Multiple sequence alignment - TraesCS1D01G047700

Loading Multiple Alignment...

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 TraesCS1D01G047700 chr1D 100.000 2915 0 0 1 2915 27850837 27853751 0.000000e+00 5384
1 TraesCS1D01G047700 chr1B 89.417 2145 95 48 509 2580 43640269 43638184 0.000000e+00 2582
2 TraesCS1D01G047700 chr1B 90.713 463 18 9 2060 2515 540391241 540391685 6.960000e-166 593
3 TraesCS1D01G047700 chr1B 86.186 485 13 17 2 442 43640767 43640293 2.630000e-130 475
4 TraesCS1D01G047700 chr1A 87.344 2165 112 51 516 2580 28717948 28715846 0.000000e+00 2331
5 TraesCS1D01G047700 chr1A 81.768 362 23 15 151 502 28718584 28718256 2.230000e-66 263
6 TraesCS1D01G047700 chr1A 93.827 81 5 0 2835 2915 28715723 28715643 3.940000e-24 122
7 TraesCS1D01G047700 chr1A 93.902 82 4 1 2593 2673 28715805 28715724 3.940000e-24 122
8 TraesCS1D01G047700 chr3B 90.929 463 17 9 2060 2515 736041455 736041899 1.490000e-167 599
9 TraesCS1D01G047700 chr3B 87.455 550 22 18 2060 2580 746059367 746058836 9.000000e-165 590
10 TraesCS1D01G047700 chr3B 95.783 166 7 0 2670 2835 684066047 684066212 4.790000e-68 268
11 TraesCS1D01G047700 chr7B 87.636 550 21 18 2060 2580 249980524 249981055 1.930000e-166 595
12 TraesCS1D01G047700 chr6B 87.636 550 21 18 2060 2580 27522185 27521654 1.930000e-166 595
13 TraesCS1D01G047700 chr6B 93.243 74 3 2 2602 2673 27521597 27521524 1.100000e-19 108
14 TraesCS1D01G047700 chr6B 93.243 74 3 2 2602 2673 217516277 217516204 1.100000e-19 108
15 TraesCS1D01G047700 chr6B 93.243 74 3 2 2602 2673 439633435 439633508 1.100000e-19 108
16 TraesCS1D01G047700 chr6B 93.243 74 3 2 2602 2673 653268735 653268808 1.100000e-19 108
17 TraesCS1D01G047700 chr6B 93.243 74 3 2 2602 2673 653273028 653273101 1.100000e-19 108
18 TraesCS1D01G047700 chr6B 93.243 74 3 2 2602 2673 706376918 706376991 1.100000e-19 108
19 TraesCS1D01G047700 chr3A 87.636 550 21 18 2060 2580 307493538 307493007 1.930000e-166 595
20 TraesCS1D01G047700 chr5B 90.713 463 18 9 2060 2515 508916372 508916816 6.960000e-166 593
21 TraesCS1D01G047700 chr5B 87.500 104 3 3 2580 2673 237383366 237383469 8.540000e-21 111
22 TraesCS1D01G047700 chr7A 87.755 539 22 16 2068 2580 41354661 41355181 9.000000e-165 590
23 TraesCS1D01G047700 chr3D 94.767 172 8 1 2668 2839 612709980 612710150 1.720000e-67 267
24 TraesCS1D01G047700 chr5D 94.737 171 8 1 2666 2836 127452146 127451977 6.190000e-67 265
25 TraesCS1D01G047700 chr5D 94.083 169 10 0 2665 2833 60140933 60140765 1.040000e-64 257
26 TraesCS1D01G047700 chr2B 94.611 167 9 0 2668 2834 519180658 519180824 2.880000e-65 259
27 TraesCS1D01G047700 chr2B 94.083 169 10 0 2669 2837 235054183 235054351 1.040000e-64 257
28 TraesCS1D01G047700 chr7D 94.083 169 10 0 2669 2837 595914695 595914527 1.040000e-64 257
29 TraesCS1D01G047700 chr6D 93.605 172 11 0 2662 2833 90890273 90890444 1.040000e-64 257
30 TraesCS1D01G047700 chr4D 94.118 170 9 1 2670 2839 468208643 468208811 1.040000e-64 257
31 TraesCS1D01G047700 chrUn 93.243 74 3 2 2602 2673 62384071 62384144 1.100000e-19 108
32 TraesCS1D01G047700 chrUn 93.243 74 3 2 2602 2673 349510262 349510335 1.100000e-19 108


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 TraesCS1D01G047700 chr1D 27850837 27853751 2914 False 5384.0 5384 100.00000 1 2915 1 chr1D.!!$F1 2914
1 TraesCS1D01G047700 chr1B 43638184 43640767 2583 True 1528.5 2582 87.80150 2 2580 2 chr1B.!!$R1 2578
2 TraesCS1D01G047700 chr1A 28715643 28718584 2941 True 709.5 2331 89.21025 151 2915 4 chr1A.!!$R1 2764
3 TraesCS1D01G047700 chr3B 746058836 746059367 531 True 590.0 590 87.45500 2060 2580 1 chr3B.!!$R1 520
4 TraesCS1D01G047700 chr7B 249980524 249981055 531 False 595.0 595 87.63600 2060 2580 1 chr7B.!!$F1 520
5 TraesCS1D01G047700 chr6B 27521524 27522185 661 True 351.5 595 90.43950 2060 2673 2 chr6B.!!$R2 613
6 TraesCS1D01G047700 chr3A 307493007 307493538 531 True 595.0 595 87.63600 2060 2580 1 chr3A.!!$R1 520
7 TraesCS1D01G047700 chr7A 41354661 41355181 520 False 590.0 590 87.75500 2068 2580 1 chr7A.!!$F1 512

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
