAC 59.148 45.455 26.37 20.31 42.56 3.32
3732 8876 3.671971 CGTGTTTTCCAGCTGAAACAACA 60.672 43.478 26.37 19.88 42.56 3.33
3733 8877 4.241681 GTGTTTTCCAGCTGAAACAACAA 58.758 39.130 26.37 9.11 42.56 2.83
3734 8878 4.327087 GTGTTTTCCAGCTGAAACAACAAG 59.673 41.667 26.37 5.13 42.56 3.16
3735 8879 4.219507 TGTTTTCCAGCTGAAACAACAAGA 59.780 37.500 23.92 5.52 42.56 3.02
3736 8880 5.167845 GTTTTCCAGCTGAAACAACAAGAA 58.832 37.500 17.39 3.60 42.56 2.52
3737 8881 4.637483 TTCCAGCTGAAACAACAAGAAG 57.363 40.909 17.39 0.00 0.00 2.85
3738 8882 2.358898 TCCAGCTGAAACAACAAGAAGC 59.641 45.455 17.39 0.00 0.00 3.86
3739 8883 2.360165 CCAGCTGAAACAACAAGAAGCT 59.640 45.455 17.39 0.00 41.51 3.74
3740 8884 3.565482 CCAGCTGAAACAACAAGAAGCTA 59.435 43.478 17.39 0.00 38.89 3.32
3741 8885 4.320057 CCAGCTGAAACAACAAGAAGCTAG 60.320 45.833 17.39 0.00 38.89 3.42
3742 8886 3.817647 AGCTGAAACAACAAGAAGCTAGG 59.182 43.478 0.00 0.00 39.14 3.02
3743 8887 3.565902 GCTGAAACAACAAGAAGCTAGGT 59.434 43.478 0.00 0.00 0.00 3.08
3744 8888 4.036852 GCTGAAACAACAAGAAGCTAGGTT 59.963 41.667 6.94 6.94 0.00 3.50
3745 8889 5.450550 GCTGAAACAACAAGAAGCTAGGTTT 60.451 40.000 8.87 0.00 0.00 3.27
3746 8890 6.238648 GCTGAAACAACAAGAAGCTAGGTTTA 60.239 38.462 8.87 0.00 0.00 2.01
3747 8891 7.259290 TGAAACAACAAGAAGCTAGGTTTAG 57.741 36.000 8.87 4.71 0.00 1.85
3748 8892 7.051623 TGAAACAACAAGAAGCTAGGTTTAGA 58.948 34.615 8.87 0.00 0.00 2.10
3749 8893 7.719633 TGAAACAACAAGAAGCTAGGTTTAGAT 59.280 33.333 8.87 0.00 0.00 1.98
3750 8894 7.674471 AACAACAAGAAGCTAGGTTTAGATC 57.326 36.000 8.87 0.00 0.00 2.75
3751 8895 6.174049 ACAACAAGAAGCTAGGTTTAGATCC 58.826 40.000 8.87 0.00 0.00 3.36
3752 8896 5.012328 ACAAGAAGCTAGGTTTAGATCCG 57.988 43.478 8.87 0.00 0.00 4.18
3753 8897 3.737032 AGAAGCTAGGTTTAGATCCGC 57.263 47.619 8.87 0.00 0.00 5.54
3754 8898 3.301274 AGAAGCTAGGTTTAGATCCGCT 58.699 45.455 8.87 0.00 0.00 5.52
3755 8899 3.319689 AGAAGCTAGGTTTAGATCCGCTC 59.680 47.826 8.87 0.00 0.00 5.03
3756 8900 2.952116 AGCTAGGTTTAGATCCGCTCT 58.048 47.619 0.00 0.00 38.06 4.09
3757 8901 2.888414 AGCTAGGTTTAGATCCGCTCTC 59.112 50.000 0.00 0.00 35.28 3.20
3758 8902 2.029739 GCTAGGTTTAGATCCGCTCTCC 60.030 54.545 0.00 0.00 35.28 3.71
3759 8903 2.463047 AGGTTTAGATCCGCTCTCCT 57.537 50.000 0.00 0.00 35.28 3.69
3760 8904 2.312390 AGGTTTAGATCCGCTCTCCTC 58.688 52.381 0.00 0.00 35.28 3.71
