Multiple sequence alignment - TraesCS6A01G174700

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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 TraesCS6A01G174700 chr6A 100.000 2702 0 0 969 3670 188001259 187998558 0.000000e+00 4990.0
1 TraesCS6A01G174700 chr6A 100.000 711 0 0 1 711 188002227 188001517 0.000000e+00 1314.0
2 TraesCS6A01G174700 chr6A 76.240 1553 298 48 1103 2631 205114750 205116255 0.000000e+00 758.0
3 TraesCS6A01G174700 chr6D 94.881 1934 83 7 969 2896 142990121 142988198 0.000000e+00 3009.0
4 TraesCS6A01G174700 chr6D 86.684 751 48 23 1 711 142990851 142990113 0.000000e+00 785.0
5 TraesCS6A01G174700 chr6D 87.677 495 57 4 2891 3384 142985975 142985484 1.140000e-159 573.0
6 TraesCS6A01G174700 chr6D 76.506 830 161 25 1111 1929 143092300 143091494 4.380000e-114 422.0
7 TraesCS6A01G174700 chr6B 95.596 1703 62 2 969 2669 248511844 248510153 0.000000e+00 2717.0
8 TraesCS6A01G174700 chr6B 95.026 1347 65 1 1302 2646 249449107 249447761 0.000000e+00 2115.0
9 TraesCS6A01G174700 chr6B 88.851 870 74 8 1880 2744 249385677 249384826 0.000000e+00 1048.0
10 TraesCS6A01G174700 chr6B 89.726 730 48 2 1013 1742 249386425 249385723 0.000000e+00 907.0
11 TraesCS6A01G174700 chr6B 82.230 574 84 9 2813 3384 77397061 77397618 2.560000e-131 479.0
12 TraesCS6A01G174700 chr6B 88.545 323 25 8 1 313 345630980 345631300 7.440000e-102 381.0
13 TraesCS6A01G174700 chr6B 74.582 838 165 28 1103 1933 255211361 255210565 1.270000e-84 324.0
14 TraesCS6A01G174700 chr6B 90.558 233 12 3 486 711 249449545 249449316 2.140000e-77 300.0
15 TraesCS6A01G174700 chr6B 93.590 156 10 0 969 1124 249449324 249449169 2.200000e-57 233.0
16 TraesCS6A01G174700 chr6B 88.421 190 10 5 534 711 248512025 248511836 6.170000e-53 219.0
17 TraesCS6A01G174700 chr6B 90.667 150 8 2 555 698 249386575 249386426 1.040000e-45 195.0
18 TraesCS6A01G174700 chr6B 92.857 56 1 1 485 540 249386621 249386569 1.090000e-10 78.7
19 TraesCS6A01G174700 chr4D 95.322 1133 31 4 969 2099 7654991 7656103 0.000000e+00 1779.0
20 TraesCS6A01G174700 chr4D 91.822 697 44 11 2101 2786 7704370 7705064 0.000000e+00 959.0
21 TraesCS6A01G174700 chr4D 87.692 325 29 10 1 315 368504634 368504311 5.790000e-98 368.0
22 TraesCS6A01G174700 chr2A 85.490 572 80 3 2813 3382 18173354 18172784 8.770000e-166 593.0
23 TraesCS6A01G174700 chr3D 83.016 577 93 4 2811 3384 380491678 380492252 5.430000e-143 518.0
24 TraesCS6A01G174700 chr3D 75.618 849 163 34 1115 1936 48348771 48349602 7.440000e-102 381.0