330 376 0.031917 ATCATCATGGGCTTTGGGCA 60.032 50.0 0.0 0.0 44.01 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2281 2742 0.830648 GTCAGTGCCACCCTAGCATA 59.169 55.0 0.0 0.0 43.29 3.14 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
20 21 1.272592 TGCAAAGAGCCAATCATCCCA 60.273 47.619 0.00 0.00 44.83 4.37
29 30 2.092429 GCCAATCATCCCAGAGGTACAA 60.092 50.000 0.00 0.00 0.00 2.41
50 51 2.094675 CGAGAACAATGAAGGCCCATT 58.905 47.619 0.00 0.00 37.24 3.16
52 53 3.313526 CGAGAACAATGAAGGCCCATTAG 59.686 47.826 0.00 1.32 35.20 1.73
53 54 4.273318 GAGAACAATGAAGGCCCATTAGT 58.727 43.478 0.00 1.94 35.20 2.24
65 75 3.385755 GGCCCATTAGTAAAGACGGTAGA 59.614 47.826 0.00 0.00 0.00 2.59
66 76 4.141869 GGCCCATTAGTAAAGACGGTAGAA 60.142 45.833 0.00 0.00 0.00 2.10
67 77 5.454329 GGCCCATTAGTAAAGACGGTAGAAT 60.454 44.000 0.00 0.00 0.00 2.40
94 104 3.589881 GAGGCCATGATGCGGTGC 61.590 66.667 5.01 0.00 0.00 5.01
117 133 3.842923 GCGCTGCAGCTAGAGGGA 61.843 66.667 34.22 0.00 39.32 4.20
119 135 2.124060 CGCTGCAGCTAGAGGGAGA 61.124 63.158 34.22 0.00 39.32 3.71
120 136 1.741525 GCTGCAGCTAGAGGGAGAG 59.258 63.158 31.33 0.00 38.21 3.20
121 137 0.754957 GCTGCAGCTAGAGGGAGAGA 60.755 60.000 31.33 0.00 38.21 3.10
122 138 1.321474 CTGCAGCTAGAGGGAGAGAG 58.679 60.000 0.00 0.00 0.00 3.20
123 139 0.754957 TGCAGCTAGAGGGAGAGAGC 60.755 60.000 0.00 0.00 35.07 4.09
124 140 0.468029 GCAGCTAGAGGGAGAGAGCT 60.468 60.000 0.00 0.00 46.08 4.09
127 143 2.101249 CAGCTAGAGGGAGAGAGCTTTG 59.899 54.545 0.00 0.00 42.59 2.77
128 144 2.107366 GCTAGAGGGAGAGAGCTTTGT 58.893 52.381 0.00 0.00 32.04 2.83
129 145 3.053245 AGCTAGAGGGAGAGAGCTTTGTA 60.053 47.826 0.00 0.00 42.59 2.41
186 209 1.451028 GGTGCTGGTGCTCCTCATC 60.451 63.158 6.34 1.10 46.18 2.92
316 362 4.177026 GCCTATCATACCGTCACATCATC 58.823 47.826 0.00 0.00 0.00 2.92
317 363 4.321974 GCCTATCATACCGTCACATCATCA 60.322 45.833 0.00 0.00 0.00 3.07
318 364 5.625426 GCCTATCATACCGTCACATCATCAT 60.625 44.000 0.00 0.00 0.00 2.45
330 376 0.031917 ATCATCATGGGCTTTGGGCA 60.032 50.000 0.00 0.00 44.01 5.36
332 378 1.382146 ATCATGGGCTTTGGGCAGG 60.382 57.895 0.00 0.00 44.01 4.85
333 379 2.884179 ATCATGGGCTTTGGGCAGGG 62.884 60.000 0.00 0.00 44.01 4.45
352 400 1.597302 CAGGGCAGCAGATGGATCG 60.597 63.158 0.00 0.00 0.00 3.69
447 495 0.819259 TGCTTCCACTGCCTGAACAC 60.819 55.000 0.00 0.00 0.00 3.32
448 496 1.518903 GCTTCCACTGCCTGAACACC 61.519 60.000 0.00 0.00 0.00 4.16
450 498 0.257328 TTCCACTGCCTGAACACCAA 59.743 50.000 0.00 0.00 0.00 3.67
451 499 0.465460 TCCACTGCCTGAACACCAAC 60.465 55.000 0.00 0.00 0.00 3.77
452 500 0.751277 CCACTGCCTGAACACCAACA 60.751 55.000 0.00 0.00 0.00 3.33
453 501 1.102154 CACTGCCTGAACACCAACAA 58.898 50.000 0.00 0.00 0.00 2.83
454 502 1.066002 CACTGCCTGAACACCAACAAG 59.934 52.381 0.00 0.00 0.00 3.16
455 503 0.670162 CTGCCTGAACACCAACAAGG 59.330 55.000 0.00 0.00 45.67 3.61
456 504 1.363807 GCCTGAACACCAACAAGGC 59.636 57.895 0.00 0.00 43.14 4.35
457 505 1.391157 GCCTGAACACCAACAAGGCA 61.391 55.000 7.11 0.00 43.14 4.75
458 506 1.110442 CCTGAACACCAACAAGGCAA 58.890 50.000 0.00 0.00 43.14 4.52
463 511 1.555967 ACACCAACAAGGCAACAAGT 58.444 45.000 0.00 0.00 43.14 3.16
485 533 1.417517 AGGTGAGTGAACATGAGCACA 59.582 47.619 19.43 0.00 37.48 4.57
499 547 2.888863 CACAGAGCCTCCGGACTC 59.111 66.667 13.00 13.00 0.00 3.36
502 550 0.106918 ACAGAGCCTCCGGACTCTAG 60.107 60.000 20.83 17.15 41.31 2.43
503 551 0.106918 CAGAGCCTCCGGACTCTAGT 60.107 60.000 20.83 1.16 41.31 2.57
504 552 0.106918 AGAGCCTCCGGACTCTAGTG 60.107 60.000 20.12 0.28 41.44 2.74
505 553 1.730451 GAGCCTCCGGACTCTAGTGC 61.730 65.000 13.49 4.43 0.00 4.40
507 555 1.395826 GCCTCCGGACTCTAGTGCAT 61.396 60.000 0.00 0.00 36.05 3.96
508 556 1.115467 CCTCCGGACTCTAGTGCATT 58.885 55.000 0.00 0.00 36.05 3.56
510 558 2.034812 CCTCCGGACTCTAGTGCATTAC 59.965 54.545 0.00 0.00 36.05 1.89
511 559 1.674441 TCCGGACTCTAGTGCATTACG 59.326 52.381 0.00 0.00 36.05 3.18
513 561 2.098607 CCGGACTCTAGTGCATTACGAA 59.901 50.000 0.00 0.00 36.05 3.85
514 562 3.364062 CGGACTCTAGTGCATTACGAAG 58.636 50.000 2.48 0.00 36.05 3.79