3761 8905 2.091555 AGGTTTAGATCCGCTCTCCTCT 60.092 50.000 0.00 0.00 35.28 3.69
3762 8906 2.295070 GGTTTAGATCCGCTCTCCTCTC 59.705 54.545 0.00 0.00 35.28 3.20
3763 8907 3.219281 GTTTAGATCCGCTCTCCTCTCT 58.781 50.000 0.00 0.00 35.28 3.10
3764 8908 3.586470 TTAGATCCGCTCTCCTCTCTT 57.414 47.619 0.00 0.00 35.28 2.85
3765 8909 4.708576 TTAGATCCGCTCTCCTCTCTTA 57.291 45.455 0.00 0.00 35.28 2.10
3766 8910 2.858745 AGATCCGCTCTCCTCTCTTAC 58.141 52.381 0.00 0.00 0.00 2.34
3767 8911 2.441750 AGATCCGCTCTCCTCTCTTACT 59.558 50.000 0.00 0.00 0.00 2.24
3768 8912 2.810870 TCCGCTCTCCTCTCTTACTT 57.189 50.000 0.00 0.00 0.00 2.24
3777 8921 9.367444 CGCTCTCCTCTCTTACTTTAAATAAAA 57.633 33.333 0.00 0.00 0.00 1.52
3830 8975 7.068839 TCAGTTTGTTGAAACCCAGCTTAAATA 59.931 33.333 0.00 0.00 42.25 1.40
3867 9012 2.101783 GATGGTTGCATCCCACATCAA 58.898 47.619 11.33 0.00 38.20 2.57
3868 9013 2.006805 TGGTTGCATCCCACATCAAA 57.993 45.000 11.33 0.00 0.00 2.69
3869 9014 1.894466 TGGTTGCATCCCACATCAAAG 59.106 47.619 11.33 0.00 0.00 2.77
3870 9015 1.895131 GGTTGCATCCCACATCAAAGT 59.105 47.619 2.02 0.00 0.00 2.66
3871 9016 2.299867 GGTTGCATCCCACATCAAAGTT 59.700 45.455 2.02 0.00 0.00 2.66
3879 9034 0.179250 CACATCAAAGTTCGCGGACG 60.179 55.000 12.82 0.00 42.01 4.79
3883 9038 1.735198 CAAAGTTCGCGGACGGCTA 60.735 57.895 12.82 0.00 40.44 3.93
3890 9045 4.729856 GCGGACGGCTACGGTGTT 62.730 66.667 0.00 0.00 46.48 3.32
3936 11114 1.923316 GCCCGTTCGTACGCTACTATG 60.923 57.143 11.24 3.88 46.27 2.23
3996 11822 1.697432 ACTGGTAGGCACTGTAGCAAA 59.303 47.619 4.98 0.00 41.52 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 1.962822 CAGCTTGTTCTGGCAGCGA 60.963 57.895 10.34 0.00 0.00 4.93
77 78 5.105106 TCCTGCTATTATCGACAAGGTCAAA 60.105 40.000 0.00 0.00 32.09 2.69
97 98 4.050553 ACACATGCACGAAAATTTTCCTG 58.949 39.130 22.15 20.73 33.68 3.86
98 99 4.298332 GACACATGCACGAAAATTTTCCT 58.702 39.130 22.15 10.42 33.68 3.36
101 102 4.320608 AGGACACATGCACGAAAATTTT 57.679 36.364 2.28 2.28 0.00 1.82
104 105 4.082787 CCTTAAGGACACATGCACGAAAAT 60.083 41.667 17.21 0.00 37.39 1.82
106 107 2.811431 CCTTAAGGACACATGCACGAAA 59.189 45.455 17.21 0.00 37.39 3.46
150 155 6.757237 TCTATTCAAGTGTTTACCGGTAACA 58.243 36.000 26.53 22.21 0.00 2.41
153 158 7.123098 TCAGATCTATTCAAGTGTTTACCGGTA 59.877 37.037 11.16 11.16 0.00 4.02