25 TraesCS6A01G174700 chr3D 75.422 830 162 35 1121 1929 48252167 48251359 7.490000e-97 364.0
26 TraesCS6A01G174700 chr5D 83.304 575 79 9 2813 3384 236432594 236433154 7.030000e-142 514.0
27 TraesCS6A01G174700 chr5A 97.887 284 5 1 3388 3670 197293135 197292852 1.180000e-134 490.0
28 TraesCS6A01G174700 chr5A 97.173 283 7 1 3388 3670 165951366 165951085 9.220000e-131 477.0
29 TraesCS6A01G174700 chr5A 96.842 285 7 2 3388 3670 197279506 197279222 3.320000e-130 475.0
30 TraesCS6A01G174700 chr5A 96.831 284 8 1 3388 3670 152805718 152805435 1.190000e-129 473.0
31 TraesCS6A01G174700 chr5A 96.831 284 8 1 3388 3670 218023983 218023700 1.190000e-129 473.0
32 TraesCS6A01G174700 chr5A 96.479 284 9 1 3388 3670 152797264 152796981 5.550000e-128 468.0
33 TraesCS6A01G174700 chr7A 97.183 284 7 1 3388 3670 615717948 615717665 2.560000e-131 479.0
34 TraesCS6A01G174700 chr7A 96.831 284 8 1 3388 3670 615687135 615686852 1.190000e-129 473.0
35 TraesCS6A01G174700 chr7A 87.188 320 28 9 4 311 411538903 411538585 5.830000e-93 351.0
36 TraesCS6A01G174700 chr7D 82.746 539 89 2 2811 3345 530744602 530744064 9.220000e-131 477.0
37 TraesCS6A01G174700 chr7D 87.616 323 29 8 1 313 122527185 122527506 7.490000e-97 364.0
38 TraesCS6A01G174700 chr7D 84.699 366 31 15 18 371 87755905 87755553 3.510000e-90 342.0
39 TraesCS6A01G174700 chr7B 77.473 839 161 18 1103 1933 682283729 682282911 9.220000e-131 477.0
40 TraesCS6A01G174700 chr4B 82.537 544 87 8 2846 3384 617696132 617696672 4.290000e-129 472.0
41 TraesCS6A01G174700 chr3B 85.217 460 65 3 2927 3384 99473772 99474230 1.540000e-128 470.0
42 TraesCS6A01G174700 chr3B 75.270 833 161 39 1127 1933 76115201 76116014 4.510000e-94 355.0
43 TraesCS6A01G174700 chr1A 96.491 285 8 2 3387 3670 301741623 301741340 1.540000e-128 470.0
44 TraesCS6A01G174700 chr1B 81.688 557 97 5 2831 3384 554508945 554508391 3.340000e-125 459.0
45 TraesCS6A01G174700 chr5B 87.644 348 29 11 1 335 571508337 571508683 3.440000e-105 392.0
46 TraesCS6A01G174700 chr2D 84.416 385 42 15 1 371 37532836 37533216 2.690000e-96 363.0
47 TraesCS6A01G174700 chr2D 84.197 386 46 10 1 373 651642067 651642450 9.690000e-96 361.0
48 TraesCS6A01G174700 chr3A 81.618 408 72 3 2979 3384 15667750 15668156 5.870000e-88 335.0


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 TraesCS6A01G174700 chr6A 187998558 188002227 3669 True 3152.000000 4990 100.000000 1 3670 2 chr6A.!!$R1 3669