574 918 7.835682 TCAAAATAGCTACACTACACCCTAGTA 59.164 37.037 0.00 0.00 32.32 1.82
576 920 4.858965 AGCTACACTACACCCTAGTACT 57.141 45.455 0.00 0.00 0.00 2.73
577 921 5.965033 AGCTACACTACACCCTAGTACTA 57.035 43.478 1.89 1.89 0.00 1.82
578 922 5.927819 AGCTACACTACACCCTAGTACTAG 58.072 45.833 21.11 21.11 0.00 2.57
579 923 7.256619 ATAGCTACACTACACCCTAGTACTAGG 60.257 44.444 33.81 33.81 42.03 3.02
602 946 5.106908 GGCTACTAGCTATGTTATTGCAAGC 60.107 44.000 4.94 0.00 41.99 4.01
638 985 4.585955 TGCTCAGAAGTCTACGAAAACT 57.414 40.909 0.00 0.00 0.00 2.66
705 1059 1.803519 CCAAGCAGAGCGAGACGAC 60.804 63.158 0.00 0.00 0.00 4.34
716 1070 3.691744 GAGACGACGCAGGCAGAGG 62.692 68.421 0.00 0.00 0.00 3.69
807 1173 4.570933 CCCCAATAACTTCACCCCATTACA 60.571 45.833 0.00 0.00 0.00 2.41
808 1174 5.208121 CCCAATAACTTCACCCCATTACAT 58.792 41.667 0.00 0.00 0.00 2.29
809 1175 5.660864 CCCAATAACTTCACCCCATTACATT 59.339 40.000 0.00 0.00 0.00 2.71
810 1176 6.836527 CCCAATAACTTCACCCCATTACATTA 59.163 38.462 0.00 0.00 0.00 1.90
811 1177 7.201875 CCCAATAACTTCACCCCATTACATTAC 60.202 40.741 0.00 0.00 0.00 1.89
826 1192 2.316372 ACATTACTGTCTCCCTCCCTCT 59.684 50.000 0.00 0.00 0.00 3.69
839 1210 2.588989 CCTCTTCCCTGCTCTGCC 59.411 66.667 0.00 0.00 0.00 4.85
908 1285 1.152247 ACAGACTCCCACAGCTCCA 60.152 57.895 0.00 0.00 0.00 3.86
957 1352 2.284995 GTCTGGCCTCTCCCCACT 60.285 66.667 3.32 0.00 0.00 4.00
985 1380 5.886960 CGAAGGTTGAAGATTCCATTTCT 57.113 39.130 0.00 0.00 0.00 2.52
986 1381 6.985188 CGAAGGTTGAAGATTCCATTTCTA 57.015 37.500 0.00 0.00 0.00 2.10
987 1382 7.559590 CGAAGGTTGAAGATTCCATTTCTAT 57.440 36.000 0.00 0.00 0.00 1.98
988 1383 8.662781 CGAAGGTTGAAGATTCCATTTCTATA 57.337 34.615 0.00 0.00 0.00 1.31
989 1384 8.768955 CGAAGGTTGAAGATTCCATTTCTATAG 58.231 37.037 0.00 0.00 0.00 1.31
990 1385 9.838339 GAAGGTTGAAGATTCCATTTCTATAGA 57.162 33.333 0.00 0.00 0.00 1.98
991 1386 9.844257 AAGGTTGAAGATTCCATTTCTATAGAG 57.156 33.333 2.02 0.00 0.00 2.43
992 1387 8.435982 AGGTTGAAGATTCCATTTCTATAGAGG 58.564 37.037 2.02 1.40 0.00 3.69
993 1388 8.432805 GGTTGAAGATTCCATTTCTATAGAGGA 58.567 37.037 2.02 3.91 0.00 3.71
1257 1655 2.331132 GCAGGAGCAGCAGGTGAAC 61.331 63.158 3.02 0.00 41.58 3.18
1313 1711 4.129737 GCCTAGTGTGAGCGCGGA 62.130 66.667 8.83 0.00 0.00 5.54
1314 1712 2.103143 CCTAGTGTGAGCGCGGAG 59.897 66.667 8.83 0.00 0.00 4.63
1356 1766 2.590092 GTGGGCGCCAAGAGGTAT 59.410 61.111 30.85 0.00 34.18 2.73
1928 2375 2.027385 GGGATGAGGCTTGGATGTTTC 58.973 52.381 0.00 0.00 0.00 2.78
2048 2500 6.723298 TCTCTTTGATTTTTGCCTTGGTTA 57.277 33.333 0.00 0.00 0.00 2.85
2052 2504 7.678837 TCTTTGATTTTTGCCTTGGTTATCAT 58.321 30.769 0.00 0.00 0.00 2.45
2053 2505 7.818930 TCTTTGATTTTTGCCTTGGTTATCATC 59.181 33.333 0.00 0.00 0.00 2.92
2058 2510 3.627395 TGCCTTGGTTATCATCGTTCT 57.373 42.857 0.00 0.00 0.00 3.01
2066 2518 6.421377 TGGTTATCATCGTTCTTGTTCATG 57.579 37.500 0.00 0.00 0.00 3.07
2070 2525 7.394872 GTTATCATCGTTCTTGTTCATGTCTC 58.605 38.462 0.00 0.00 0.00 3.36
2280 2741 1.380246 TGGGCCTGATGAATGGTGC 60.380 57.895 4.53 0.00 0.00 5.01
2281 2742 1.076485 GGGCCTGATGAATGGTGCT 60.076 57.895 0.84 0.00 0.00 4.40
2282 2743 0.183492 GGGCCTGATGAATGGTGCTA 59.817 55.000 0.84 0.00 0.00 3.49
2425 2887 0.034337 TTTCACCTACCTCGCACACC 59.966 55.000 0.00 0.00 0.00 4.16
2445 2910 3.424105 GCTCCCCCTCCATGCCTT 61.424 66.667 0.00 0.00 0.00 4.35
2504 2973 2.499289 TGCCTTGGCTTCAAAACAAAGA 59.501 40.909 13.18 0.00 0.00 2.52
2507 2976 4.758688 CCTTGGCTTCAAAACAAAGACTT 58.241 39.130 0.00 0.00 32.68 3.01
2522 2995 6.785488 CAAAGACTTTGTGATGCACTAGTA 57.215 37.500 18.12 0.00 35.94 1.82
2681 3217 9.856162 TTGTAAATTAAAAACTACTCCCTCTGT 57.144 29.630 0.00 0.00 0.00 3.41
2682 3218 9.856162 TGTAAATTAAAAACTACTCCCTCTGTT 57.144 29.630 0.00 0.00 0.00 3.16
2684 3220 7.997773 AATTAAAAACTACTCCCTCTGTTCC 57.002 36.000 0.00 0.00 0.00 3.62
2685 3221 6.758806 TTAAAAACTACTCCCTCTGTTCCT 57.241 37.500 0.00 0.00 0.00 3.36
2686 3222 7.860649 TTAAAAACTACTCCCTCTGTTCCTA 57.139 36.000 0.00 0.00 0.00 2.94
2687 3223 6.758806 AAAAACTACTCCCTCTGTTCCTAA 57.241 37.500 0.00 0.00 0.00 2.69