160 165 7.934855 ATGCTTCAGATCTATTCAAGTGTTT 57.065 32.000 0.00 0.00 0.00 2.83
173 178 4.771590 TTGGTGTCAAATGCTTCAGATC 57.228 40.909 0.00 0.00 0.00 2.75
185 190 1.770294 GGGGTGAGTTTTGGTGTCAA 58.230 50.000 0.00 0.00 0.00 3.18
188 193 0.838608 TACGGGGTGAGTTTTGGTGT 59.161 50.000 0.00 0.00 0.00 4.16
200 205 0.039618 TAGGGTTTCTCGTACGGGGT 59.960 55.000 16.55 0.00 0.00 4.95
236 241 2.410730 CGGCGTAGATTTCTGTCGTTTT 59.589 45.455 0.00 0.00 0.00 2.43
282 287 2.808919 TGATCCTCCTCGAGTTTGTCT 58.191 47.619 12.31 0.00 0.00 3.41
286 291 2.355209 GGCTTTGATCCTCCTCGAGTTT 60.355 50.000 12.31 0.00 0.00 2.66
303 308 2.661718 TCAAGTTTTTCTTCCGGGCTT 58.338 42.857 0.00 0.00 33.63 4.35
401 410 5.069781 GGGATATATGTCCTATGTGCCTCTC 59.930 48.000 17.13 0.00 36.76 3.20
414 423 2.354805 GGCGTGAAGGGGGATATATGTC 60.355 54.545 0.00 0.00 0.00 3.06
415 424 1.628846 GGCGTGAAGGGGGATATATGT 59.371 52.381 0.00 0.00 0.00 2.29
416 425 1.628340 TGGCGTGAAGGGGGATATATG 59.372 52.381 0.00 0.00 0.00 1.78
417 426 1.628846 GTGGCGTGAAGGGGGATATAT 59.371 52.381 0.00 0.00 0.00 0.86
418 427 1.053424 GTGGCGTGAAGGGGGATATA 58.947 55.000 0.00 0.00 0.00 0.86
419 428 1.705997 GGTGGCGTGAAGGGGGATAT 61.706 60.000 0.00 0.00 0.00 1.63
420 429 2.372074 GGTGGCGTGAAGGGGGATA 61.372 63.158 0.00 0.00 0.00 2.59
461 470 3.508840 CCGTGGATTCGCCTTGCC 61.509 66.667 0.00 0.00 37.63 4.52
489 498 3.562108 AAACTCTCCCCTCCACTCTTA 57.438 47.619 0.00 0.00 0.00 2.10
511 520 1.760875 CTACCCTTGGCGGCTAGGA 60.761 63.158 34.86 18.61 33.13 2.94
580 589 5.891551 ACACTTAAGTCACCAAGGTTGAATT 59.108 36.000 4.77 8.56 0.00 2.17
670 679 2.234908 GTGACTGTTGCCCTAGAGTGAT 59.765 50.000 0.00 0.00 0.00 3.06
676 685 0.034896 AACGGTGACTGTTGCCCTAG 59.965 55.000 9.32 0.00 0.00 3.02
702 711 8.485613 GGGCAACAGTCAAGCATACTTGTTAG 62.486 46.154 5.59 0.20 46.60 2.34
703 712 6.774097 GGGCAACAGTCAAGCATACTTGTTA 61.774 44.000 5.59 0.00 46.60 2.41
704 713 6.055368 GGGCAACAGTCAAGCATACTTGTT 62.055 45.833 5.59 0.00 46.60 2.83
813 827 2.262915 GGTCAGCTGGTGGTCTCG 59.737 66.667 15.13 0.00 0.00 4.04
821 835 0.951040 GGTTTCAGACGGTCAGCTGG 60.951 60.000 15.13 0.00 33.05 4.85
912 926 4.150454 AGAGGAGGGAGCGAGGGG 62.150 72.222 0.00 0.00 0.00 4.79
995 1009 1.270785 TGTGCTTCTTCTTCATGGCGA 60.271 47.619 0.00 0.00 0.00 5.54
1295 1364 2.829720 ACCAAGAAACTCATGCATGCAT 59.170 40.909 27.46 27.46 37.08 3.96