1 TraesCS6A01G174700 chr6A 205114750 205116255 1505 False 758.000000 758 76.240000 1103 2631 1 chr6A.!!$F1 1528
2 TraesCS6A01G174700 chr6D 142985484 142990851 5367 True 1455.666667 3009 89.747333 1 3384 3 chr6D.!!$R2 3383
3 TraesCS6A01G174700 chr6D 143091494 143092300 806 True 422.000000 422 76.506000 1111 1929 1 chr6D.!!$R1 818
4 TraesCS6A01G174700 chr6B 248510153 248512025 1872 True 1468.000000 2717 92.008500 534 2669 2 chr6B.!!$R2 2135
5 TraesCS6A01G174700 chr6B 249447761 249449545 1784 True 882.666667 2115 93.058000 486 2646 3 chr6B.!!$R4 2160
6 TraesCS6A01G174700 chr6B 249384826 249386621 1795 True 557.175000 1048 90.525250 485 2744 4 chr6B.!!$R3 2259
7 TraesCS6A01G174700 chr6B 77397061 77397618 557 False 479.000000 479 82.230000 2813 3384 1 chr6B.!!$F1 571
8 TraesCS6A01G174700 chr6B 255210565 255211361 796 True 324.000000 324 74.582000 1103 1933 1 chr6B.!!$R1 830
9 TraesCS6A01G174700 chr4D 7654991 7656103 1112 False 1779.000000 1779 95.322000 969 2099 1 chr4D.!!$F1 1130
10 TraesCS6A01G174700 chr4D 7704370 7705064 694 False 959.000000 959 91.822000 2101 2786 1 chr4D.!!$F2 685
11 TraesCS6A01G174700 chr2A 18172784 18173354 570 True 593.000000 593 85.490000 2813 3382 1 chr2A.!!$R1 569
12 TraesCS6A01G174700 chr3D 380491678 380492252 574 False 518.000000 518 83.016000 2811 3384 1 chr3D.!!$F2 573
13 TraesCS6A01G174700 chr3D 48348771 48349602 831 False 381.000000 381 75.618000 1115 1936 1 chr3D.!!$F1 821
14 TraesCS6A01G174700 chr3D 48251359 48252167 808 True 364.000000 364 75.422000 1121 1929 1 chr3D.!!$R1 808
15 TraesCS6A01G174700 chr5D 236432594 236433154 560 False 514.000000 514 83.304000 2813 3384 1 chr5D.!!$F1 571
16 TraesCS6A01G174700 chr7D 530744064 530744602 538 True 477.000000 477 82.746000 2811 3345 1 chr7D.!!$R2 534
17 TraesCS6A01G174700 chr7B 682282911 682283729 818 True 477.000000 477 77.473000 1103 1933 1 chr7B.!!$R1 830
18 TraesCS6A01G174700 chr4B 617696132 617696672 540 False 472.000000 472 82.537000 2846 3384 1 chr4B.!!$F1 538
19 TraesCS6A01G174700 chr3B 76115201 76116014 813 False 355.000000 355 75.270000 1127 1933 1 chr3B.!!$F1 806
20 TraesCS6A01G174700 chr1B 554508391 554508945 554 True 459.000000 459 81.688000 2831 3384 1 chr1B.!!$R1 553

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
593 629 0.178998 GCCACAGATCTGGGATGCAT 60.179 55.000 26.95 0.0 35.61 3.96 F
679 726 2.186076 GACACTACTGCACGCTGATAC 58.814 52.381 2.69 0.0 0.00 2.24 F