2688 3224 6.758806 AAAACTACTCCCTCTGTTCCTAAA 57.241 37.500 0.00 0.00 0.00 1.85
2689 3225 6.954352 AAACTACTCCCTCTGTTCCTAAAT 57.046 37.500 0.00 0.00 0.00 1.40
2690 3226 8.445361 AAAACTACTCCCTCTGTTCCTAAATA 57.555 34.615 0.00 0.00 0.00 1.40
2691 3227 8.625467 AAACTACTCCCTCTGTTCCTAAATAT 57.375 34.615 0.00 0.00 0.00 1.28
2692 3228 9.725206 AAACTACTCCCTCTGTTCCTAAATATA 57.275 33.333 0.00 0.00 0.00 0.86
2693 3229 9.725206 AACTACTCCCTCTGTTCCTAAATATAA 57.275 33.333 0.00 0.00 0.00 0.98
2694 3230 9.369672 ACTACTCCCTCTGTTCCTAAATATAAG 57.630 37.037 0.00 0.00 0.00 1.73
2695 3231 9.369672 CTACTCCCTCTGTTCCTAAATATAAGT 57.630 37.037 0.00 0.00 0.00 2.24
2696 3232 8.252624 ACTCCCTCTGTTCCTAAATATAAGTC 57.747 38.462 0.00 0.00 0.00 3.01
2697 3233 8.068733 ACTCCCTCTGTTCCTAAATATAAGTCT 58.931 37.037 0.00 0.00 0.00 3.24
2698 3234 8.855804 TCCCTCTGTTCCTAAATATAAGTCTT 57.144 34.615 0.00 0.00 0.00 3.01
2699 3235 9.280456 TCCCTCTGTTCCTAAATATAAGTCTTT 57.720 33.333 0.00 0.00 0.00 2.52
2700 3236 9.907229 CCCTCTGTTCCTAAATATAAGTCTTTT 57.093 33.333 0.00 0.00 0.00 2.27
2718 3254 9.883142 AAGTCTTTTTAGAGATTCCACTAGATG 57.117 33.333 0.00 0.00 0.00 2.90
2732 3268 5.614923 CACTAGATGGACTACATACGGAG 57.385 47.826 0.00 0.00 40.72 4.63
2733 3269 4.073549 ACTAGATGGACTACATACGGAGC 58.926 47.826 0.00 0.00 40.72 4.70
2734 3270 2.945456 AGATGGACTACATACGGAGCA 58.055 47.619 0.00 0.00 40.72 4.26
2735 3271 3.296854 AGATGGACTACATACGGAGCAA 58.703 45.455 0.00 0.00 40.72 3.91
2736 3272 3.704566 AGATGGACTACATACGGAGCAAA 59.295 43.478 0.00 0.00 40.72 3.68
2737 3273 3.965379 TGGACTACATACGGAGCAAAA 57.035 42.857 0.00 0.00 0.00 2.44
2738 3274 4.481368 TGGACTACATACGGAGCAAAAT 57.519 40.909 0.00 0.00 0.00 1.82
2739 3275 5.601583 TGGACTACATACGGAGCAAAATA 57.398 39.130 0.00 0.00 0.00 1.40
2740 3276 5.979993 TGGACTACATACGGAGCAAAATAA 58.020 37.500 0.00 0.00 0.00 1.40
2741 3277 6.408035 TGGACTACATACGGAGCAAAATAAA 58.592 36.000 0.00 0.00 0.00 1.40
2742 3278 7.051623 TGGACTACATACGGAGCAAAATAAAT 58.948 34.615 0.00 0.00 0.00 1.40
2743 3279 7.011950 TGGACTACATACGGAGCAAAATAAATG 59.988 37.037 0.00 0.00 0.00 2.32
2744 3280 7.225931 GGACTACATACGGAGCAAAATAAATGA 59.774 37.037 0.00 0.00 0.00 2.57
2745 3281 8.500753 ACTACATACGGAGCAAAATAAATGAA 57.499 30.769 0.00 0.00 0.00 2.57
2746 3282 8.395633 ACTACATACGGAGCAAAATAAATGAAC 58.604 33.333 0.00 0.00 0.00 3.18
2747 3283 6.560711 ACATACGGAGCAAAATAAATGAACC 58.439 36.000 0.00 0.00 0.00 3.62
2748 3284 6.377146 ACATACGGAGCAAAATAAATGAACCT 59.623 34.615 0.00 0.00 0.00 3.50
2749 3285 7.554835 ACATACGGAGCAAAATAAATGAACCTA 59.445 33.333 0.00 0.00 0.00 3.08
2750 3286 6.190954 ACGGAGCAAAATAAATGAACCTAC 57.809 37.500 0.00 0.00 0.00 3.18
2751 3287 5.708230 ACGGAGCAAAATAAATGAACCTACA 59.292 36.000 0.00 0.00 0.00 2.74
2752 3288 6.027749 CGGAGCAAAATAAATGAACCTACAC 58.972 40.000 0.00 0.00 0.00 2.90
2753 3289 6.128007 CGGAGCAAAATAAATGAACCTACACT 60.128 38.462 0.00 0.00 0.00 3.55
2754 3290 7.574967 CGGAGCAAAATAAATGAACCTACACTT 60.575 37.037 0.00 0.00 0.00 3.16
2755 3291 8.736244 GGAGCAAAATAAATGAACCTACACTTA 58.264 33.333 0.00 0.00 0.00 2.24
2764 3300 8.986477 AAATGAACCTACACTTAAATTGCATC 57.014 30.769 0.00 0.00 0.00 3.91
2765 3301 7.944729 ATGAACCTACACTTAAATTGCATCT 57.055 32.000 0.00 0.00 0.00 2.90
2766 3302 9.461312 AATGAACCTACACTTAAATTGCATCTA 57.539 29.630 0.00 0.00 0.00 1.98
2767 3303 9.632638 ATGAACCTACACTTAAATTGCATCTAT 57.367 29.630 0.00 0.00 0.00 1.98
2777 3313 9.944376 ACTTAAATTGCATCTATATACATCCGT 57.056 29.630 0.00 0.00 0.00 4.69
2782 3318 8.877808 ATTGCATCTATATACATCCGTATGTG 57.122 34.615 3.56 0.00 45.99 3.21
2783 3319 6.805713 TGCATCTATATACATCCGTATGTGG 58.194 40.000 3.56 0.00 45.99 4.17
2784 3320 6.379988 TGCATCTATATACATCCGTATGTGGT 59.620 38.462 3.56 0.00 45.99 4.16
2785 3321 7.093509 TGCATCTATATACATCCGTATGTGGTT 60.094 37.037 3.56 0.00 45.99 3.67
2786 3322 7.435488 GCATCTATATACATCCGTATGTGGTTC 59.565 40.741 3.56 0.00 45.99 3.62
2787 3323 8.466798 CATCTATATACATCCGTATGTGGTTCA 58.533 37.037 3.56 0.00 45.99 3.18
2788 3324 8.589701 TCTATATACATCCGTATGTGGTTCAT 57.410 34.615 3.56 0.00 45.99 2.57