1333 1402 5.733226 TTCAACATGAACACACACACTAG 57.267 39.130 0.00 0.00 30.26 2.57
1335 1404 4.734402 GCATTCAACATGAACACACACACT 60.734 41.667 0.00 0.00 39.45 3.55
1343 1412 3.662247 TGCATGCATTCAACATGAACA 57.338 38.095 18.46 0.00 46.33 3.18
1344 1413 4.514545 CATGCATGCATTCAACATGAAC 57.485 40.909 30.32 0.00 46.33 3.18
1366 1435 2.808958 CGCCGCACCCATCTTAACG 61.809 63.158 0.00 0.00 0.00 3.18
1396 1466 3.066621 TCAAGCATGGCGATTTCATAACC 59.933 43.478 0.00 0.00 0.00 2.85
1530 1610 7.240414 TGCATGCAAACTTTTTAAGGTAAAC 57.760 32.000 20.30 0.00 0.00 2.01
1531 1611 7.859598 CATGCATGCAAACTTTTTAAGGTAAA 58.140 30.769 26.68 0.00 0.00 2.01
1534 1614 5.927954 CATGCATGCAAACTTTTTAAGGT 57.072 34.783 26.68 0.00 0.00 3.50
1585 1673 7.903145 TGCTATTAGTGACTTTTGAAGGTAGA 58.097 34.615 0.00 0.00 0.00 2.59
1586 1674 8.443937 GTTGCTATTAGTGACTTTTGAAGGTAG 58.556 37.037 0.00 0.00 0.00 3.18
1591 1698 9.944376 ATAGAGTTGCTATTAGTGACTTTTGAA 57.056 29.630 0.00 0.00 36.38 2.69
1672 3317 9.021807 AGTTTGCTATATCGTACTATACCATGT 57.978 33.333 0.00 0.00 0.00 3.21
1684 3329 9.635520 AAATACGCTATTAGTTTGCTATATCGT 57.364 29.630 0.00 0.00 0.00 3.73
1715 3419 6.854496 ACGTGCTACAGAAAAATAGTTGAA 57.146 33.333 0.00 0.00 0.00 2.69
1747 3451 5.408204 TGCTCTCGTTATTATGCACAATG 57.592 39.130 0.00 0.00 0.00 2.82
1748 3452 6.484643 AGAATGCTCTCGTTATTATGCACAAT 59.515 34.615 0.00 0.00 33.16 2.71
1750 3454 5.359756 AGAATGCTCTCGTTATTATGCACA 58.640 37.500 0.00 0.00 33.16 4.57
1751 3455 5.910315 GAGAATGCTCTCGTTATTATGCAC 58.090 41.667 0.00 0.00 38.91 4.57
1830 3534 3.771160 AGCGGGAGGCCGTACTTG 61.771 66.667 0.00 0.00 45.17 3.16
1854 3558 4.409218 GCCAGCGTCGTCACCGTA 62.409 66.667 0.00 0.00 35.01 4.02
2043 3747 2.359850 GGCGTGGGCATGTTCTCA 60.360 61.111 0.00 0.00 42.47 3.27
2219 3923 0.531200 GTCGTAGGTCTTGAGGTGGG 59.469 60.000 0.00 0.00 0.00 4.61
2427 4131 1.081242 GCTGGCGTTCATGTTGTGG 60.081 57.895 0.00 0.00 0.00 4.17
2586 4290 1.889530 CGAGGAAGAGGAAGGCGGTT 61.890 60.000 0.00 0.00 0.00 4.44
2673 4377 2.058595 GGCGAACTCCCTGAGCCTA 61.059 63.158 0.00 0.00 44.06 3.93
2817 4521 3.345808 CCGCAGTTGACCACCGTG 61.346 66.667 0.00 0.00 0.00 4.94
2919 4623 2.061773 CGCTTGTCGATGAAGTTGTCT 58.938 47.619 8.46 0.00 41.67 3.41
3040 4744 0.686441 TATCCGTGGGACTGGGACTG 60.686 60.000 0.00 0.00 32.98 3.51
3041 4745 0.686769 GTATCCGTGGGACTGGGACT 60.687 60.000 0.00 0.00 32.98 3.85