710 757 2.550830 TTGAGAACTGTTGCTCCTCC 57.449 50.000 0.00 0.0 0.00 4.30 F
1051 1098 3.589654 TTCGTGCCTCTCCTTGCCG 62.590 63.158 0.00 0.0 0.00 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2027 2098 0.943835 CGAACATGTCCTGCACGTGA 60.944 55.000 22.23 3.45 43.96 4.35 R
2191 2262 1.470979 CCATGTGTACGTAGTGGAGGC 60.471 57.143 0.00 0.00 45.73 4.70 R
2202 2273 2.029290 ACTCCTTCACGACCATGTGTAC 60.029 50.000 0.00 0.00 40.74 2.90 R
2971 5285 3.784701 TTGTGGTTGTTGCGTGTTATT 57.215 38.095 0.00 0.00 0.00 1.40 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
25 26 5.497635 AAAACGCAAAAATCAAAAGGCAT 57.502 30.435 0.00 0.00 0.00 4.40
29 30 6.610741 ACGCAAAAATCAAAAGGCATAAAA 57.389 29.167 0.00 0.00 0.00 1.52
30 31 7.200778 ACGCAAAAATCAAAAGGCATAAAAT 57.799 28.000 0.00 0.00 0.00 1.82
76 77 3.976015 AGCTAGCTATAGGAGATGTCCC 58.024 50.000 17.69 0.00 45.26 4.46
91 92 7.347222 AGGAGATGTCCCTGTAAATGTATAACA 59.653 37.037 5.02 0.00 45.26 2.41
93 94 9.391006 GAGATGTCCCTGTAAATGTATAACAAA 57.609 33.333 0.00 0.00 0.00 2.83
94 95 9.920946 AGATGTCCCTGTAAATGTATAACAAAT 57.079 29.630 0.00 0.00 0.00 2.32
155 187 4.223320 TGTTTTCCAGAAAAAGCTAGCG 57.777 40.909 9.55 0.00 41.37 4.26
169 201 3.265791 AGCTAGCGATCAGGTTTCTTTG 58.734 45.455 9.55 0.00 0.00 2.77
251 287 3.853330 CGGTCATCAAGGCGCACG 61.853 66.667 10.83 0.00 0.00 5.34
253 289 2.740714 GGTCATCAAGGCGCACGAC 61.741 63.158 10.83 5.65 0.00 4.34
274 310 3.007635 CGAGGTAGGCTTTAGTTTTGGG 58.992 50.000 0.00 0.00 0.00 4.12
285 321 5.527214 GCTTTAGTTTTGGGCTTTGACAAAT 59.473 36.000 0.05 0.00 36.57 2.32
287 323 7.225734 GCTTTAGTTTTGGGCTTTGACAAATTA 59.774 33.333 0.05 0.00 36.57 1.40
288 324 9.103861 CTTTAGTTTTGGGCTTTGACAAATTAA 57.896 29.630 0.05 0.00 36.57 1.40
372 408 2.691526 TGTATGTGACATAGACGGACCC 59.308 50.000 5.37 0.00 31.20 4.46
385 421 1.951602 ACGGACCCGAAAAGAAAAAGG 59.048 47.619 16.07 0.00 42.83 3.11
386 422 1.335597 CGGACCCGAAAAGAAAAAGGC 60.336 52.381 1.54 0.00 42.83 4.35
405 441 6.622833 AAGGCAAAAAGAAATTTCCACATG 57.377 33.333 14.61 10.18 0.00 3.21
418 454 9.403110 GAAATTTCCACATGAATATCTGCATAC 57.597 33.333 6.95 0.00 31.67 2.39
424 460 7.761249 TCCACATGAATATCTGCATACGATTAG 59.239 37.037 0.00 0.00 0.00 1.73
553 589 4.989044 ACTTTGACAACCCTTTAAACGTG 58.011 39.130 0.00 0.00 0.00 4.49
570 606 0.588252 GTGTTTGACGTGAGCTGCAT 59.412 50.000 1.02 0.00 0.00 3.96
593 629 0.178998 GCCACAGATCTGGGATGCAT 60.179 55.000 26.95 0.00 35.61 3.96
679 726 2.186076 GACACTACTGCACGCTGATAC 58.814 52.381 2.69 0.00 0.00 2.24