2789 3325 9.689501 TCTATATACATCCGTATGTGGTTCATA 57.310 33.333 3.56 0.00 45.99 2.15
2790 3326 9.952188 CTATATACATCCGTATGTGGTTCATAG 57.048 37.037 3.56 0.80 45.99 2.23
2791 3327 6.665992 ATACATCCGTATGTGGTTCATAGT 57.334 37.500 3.56 0.00 45.99 2.12
2792 3328 7.770366 ATACATCCGTATGTGGTTCATAGTA 57.230 36.000 3.56 0.00 45.99 1.82
2793 3329 6.085555 ACATCCGTATGTGGTTCATAGTAG 57.914 41.667 0.00 0.00 44.79 2.57
2794 3330 5.831525 ACATCCGTATGTGGTTCATAGTAGA 59.168 40.000 0.00 0.00 44.79 2.59
2795 3331 6.322969 ACATCCGTATGTGGTTCATAGTAGAA 59.677 38.462 0.00 0.00 44.79 2.10
2796 3332 6.971726 TCCGTATGTGGTTCATAGTAGAAT 57.028 37.500 0.00 0.00 39.36 2.40
2797 3333 6.978338 TCCGTATGTGGTTCATAGTAGAATC 58.022 40.000 0.00 0.00 39.36 2.52
2798 3334 6.776116 TCCGTATGTGGTTCATAGTAGAATCT 59.224 38.462 0.00 0.00 39.36 2.40
2799 3335 7.040617 TCCGTATGTGGTTCATAGTAGAATCTC 60.041 40.741 0.00 0.00 39.36 2.75
2800 3336 7.040340 CCGTATGTGGTTCATAGTAGAATCTCT 60.040 40.741 0.00 0.00 39.36 3.10
2801 3337 9.000486 CGTATGTGGTTCATAGTAGAATCTCTA 58.000 37.037 0.00 0.00 39.36 2.43
2803 3339 9.862149 TATGTGGTTCATAGTAGAATCTCTACA 57.138 33.333 14.55 3.46 42.75 2.74
2826 3362 8.943909 ACAAAGACTTATATTTAGGAACGGAG 57.056 34.615 0.00 0.00 0.00 4.63
2827 3363 7.985752 ACAAAGACTTATATTTAGGAACGGAGG 59.014 37.037 0.00 0.00 0.00 4.30
2828 3364 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
2829 3365 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
2830 3366 6.494146 AGACTTATATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
2831 3367 6.141790 ACTTATATTTAGGAACGGAGGGAGT 58.858 40.000 0.00 0.00 0.00 3.85
2832 3368 7.300658 ACTTATATTTAGGAACGGAGGGAGTA 58.699 38.462 0.00 0.00 0.00 2.59
2833 3369 7.450944 ACTTATATTTAGGAACGGAGGGAGTAG 59.549 40.741 0.00 0.00 0.00 2.57
2857 3393 5.693769 ATGTGGCCATTGTAACTAGTAGT 57.306 39.130 9.72 0.00 0.00 2.73
2859 3395 6.216801 TGTGGCCATTGTAACTAGTAGTAG 57.783 41.667 9.72 2.87 0.00 2.57
2862 3398 7.396907 TGTGGCCATTGTAACTAGTAGTAGTAA 59.603 37.037 9.72 2.62 38.66 2.24
2866 3402 9.680315 GCCATTGTAACTAGTAGTAGTAATCAG 57.320 37.037 10.68 3.32 38.66 2.90
2901 3437 3.813166 ACTTTTGTGATTGTGTCCTACCG 59.187 43.478 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.272592 TGGGATGATTGGCTCTTTGCA 60.273 47.619 0.00 0.00 45.15 4.08
20 21 4.866508 TCATTGTTCTCGTTGTACCTCT 57.133 40.909 0.00 0.00 0.00 3.69
29 30 0.400213 TGGGCCTTCATTGTTCTCGT 59.600 50.000 4.53 0.00 0.00 4.18
50 51 7.275560 GCCGTTTTTATTCTACCGTCTTTACTA 59.724 37.037 0.00 0.00 0.00 1.82
52 53 6.243551 GCCGTTTTTATTCTACCGTCTTTAC 58.756 40.000 0.00 0.00 0.00 2.01
53 54 5.062058 CGCCGTTTTTATTCTACCGTCTTTA 59.938 40.000 0.00 0.00 0.00 1.85
107 117 2.292192 ACAAAGCTCTCTCCCTCTAGCT 60.292 50.000 0.00 0.00 46.96 3.32
117 133 6.405538 ACTACGTACTACTACAAAGCTCTCT 58.594 40.000 0.00 0.00 0.00 3.10
119 135 7.551585 TCTACTACGTACTACTACAAAGCTCT 58.448 38.462 0.00 0.00 0.00 4.09
120 136 7.763172 TCTACTACGTACTACTACAAAGCTC 57.237 40.000 0.00 0.00 0.00 4.09
121 137 8.553459 TTTCTACTACGTACTACTACAAAGCT 57.447 34.615 0.00 0.00 0.00 3.74
122 138 9.271738 CTTTTCTACTACGTACTACTACAAAGC 57.728 37.037 0.00 0.00 0.00 3.51
129 145 8.791675 AGCTTTTCTTTTCTACTACGTACTACT 58.208 33.333 0.00 0.00 0.00 2.57
172 195 1.070445 GATGAGGATGAGGAGCACCAG 59.930 57.143 2.07 0.00 38.94 4.00
186 209 1.360551 CACGCCGGAGTAGATGAGG 59.639 63.158 11.60 0.00 0.00 3.86
316 362 3.078836 CCCTGCCCAAAGCCCATG 61.079 66.667 0.00 0.00 42.71 3.66
330 376 4.124943 CATCTGCTGCCCTGCCCT 62.125 66.667 0.00 0.00 0.00 5.19
332 378 3.432445 ATCCATCTGCTGCCCTGCC 62.432 63.158 0.00 0.00 0.00 4.85
333 379 1.897615 GATCCATCTGCTGCCCTGC 60.898 63.158 0.00 0.00 0.00 4.85
334 380 1.597302 CGATCCATCTGCTGCCCTG 60.597 63.158 0.00 0.00 0.00 4.45
335 381 2.037620 GACGATCCATCTGCTGCCCT 62.038 60.000 0.00 0.00 0.00 5.19
338 384 1.953138 CCGACGATCCATCTGCTGC 60.953 63.158 0.00 0.00 0.00 5.25
339 385 0.103026 TTCCGACGATCCATCTGCTG 59.897 55.000 0.00 0.00 0.00 4.41
340 386 0.824109 TTTCCGACGATCCATCTGCT 59.176 50.000 0.00 0.00 0.00 4.24
341 387 0.931005 GTTTCCGACGATCCATCTGC 59.069 55.000 0.00 0.00 0.00 4.26