3042 4746 1.821258 GTATCCGTGGGACTGGGAC 59.179 63.158 0.00 0.00 32.98 4.46
3043 4747 1.755395 CGTATCCGTGGGACTGGGA 60.755 63.158 0.00 0.00 32.98 4.37
3044 4748 1.113517 ATCGTATCCGTGGGACTGGG 61.114 60.000 0.00 0.00 32.98 4.45
3045 4749 0.314302 GATCGTATCCGTGGGACTGG 59.686 60.000 0.00 0.00 32.98 4.00
3046 4750 1.001268 CTGATCGTATCCGTGGGACTG 60.001 57.143 0.00 0.00 32.98 3.51
3099 8209 2.131776 AGAAACGATCCGAGGAGTCT 57.868 50.000 0.00 0.00 0.00 3.24
3200 8319 6.730960 TCAATTTGGTCATAAAGTACGGAC 57.269 37.500 0.00 0.00 0.00 4.79
3231 8350 9.952030 TTAATCAAGTACTAACACATGAATGGA 57.048 29.630 0.00 0.00 0.00 3.41
3283 8402 6.074676 GCGCAGAATTAGCTAAAAATGGAATG 60.075 38.462 10.85 2.94 0.00 2.67
3287 8415 3.725740 CGCGCAGAATTAGCTAAAAATGG 59.274 43.478 10.85 1.05 0.00 3.16
3291 8419 1.063469 GCCGCGCAGAATTAGCTAAAA 59.937 47.619 10.85 0.00 0.00 1.52
3295 8423 2.028125 TAGGCCGCGCAGAATTAGCT 62.028 55.000 8.75 0.00 0.00 3.32
3307 8435 4.186159 TGTACAGATTTTTACTAGGCCGC 58.814 43.478 0.00 0.00 0.00 6.53
3362 8501 7.498570 TCAAAATTGGGGCATAAAATTGATAGC 59.501 33.333 0.00 0.00 0.00 2.97
3379 8518 2.671914 CGCATGACCCAGTCAAAATTGG 60.672 50.000 0.00 0.00 45.96 3.16
3380 8519 2.598589 CGCATGACCCAGTCAAAATTG 58.401 47.619 0.00 0.00 45.96 2.32
3381 8520 1.067635 GCGCATGACCCAGTCAAAATT 60.068 47.619 0.30 0.00 45.96 1.82
3414 8557 1.330655 AAGTCTCGTCCCCGATGCAT 61.331 55.000 0.00 0.00 43.27 3.96
3443 8586 2.038814 ATGGATGTGCATACGCCGGA 62.039 55.000 5.05 0.00 37.32 5.14
3455 8598 1.202687 CGTATGTGGGAGCATGGATGT 60.203 52.381 0.00 0.00 0.00 3.06
3469 8612 4.545610 CAATCAAAACAAGCCACGTATGT 58.454 39.130 0.00 0.00 0.00 2.29
3471 8614 3.823873 TCCAATCAAAACAAGCCACGTAT 59.176 39.130 0.00 0.00 0.00 3.06
3483 8626 8.254508 CCGGACCTTATTTTATTCCAATCAAAA 58.745 33.333 0.00 0.00 0.00 2.44
3495 8638 1.064537 GTGGGGCCGGACCTTATTTTA 60.065 52.381 29.76 0.75 39.10 1.52
3572 8716 0.105039 CTCCCACTTCATCCTACGGC 59.895 60.000 0.00 0.00 0.00 5.68
3610 8754 4.729918 CGGCTTGCCTGCTCCCTT 62.730 66.667 10.12 0.00 0.00 3.95
3642 8786 3.927481 GACTGGCCTGGCTGGGAAC 62.927 68.421 19.68 0.54 36.00 3.62
3643 8787 3.650950 GACTGGCCTGGCTGGGAA 61.651 66.667 19.68 0.00 36.00 3.97
3656 8800 0.811281 GGGATTTCCTTTGCCGACTG 59.189 55.000 0.00 0.00 35.95 3.51
3661 8805 1.202348 CTGAACGGGATTTCCTTTGCC 59.798 52.381 0.00 0.00 35.95 4.52