702 749 6.058183 ACAGCTTGTATCTTTGAGAACTGTT 58.942 36.000 0.00 0.00 0.00 3.16
703 750 6.017605 ACAGCTTGTATCTTTGAGAACTGTTG 60.018 38.462 0.00 0.00 0.00 3.33
704 751 5.049129 AGCTTGTATCTTTGAGAACTGTTGC 60.049 40.000 0.00 0.00 0.00 4.17
705 752 5.049129 GCTTGTATCTTTGAGAACTGTTGCT 60.049 40.000 0.00 0.00 0.00 3.91
706 753 6.545504 TTGTATCTTTGAGAACTGTTGCTC 57.454 37.500 0.00 5.51 0.00 4.26
707 754 4.997395 TGTATCTTTGAGAACTGTTGCTCC 59.003 41.667 0.00 0.00 0.00 4.70
708 755 3.845781 TCTTTGAGAACTGTTGCTCCT 57.154 42.857 0.00 0.00 0.00 3.69
709 756 3.733337 TCTTTGAGAACTGTTGCTCCTC 58.267 45.455 0.00 0.00 0.00 3.71
710 757 2.550830 TTGAGAACTGTTGCTCCTCC 57.449 50.000 0.00 0.00 0.00 4.30
1033 1080 4.694233 CGCTCCACCTGCTGCTGT 62.694 66.667 0.00 0.00 0.00 4.40
1051 1098 3.589654 TTCGTGCCTCTCCTTGCCG 62.590 63.158 0.00 0.00 0.00 5.69
1936 2005 5.345702 TCGTTATGATTGTAAGGTCTTCCG 58.654 41.667 0.00 0.00 39.05 4.30
2027 2098 9.250246 ACTAATCTTTAGCTACTCTGTTTCTCT 57.750 33.333 0.00 0.00 0.00 3.10
2202 2273 3.417275 CTCGGCAGCCTCCACTACG 62.417 68.421 10.54 0.00 0.00 3.51
2216 2287 2.247637 CACTACGTACACATGGTCGTG 58.752 52.381 13.74 4.01 42.81 4.35
2612 2686 2.352422 GAGGCTGGCATCACCACA 59.648 61.111 3.38 0.00 46.36 4.17
2670 2744 4.246458 GCTTGTTCCTGTACCAGAGTAAG 58.754 47.826 0.00 0.00 32.44 2.34
2682 2756 9.344772 CTGTACCAGAGTAAGTAGATATCAGTT 57.655 37.037 5.32 3.44 32.44 3.16
2711 2786 1.953559 ATGCCAGCAATAACGACGAT 58.046 45.000 0.00 0.00 0.00 3.73
2740 2818 9.601217 AACAAGGAGATCTATACAAACATACAC 57.399 33.333 0.00 0.00 0.00 2.90
2782 2867 1.329171 TTGCTTTGTGGTTGCTGGCT 61.329 50.000 0.00 0.00 0.00 4.75
2822 2910 4.202080 GCTAAAAGAAACAAAACGGAGGGT 60.202 41.667 0.00 0.00 0.00 4.34
2829 2917 6.973843 AGAAACAAAACGGAGGGTAAATAAC 58.026 36.000 0.00 0.00 0.00 1.89
2834 2922 1.910671 ACGGAGGGTAAATAACTGCCA 59.089 47.619 0.00 0.00 0.00 4.92
2846 2934 8.995220 GGTAAATAACTGCCACATCGATTAATA 58.005 33.333 0.00 0.00 0.00 0.98
2884 4800 6.531503 TGCCCGATTAATTAATGGAAAACA 57.468 33.333 18.62 9.73 0.00 2.83
2888 4804 7.471399 GCCCGATTAATTAATGGAAAACAGGAT 60.471 37.037 18.62 0.00 0.00 3.24
2908 5222 8.871125 ACAGGATAAAGACCGATACAAATAGAT 58.129 33.333 0.00 0.00 0.00 1.98
2914 5228 8.964476 AAAGACCGATACAAATAGATCACATT 57.036 30.769 0.00 0.00 0.00 2.71
2920 5234 6.640907 CGATACAAATAGATCACATTCGGACA 59.359 38.462 0.00 0.00 0.00 4.02
2925 5239 3.961480 AGATCACATTCGGACAACTCA 57.039 42.857 0.00 0.00 0.00 3.41