342 388 2.293677 TGTTTCCGACGATCCATCTG 57.706 50.000 0.00 0.00 0.00 2.90
352 400 3.666111 GCGTACCAAGAAATGTTTCCGAC 60.666 47.826 2.04 0.00 37.92 4.79
447 495 1.067516 CCTCACTTGTTGCCTTGTTGG 59.932 52.381 0.00 0.00 39.35 3.77
448 496 1.750778 ACCTCACTTGTTGCCTTGTTG 59.249 47.619 0.00 0.00 0.00 3.33
450 498 1.064758 TCACCTCACTTGTTGCCTTGT 60.065 47.619 0.00 0.00 0.00 3.16
451 499 1.605710 CTCACCTCACTTGTTGCCTTG 59.394 52.381 0.00 0.00 0.00 3.61
452 500 1.212935 ACTCACCTCACTTGTTGCCTT 59.787 47.619 0.00 0.00 0.00 4.35
453 501 0.839946 ACTCACCTCACTTGTTGCCT 59.160 50.000 0.00 0.00 0.00 4.75
454 502 0.947244 CACTCACCTCACTTGTTGCC 59.053 55.000 0.00 0.00 0.00 4.52
455 503 1.953559 TCACTCACCTCACTTGTTGC 58.046 50.000 0.00 0.00 0.00 4.17
456 504 3.270027 TGTTCACTCACCTCACTTGTTG 58.730 45.455 0.00 0.00 0.00 3.33
457 505 3.627395 TGTTCACTCACCTCACTTGTT 57.373 42.857 0.00 0.00 0.00 2.83
458 506 3.134623 TCATGTTCACTCACCTCACTTGT 59.865 43.478 0.00 0.00 0.00 3.16
463 511 1.693606 TGCTCATGTTCACTCACCTCA 59.306 47.619 0.00 0.00 0.00 3.86
543 887 8.610035 GGGTGTAGTGTAGCTATTTTGATTAAC 58.390 37.037 0.00 0.00 31.50 2.01
574 918 6.493802 TGCAATAACATAGCTAGTAGCCTAGT 59.506 38.462 18.65 11.28 43.77 2.57
576 920 6.911250 TGCAATAACATAGCTAGTAGCCTA 57.089 37.500 18.65 10.53 43.77 3.93
577 921 5.808366 TGCAATAACATAGCTAGTAGCCT 57.192 39.130 18.65 8.69 43.77 4.58
578 922 5.106908 GCTTGCAATAACATAGCTAGTAGCC 60.107 44.000 18.65 1.08 43.77 3.93
579 923 5.466728 TGCTTGCAATAACATAGCTAGTAGC 59.533 40.000 14.62 14.62 42.84 3.58
580 924 7.664082 ATGCTTGCAATAACATAGCTAGTAG 57.336 36.000 0.00 0.00 34.41 2.57
589 933 9.754382 CTTCCTAAAATATGCTTGCAATAACAT 57.246 29.630 0.00 7.27 0.00 2.71
592 936 9.585099 CAACTTCCTAAAATATGCTTGCAATAA 57.415 29.630 0.00 0.00 0.00 1.40
602 946 8.273780 ACTTCTGAGCAACTTCCTAAAATATG 57.726 34.615 0.00 0.00 0.00 1.78
653 1000 5.196341 TGTCGTCTCAACTTTGTGAGTAT 57.804 39.130 2.38 0.00 44.56 2.12
654 1001 4.642445 TGTCGTCTCAACTTTGTGAGTA 57.358 40.909 2.38 0.00 44.56 2.59
655 1002 3.520290 TGTCGTCTCAACTTTGTGAGT 57.480 42.857 2.38 0.00 44.56 3.41
656 1003 4.857871 TTTGTCGTCTCAACTTTGTGAG 57.142 40.909 0.00 0.00 45.44 3.51
657 1004 5.614923 TTTTTGTCGTCTCAACTTTGTGA 57.385 34.783 0.00 0.00 0.00 3.58
669 1023 4.558860 GCTTGGCTCATTATTTTTGTCGTC 59.441 41.667 0.00 0.00 0.00 4.20
671 1025 4.484236 TGCTTGGCTCATTATTTTTGTCG 58.516 39.130 0.00 0.00 0.00 4.35
705 1059 2.768492 GGAAATGCCTCTGCCTGCG 61.768 63.158 0.00 0.00 36.33 5.18
707 1061 1.481871 ATTGGAAATGCCTCTGCCTG 58.518 50.000 0.00 0.00 37.63 4.85
780 1142 2.042569 GGGGTGAAGTTATTGGGGAAGT 59.957 50.000 0.00 0.00 0.00 3.01
783 1145 1.761711 TGGGGTGAAGTTATTGGGGA 58.238 50.000 0.00 0.00 0.00 4.81
807 1173 3.631346 GGAAGAGGGAGGGAGACAGTAAT 60.631 52.174 0.00 0.00 0.00 1.89
808 1174 2.292323 GGAAGAGGGAGGGAGACAGTAA 60.292 54.545 0.00 0.00 0.00 2.24
809 1175 1.288335 GGAAGAGGGAGGGAGACAGTA 59.712 57.143 0.00 0.00 0.00 2.74
810 1176 0.041982 GGAAGAGGGAGGGAGACAGT 59.958 60.000 0.00 0.00 0.00 3.55
811 1177 0.689412 GGGAAGAGGGAGGGAGACAG 60.689 65.000 0.00 0.00 0.00 3.51
826 1192 1.679977 GCAATGGCAGAGCAGGGAA 60.680 57.895 8.83 0.00 40.72 3.97
839 1210 0.793861 GCAGCACCACAAATGCAATG 59.206 50.000 0.00 0.00 45.92 2.82
908 1285 2.034221 GTTTTGAGGGCCGGAGCT 59.966 61.111 5.05 0.00 39.73 4.09
919 1296 5.012354 AGACAGACGGTTTATAGGGTTTTGA 59.988 40.000 0.00 0.00 0.00 2.69
957 1352 1.550130 ATCTTCAACCTTCGGGCGGA 61.550 55.000 0.00 0.00 39.10 5.54
960 1355 1.095600 GGAATCTTCAACCTTCGGGC 58.904 55.000 0.00 0.00 39.10 6.13
972 1367 7.474079 GCCACTCCTCTATAGAAATGGAATCTT 60.474 40.741 18.65 1.81 0.00 2.40
980 1375 5.747248 GCCATTGCCACTCCTCTATAGAAAT 60.747 44.000 3.57 0.00 0.00 2.17
981 1376 4.444876 GCCATTGCCACTCCTCTATAGAAA 60.445 45.833 3.57 0.00 0.00 2.52
983 1378 2.634940 GCCATTGCCACTCCTCTATAGA 59.365 50.000 1.69 1.69 0.00 1.98
984 1379 2.611473 CGCCATTGCCACTCCTCTATAG 60.611 54.545 0.00 0.00 0.00 1.31
985 1380 1.344438 CGCCATTGCCACTCCTCTATA 59.656 52.381 0.00 0.00 0.00 1.31
986 1381 0.107456 CGCCATTGCCACTCCTCTAT 59.893 55.000 0.00 0.00 0.00 1.98