3662 8806 1.886542 ACTGAACGGGATTTCCTTTGC 59.113 47.619 0.00 0.00 35.95 3.68
3664 8808 2.514803 CCACTGAACGGGATTTCCTTT 58.485 47.619 0.00 0.00 35.95 3.11
3665 8809 2.200373 CCACTGAACGGGATTTCCTT 57.800 50.000 0.00 0.00 35.95 3.36
3674 8818 2.034066 ATGTGGCCCACTGAACGG 59.966 61.111 16.23 0.00 35.11 4.44
3675 8819 1.600636 ACATGTGGCCCACTGAACG 60.601 57.895 16.23 1.44 35.11 3.95
3676 8820 0.823356 ACACATGTGGCCCACTGAAC 60.823 55.000 28.64 0.00 35.11 3.18
3677 8821 0.822944 CACACATGTGGCCCACTGAA 60.823 55.000 28.64 0.00 42.10 3.02
3678 8822 1.228215 CACACATGTGGCCCACTGA 60.228 57.895 28.64 0.00 42.10 3.41
3679 8823 1.228215 TCACACATGTGGCCCACTG 60.228 57.895 28.64 16.71 45.65 3.66
3680 8824 1.073722 CTCACACATGTGGCCCACT 59.926 57.895 28.64 4.62 45.65 4.00
3681 8825 1.973281 CCTCACACATGTGGCCCAC 60.973 63.158 28.64 7.01 45.65 4.61
3682 8826 2.435663 CCTCACACATGTGGCCCA 59.564 61.111 28.64 9.13 45.65 5.36
3683 8827 2.361610 CCCTCACACATGTGGCCC 60.362 66.667 28.64 0.00 45.65 5.80
3684 8828 1.377725 CTCCCTCACACATGTGGCC 60.378 63.158 28.64 0.00 45.65 5.36
3685 8829 0.392193 CTCTCCCTCACACATGTGGC 60.392 60.000 28.64 0.00 45.65 5.01
3686 8830 0.392193 GCTCTCCCTCACACATGTGG 60.392 60.000 28.64 17.57 45.65 4.17
3687 8831 0.738762 CGCTCTCCCTCACACATGTG 60.739 60.000 24.25 24.25 46.91 3.21
3688 8832 0.900182 TCGCTCTCCCTCACACATGT 60.900 55.000 0.00 0.00 0.00 3.21
3689 8833 0.459237 GTCGCTCTCCCTCACACATG 60.459 60.000 0.00 0.00 0.00 3.21
3690 8834 0.900182 TGTCGCTCTCCCTCACACAT 60.900 55.000 0.00 0.00 0.00 3.21
3691 8835 1.530655 TGTCGCTCTCCCTCACACA 60.531 57.895 0.00 0.00 0.00 3.72
3692 8836 1.080434 GTGTCGCTCTCCCTCACAC 60.080 63.158 0.00 0.00 0.00 3.82
3693 8837 2.626780 CGTGTCGCTCTCCCTCACA 61.627 63.158 0.00 0.00 0.00 3.58
3694 8838 2.179517 CGTGTCGCTCTCCCTCAC 59.820 66.667 0.00 0.00 0.00 3.51
3695 8839 2.282251 ACGTGTCGCTCTCCCTCA 60.282 61.111 0.00 0.00 0.00 3.86
3696 8840 2.143594 AACACGTGTCGCTCTCCCTC 62.144 60.000 23.61 0.00 0.00 4.30
3697 8841 1.745320 AAACACGTGTCGCTCTCCCT 61.745 55.000 23.61 0.00 0.00 4.20
3698 8842 0.878961 AAAACACGTGTCGCTCTCCC 60.879 55.000 23.61 0.00 0.00 4.30
3699 8843 0.507358 GAAAACACGTGTCGCTCTCC 59.493 55.000 23.61 3.71 0.00 3.71
3700 8844 0.507358 GGAAAACACGTGTCGCTCTC 59.493 55.000 23.61 13.26 0.00 3.20
3701 8845 0.179094 TGGAAAACACGTGTCGCTCT 60.179 50.000 23.61 2.14 0.00 4.09
3702 8846 0.232303 CTGGAAAACACGTGTCGCTC 59.768 55.000 23.61 17.40 0.00 5.03
3703 8847 1.772063 GCTGGAAAACACGTGTCGCT 61.772 55.000 23.61 9.33 0.00 4.93
3704 8848 1.368850 GCTGGAAAACACGTGTCGC 60.369 57.895 23.61 13.76 0.00 5.19
3705 8849 0.042188 CAGCTGGAAAACACGTGTCG 60.042 55.000 23.61 7.57 0.00 4.35
3706 8850 1.295792 TCAGCTGGAAAACACGTGTC 58.704 50.000 23.61 10.05 0.00 3.67
3707 8851 1.745232 TTCAGCTGGAAAACACGTGT 58.255 45.000 17.22 17.22 30.98 4.49
3708 8852 2.159448 TGTTTCAGCTGGAAAACACGTG 60.159 45.455 22.88 15.48 46.53 4.49
3709 8853 2.088423 TGTTTCAGCTGGAAAACACGT 58.912 42.857 22.88 0.00 46.53 4.49
3710 8854 2.842208 TGTTTCAGCTGGAAAACACG 57.158 45.000 22.88 0.00 46.53 4.49
3711 8855 3.843999 TGTTGTTTCAGCTGGAAAACAC 58.156 40.909 25.24 20.65 46.53 3.32
3712 8856 4.219507 TCTTGTTGTTTCAGCTGGAAAACA 59.780 37.500 22.88 22.88 46.53 2.83
3713 8857 4.743493 TCTTGTTGTTTCAGCTGGAAAAC 58.257 39.130 19.16 19.16 46.53 2.43
3714 8858 5.398603 TTCTTGTTGTTTCAGCTGGAAAA 57.601 34.783 9.61 0.00 46.53 2.29
3715 8859 4.677779 GCTTCTTGTTGTTTCAGCTGGAAA 60.678 41.667 9.61 8.05 43.07 3.13
3716 8860 3.181487 GCTTCTTGTTGTTTCAGCTGGAA 60.181 43.478 15.13 9.08 0.00 3.53
3717 8861 2.358898 GCTTCTTGTTGTTTCAGCTGGA 59.641 45.455 15.13 0.46 0.00 3.86
3718 8862 2.360165 AGCTTCTTGTTGTTTCAGCTGG 59.640 45.455 15.13 0.00 0.00 4.85
3719 8863 3.705043 AGCTTCTTGTTGTTTCAGCTG 57.295 42.857 7.63 7.63 0.00 4.24
3720 8864 3.817647 CCTAGCTTCTTGTTGTTTCAGCT 59.182 43.478 0.00 0.00 35.45 4.24
3721 8865 3.565902 ACCTAGCTTCTTGTTGTTTCAGC 59.434 43.478 0.00 0.00 0.00 4.26
3722 8866 5.757850 AACCTAGCTTCTTGTTGTTTCAG 57.242 39.130 0.00 0.00 0.00 3.02
3723 8867 7.051623 TCTAAACCTAGCTTCTTGTTGTTTCA 58.948 34.615 0.00 0.00 0.00 2.69
3724 8868 7.492352 TCTAAACCTAGCTTCTTGTTGTTTC 57.508 36.000 0.00 0.00 0.00 2.78
3725 8869 7.175119 GGATCTAAACCTAGCTTCTTGTTGTTT 59.825 37.037 0.00 0.00 0.00 2.83
3726 8870 6.655425 GGATCTAAACCTAGCTTCTTGTTGTT 59.345 38.462 0.00 0.00 0.00 2.83
3727 8871 6.174049 GGATCTAAACCTAGCTTCTTGTTGT 58.826 40.000 0.00 0.00 0.00 3.32
3728 8872 5.292101 CGGATCTAAACCTAGCTTCTTGTTG 59.708 44.000 0.00 0.00 0.00 3.33
3729 8873 5.420409 CGGATCTAAACCTAGCTTCTTGTT 58.580 41.667 0.00 0.00 0.00 2.83
3730 8874 4.680975 GCGGATCTAAACCTAGCTTCTTGT 60.681 45.833 0.00 0.00 0.00 3.16