987 1382 0.975556 TCGCCATTGCCACTCCTCTA 60.976 55.000 0.00 0.00 0.00 2.43
988 1383 2.249413 CTCGCCATTGCCACTCCTCT 62.249 60.000 0.00 0.00 0.00 3.69
989 1384 1.817099 CTCGCCATTGCCACTCCTC 60.817 63.158 0.00 0.00 0.00 3.71
990 1385 2.270205 CTCGCCATTGCCACTCCT 59.730 61.111 0.00 0.00 0.00 3.69
991 1386 2.825836 CCTCGCCATTGCCACTCC 60.826 66.667 0.00 0.00 0.00 3.85
992 1387 2.825836 CCCTCGCCATTGCCACTC 60.826 66.667 0.00 0.00 0.00 3.51
1110 1505 2.357517 GACACACCAGCACCTCCG 60.358 66.667 0.00 0.00 0.00 4.63
1161 1559 1.211969 GTAGAACAGCTCGTCCGCA 59.788 57.895 0.00 0.00 0.00 5.69
2048 2500 4.872691 GGAGACATGAACAAGAACGATGAT 59.127 41.667 0.00 0.00 0.00 2.45
2052 2504 3.744238 TGGAGACATGAACAAGAACGA 57.256 42.857 0.00 0.00 33.40 3.85
2264 2725 1.884579 CATAGCACCATTCATCAGGCC 59.115 52.381 0.00 0.00 0.00 5.19
2266 2727 2.860009 AGCATAGCACCATTCATCAGG 58.140 47.619 0.00 0.00 0.00 3.86
2280 2741 1.123077 TCAGTGCCACCCTAGCATAG 58.877 55.000 0.00 0.00 43.29 2.23
2281 2742 0.830648 GTCAGTGCCACCCTAGCATA 59.169 55.000 0.00 0.00 43.29 3.14
2282 2743 0.911525 AGTCAGTGCCACCCTAGCAT 60.912 55.000 0.00 0.00 43.29 3.79
2425 2887 2.123982 GCATGGAGGGGGAGCAAG 60.124 66.667 0.00 0.00 0.00 4.01
2432 2894 2.761213 GGCAAAGGCATGGAGGGG 60.761 66.667 0.00 0.00 43.71 4.79
2445 2910 1.165907 CGTGGAGCAGAAGTTGGCAA 61.166 55.000 0.00 0.00 0.00 4.52
2504 2973 4.283467 TGGAGTACTAGTGCATCACAAAGT 59.717 41.667 13.75 9.04 36.74 2.66
2507 2976 4.383010 CCATGGAGTACTAGTGCATCACAA 60.383 45.833 5.56 0.00 36.74 3.33
2522 2995 2.532843 AGCAAGCATTTTCCATGGAGT 58.467 42.857 15.53 2.41 0.00 3.85
2673 3209 8.855804 AAGACTTATATTTAGGAACAGAGGGA 57.144 34.615 0.00 0.00 0.00 4.20
2674 3210 9.907229 AAAAGACTTATATTTAGGAACAGAGGG 57.093 33.333 0.00 0.00 0.00 4.30
2692 3228 9.883142 CATCTAGTGGAATCTCTAAAAAGACTT 57.117 33.333 0.00 0.00 0.00 3.01
2710 3246 4.083217 GCTCCGTATGTAGTCCATCTAGTG 60.083 50.000 0.00 0.00 34.86 2.74
2711 3247 4.073549 GCTCCGTATGTAGTCCATCTAGT 58.926 47.826 0.00 0.00 34.86 2.57
2712 3248 4.072839 TGCTCCGTATGTAGTCCATCTAG 58.927 47.826 0.00 0.00 34.86 2.43
2713 3249 4.094830 TGCTCCGTATGTAGTCCATCTA 57.905 45.455 0.00 0.00 34.86 1.98
2714 3250 2.945456 TGCTCCGTATGTAGTCCATCT 58.055 47.619 0.00 0.00 34.86 2.90
2715 3251 3.728076 TTGCTCCGTATGTAGTCCATC 57.272 47.619 0.00 0.00 34.86 3.51
2716 3252 4.481368 TTTTGCTCCGTATGTAGTCCAT 57.519 40.909 0.00 0.00 37.58 3.41
2717 3253 3.965379 TTTTGCTCCGTATGTAGTCCA 57.035 42.857 0.00 0.00 0.00 4.02
2718 3254 6.913873 TTTATTTTGCTCCGTATGTAGTCC 57.086 37.500 0.00 0.00 0.00 3.85
2719 3255 8.138365 TCATTTATTTTGCTCCGTATGTAGTC 57.862 34.615 0.00 0.00 0.00 2.59
2720 3256 8.395633 GTTCATTTATTTTGCTCCGTATGTAGT 58.604 33.333 0.00 0.00 0.00 2.73
2721 3257 7.855904 GGTTCATTTATTTTGCTCCGTATGTAG 59.144 37.037 0.00 0.00 0.00 2.74
2722 3258 7.554835 AGGTTCATTTATTTTGCTCCGTATGTA 59.445 33.333 0.00 0.00 0.00 2.29
2723 3259 6.377146 AGGTTCATTTATTTTGCTCCGTATGT 59.623 34.615 0.00 0.00 0.00 2.29
2724 3260 6.795399 AGGTTCATTTATTTTGCTCCGTATG 58.205 36.000 0.00 0.00 0.00 2.39
2725 3261 7.554835 TGTAGGTTCATTTATTTTGCTCCGTAT 59.445 33.333 0.00 0.00 0.00 3.06
2726 3262 6.879993 TGTAGGTTCATTTATTTTGCTCCGTA 59.120 34.615 0.00 0.00 0.00 4.02
2727 3263 5.708230 TGTAGGTTCATTTATTTTGCTCCGT 59.292 36.000 0.00 0.00 0.00 4.69
2728 3264 6.027749 GTGTAGGTTCATTTATTTTGCTCCG 58.972 40.000 0.00 0.00 0.00 4.63
2729 3265 7.158099 AGTGTAGGTTCATTTATTTTGCTCC 57.842 36.000 0.00 0.00 0.00 4.70
2739 3275 8.806146 AGATGCAATTTAAGTGTAGGTTCATTT 58.194 29.630 0.00 0.00 0.00 2.32
2740 3276 8.353423 AGATGCAATTTAAGTGTAGGTTCATT 57.647 30.769 0.00 0.00 0.00 2.57
2741 3277 7.944729 AGATGCAATTTAAGTGTAGGTTCAT 57.055 32.000 0.00 0.00 0.00 2.57
2751 3287 9.944376 ACGGATGTATATAGATGCAATTTAAGT 57.056 29.630 11.19 0.00 30.89 2.24
2755 3291 9.890629 ACATACGGATGTATATAGATGCAATTT 57.109 29.630 12.79 0.00 44.77 1.82
2756 3292 9.317936 CACATACGGATGTATATAGATGCAATT 57.682 33.333 14.23 0.00 44.82 2.32
2757 3293 7.928167 CCACATACGGATGTATATAGATGCAAT 59.072 37.037 14.23 2.39 44.82 3.56
2758 3294 7.093509 ACCACATACGGATGTATATAGATGCAA 60.094 37.037 14.23 0.32 44.82 4.08
2759 3295 6.379988 ACCACATACGGATGTATATAGATGCA 59.620 38.462 14.23 0.00 44.82 3.96
2760 3296 6.806751 ACCACATACGGATGTATATAGATGC 58.193 40.000 14.23 0.00 44.82 3.91
2761 3297 8.466798 TGAACCACATACGGATGTATATAGATG 58.533 37.037 14.23 0.00 44.82 2.90
2762 3298 8.589701 TGAACCACATACGGATGTATATAGAT 57.410 34.615 14.23 0.00 44.82 1.98
2763 3299 8.589701 ATGAACCACATACGGATGTATATAGA 57.410 34.615 14.23 0.00 44.82 1.98
2764 3300 9.952188 CTATGAACCACATACGGATGTATATAG 57.048 37.037 14.23 12.28 44.82 1.31
2765 3301 9.470399 ACTATGAACCACATACGGATGTATATA 57.530 33.333 14.23 7.10 44.82 0.86
2766 3302 8.362464 ACTATGAACCACATACGGATGTATAT 57.638 34.615 14.23 1.68 44.82 0.86
2767 3303 7.770366 ACTATGAACCACATACGGATGTATA 57.230 36.000 14.23 6.48 44.82 1.47
2768 3304 6.665992 ACTATGAACCACATACGGATGTAT 57.334 37.500 14.23 5.54 44.82 2.29
2769 3305 6.999871 TCTACTATGAACCACATACGGATGTA 59.000 38.462 14.23 0.00 44.82 2.29
2771 3307 6.327279 TCTACTATGAACCACATACGGATG 57.673 41.667 5.94 5.94 40.07 3.51
2772 3308 6.971726 TTCTACTATGAACCACATACGGAT 57.028 37.500 0.00 0.00 40.07 4.18
2773 3309 6.776116 AGATTCTACTATGAACCACATACGGA 59.224 38.462 0.00 0.00 40.07 4.69
2774 3310 6.982852 AGATTCTACTATGAACCACATACGG 58.017 40.000 0.00 0.00 40.07 4.02
2775 3311 7.877003 AGAGATTCTACTATGAACCACATACG 58.123 38.462 0.00 0.00 40.07 3.06
2801 3337 7.985752 CCTCCGTTCCTAAATATAAGTCTTTGT 59.014 37.037 0.00 0.00 0.00 2.83
2802 3338 7.441458 CCCTCCGTTCCTAAATATAAGTCTTTG 59.559 40.741 0.00 0.00 0.00 2.77
2803 3339 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
2804 3340 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
2805 3341 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
2806 3342 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
2807 3343 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
2808 3344 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
2809 3345 7.529555 TCTACTCCCTCCGTTCCTAAATATAA 58.470 38.462 0.00 0.00 0.00 0.98
2810 3346 7.095183 TCTACTCCCTCCGTTCCTAAATATA 57.905 40.000 0.00 0.00 0.00 0.86
2811 3347 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
2812 3348 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
2813 3349 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
2814 3350 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
2815 3351 3.744940 TTCTACTCCCTCCGTTCCTAA 57.255 47.619 0.00 0.00 0.00 2.69
2816 3352 3.053095 ACATTCTACTCCCTCCGTTCCTA 60.053 47.826 0.00 0.00 0.00 2.94
2817 3353 2.292323 ACATTCTACTCCCTCCGTTCCT 60.292 50.000 0.00 0.00 0.00 3.36
2818 3354 2.108970 ACATTCTACTCCCTCCGTTCC 58.891 52.381 0.00 0.00 0.00 3.62
2819 3355 2.159085 CCACATTCTACTCCCTCCGTTC 60.159 54.545 0.00 0.00 0.00 3.95
2820 3356 1.831736 CCACATTCTACTCCCTCCGTT 59.168 52.381 0.00 0.00 0.00 4.44
2821 3357 1.486211 CCACATTCTACTCCCTCCGT 58.514 55.000 0.00 0.00 0.00 4.69
2822 3358 0.105039 GCCACATTCTACTCCCTCCG 59.895 60.000 0.00 0.00 0.00 4.63
2823 3359 0.470341 GGCCACATTCTACTCCCTCC 59.530 60.000 0.00 0.00 0.00 4.30
2824 3360 1.204146 TGGCCACATTCTACTCCCTC 58.796 55.000 0.00 0.00 0.00 4.30
2825 3361 1.898863 ATGGCCACATTCTACTCCCT 58.101 50.000 8.16 0.00 32.00 4.20
2826 3362 2.301346 CAATGGCCACATTCTACTCCC 58.699 52.381 8.16 0.00 45.24 4.30
2827 3363 3.004752 ACAATGGCCACATTCTACTCC 57.995 47.619 8.16 0.00 45.24 3.85
2828 3364 5.186198 AGTTACAATGGCCACATTCTACTC 58.814 41.667 8.16 0.00 45.24 2.59
2829 3365 5.179452 AGTTACAATGGCCACATTCTACT 57.821 39.130 8.16 4.89 45.24 2.57
2830 3366 6.113411 ACTAGTTACAATGGCCACATTCTAC 58.887 40.000 8.16 2.22 45.24 2.59
2831 3367 6.308015 ACTAGTTACAATGGCCACATTCTA 57.692 37.500 8.16 5.84 45.24 2.10
2832 3368 5.179452 ACTAGTTACAATGGCCACATTCT 57.821 39.130 8.16 4.86 45.24 2.40
2833 3369 6.113411 ACTACTAGTTACAATGGCCACATTC 58.887 40.000 8.16 0.00 45.24 2.67
2862 3398 8.423349 TCACAAAAGTTCAAATGATTTCCTGAT 58.577 29.630 0.00 0.00 0.00 2.90
2866 3402 8.829612 ACAATCACAAAAGTTCAAATGATTTCC 58.170 29.630 0.00 0.00 35.21 3.13


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

AutoCloner maintained by Alex Coulton.