3731 8875 3.804873 GCGGATCTAAACCTAGCTTCTTG 59.195 47.826 0.00 0.00 0.00 3.02
3732 8876 3.707102 AGCGGATCTAAACCTAGCTTCTT 59.293 43.478 0.00 0.00 0.00 2.52
3733 8877 3.301274 AGCGGATCTAAACCTAGCTTCT 58.699 45.455 0.00 0.00 0.00 2.85
3734 8878 3.319689 AGAGCGGATCTAAACCTAGCTTC 59.680 47.826 0.00 0.00 36.10 3.86
3735 8879 3.301274 AGAGCGGATCTAAACCTAGCTT 58.699 45.455 0.00 0.00 36.10 3.74
3736 8880 2.888414 GAGAGCGGATCTAAACCTAGCT 59.112 50.000 0.00 0.00 38.84 3.32
3737 8881 2.029739 GGAGAGCGGATCTAAACCTAGC 60.030 54.545 0.00 0.00 38.84 3.42
3738 8882 3.492337 AGGAGAGCGGATCTAAACCTAG 58.508 50.000 0.00 0.00 38.84 3.02
3739 8883 3.138653 AGAGGAGAGCGGATCTAAACCTA 59.861 47.826 0.00 0.00 38.84 3.08
3740 8884 2.091555 AGAGGAGAGCGGATCTAAACCT 60.092 50.000 2.00 2.00 38.84 3.50
3741 8885 2.295070 GAGAGGAGAGCGGATCTAAACC 59.705 54.545 0.00 0.00 38.84 3.27
3742 8886 3.219281 AGAGAGGAGAGCGGATCTAAAC 58.781 50.000 0.00 0.00 38.84 2.01
3743 8887 3.586470 AGAGAGGAGAGCGGATCTAAA 57.414 47.619 0.00 0.00 38.84 1.85
3744 8888 3.586470 AAGAGAGGAGAGCGGATCTAA 57.414 47.619 0.00 0.00 38.84 2.10
3745 8889 3.649023 AGTAAGAGAGGAGAGCGGATCTA 59.351 47.826 0.00 0.00 38.84 1.98
3746 8890 2.441750 AGTAAGAGAGGAGAGCGGATCT 59.558 50.000 0.00 0.00 42.61 2.75
3747 8891 2.858745 AGTAAGAGAGGAGAGCGGATC 58.141 52.381 0.00 0.00 0.00 3.36
3748 8892 3.306472 AAGTAAGAGAGGAGAGCGGAT 57.694 47.619 0.00 0.00 0.00 4.18
3749 8893 2.810870 AAGTAAGAGAGGAGAGCGGA 57.189 50.000 0.00 0.00 0.00 5.54
3750 8894 4.985538 TTAAAGTAAGAGAGGAGAGCGG 57.014 45.455 0.00 0.00 0.00 5.52
3751 8895 8.928270 TTTATTTAAAGTAAGAGAGGAGAGCG 57.072 34.615 0.00 0.00 0.00 5.03
3811 8955 7.435192 GCACATATATTTAAGCTGGGTTTCAAC 59.565 37.037 0.00 0.00 0.00 3.18
3830 8975 6.072286 GCAACCATCTAAAGCTATGCACATAT 60.072 38.462 0.00 0.00 33.00 1.78
3867 9012 2.126189 GTAGCCGTCCGCGAACTT 60.126 61.111 8.23 0.00 44.76 2.66
3868 9013 4.471726 CGTAGCCGTCCGCGAACT 62.472 66.667 8.23 0.00 44.76 3.01
3879 9034 1.070821 GTAAACCGAACACCGTAGCC 58.929 55.000 0.00 0.00 36.31 3.93
3936 11114 5.023533 TGCACCTATATTGTTGAGGAGTC 57.976 43.478 0.00 0.00 34.24 3.36
3976 11352 1.348064 TTGCTACAGTGCCTACCAGT 58.652 50.000 0.00 0.00 0.00 4.00
4031 11994 3.370798 TGCCCATGCATGTAACCAA 57.629 47.368 24.58 2.14 44.23 3.67


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

AutoCloner maintained by Alex Coulton.