2936 5250 5.723672 TCGGACAACTCACTAAGAAAGAT 57.276 39.130 0.00 0.00 0.00 2.40
3012 5326 0.179161 CCCTCGCACTTCTACGTCAG 60.179 60.000 0.00 0.00 0.00 3.51
3035 5349 5.843969 AGTAAGAAACCCCCAACAAAATCAT 59.156 36.000 0.00 0.00 0.00 2.45
3063 5377 2.357637 AGACAACGAACACCACCAAATG 59.642 45.455 0.00 0.00 0.00 2.32
3064 5378 2.096248 ACAACGAACACCACCAAATGT 58.904 42.857 0.00 0.00 0.00 2.71
3076 5390 3.306088 CCACCAAATGTACTGAGACGAGT 60.306 47.826 0.00 0.00 0.00 4.18
3131 5445 1.893808 CCATTAAGCAGCCGCGGAT 60.894 57.895 33.48 23.90 45.49 4.18
3168 5482 3.623453 GCCCCTTTTCTTGTCTATGCTCT 60.623 47.826 0.00 0.00 0.00 4.09
3169 5483 3.944015 CCCCTTTTCTTGTCTATGCTCTG 59.056 47.826 0.00 0.00 0.00 3.35
3173 5487 5.936956 CCTTTTCTTGTCTATGCTCTGAAGT 59.063 40.000 0.00 0.00 0.00 3.01
3188 5502 2.038295 CTGAAGTGCCTTCTTCACCTCT 59.962 50.000 13.76 0.00 45.62 3.69
3300 5615 4.559502 GCCGGAAAGCTTTTTCTTGAAGAT 60.560 41.667 14.05 0.00 0.00 2.40
3345 5660 1.697432 ACCTTCACGGTCAAAGATGGA 59.303 47.619 0.00 0.00 44.93 3.41
3346 5661 2.105821 ACCTTCACGGTCAAAGATGGAA 59.894 45.455 0.00 0.00 44.93 3.53
3384 5699 1.673168 GCCTTAGAATGAGGTGCCAG 58.327 55.000 0.00 0.00 36.63 4.85
3385 5700 1.210478 GCCTTAGAATGAGGTGCCAGA 59.790 52.381 0.00 0.00 36.63 3.86
3386 5701 2.356125 GCCTTAGAATGAGGTGCCAGAA 60.356 50.000 0.00 0.00 36.63 3.02
3387 5702 3.686691 GCCTTAGAATGAGGTGCCAGAAT 60.687 47.826 0.00 0.00 36.63 2.40
3388 5703 3.881688 CCTTAGAATGAGGTGCCAGAATG 59.118 47.826 0.00 0.00 0.00 2.67
3389 5704 4.521146 CTTAGAATGAGGTGCCAGAATGT 58.479 43.478 0.00 0.00 0.00 2.71
3390 5705 5.396772 CCTTAGAATGAGGTGCCAGAATGTA 60.397 44.000 0.00 0.00 0.00 2.29
3391 5706 4.574674 AGAATGAGGTGCCAGAATGTAA 57.425 40.909 0.00 0.00 0.00 2.41
3392 5707 4.265073 AGAATGAGGTGCCAGAATGTAAC 58.735 43.478 0.00 0.00 0.00 2.50
3393 5708 3.719268 ATGAGGTGCCAGAATGTAACA 57.281 42.857 0.00 0.00 0.00 2.41
3394 5709 3.719268 TGAGGTGCCAGAATGTAACAT 57.281 42.857 0.00 0.00 0.00 2.71
3395 5710 3.609853 TGAGGTGCCAGAATGTAACATC 58.390 45.455 0.00 0.00 32.93 3.06
3396 5711 2.945668 GAGGTGCCAGAATGTAACATCC 59.054 50.000 0.00 0.00 28.08 3.51
3397 5712 2.024414 GGTGCCAGAATGTAACATCCC 58.976 52.381 0.00 0.00 0.00 3.85
3398 5713 2.620367 GGTGCCAGAATGTAACATCCCA 60.620 50.000 0.00 0.00 0.00 4.37
3399 5714 3.088532 GTGCCAGAATGTAACATCCCAA 58.911 45.455 0.00 0.00 0.00 4.12
3400 5715 3.509575 GTGCCAGAATGTAACATCCCAAA 59.490 43.478 0.00 0.00 0.00 3.28
3401 5716 4.160252 GTGCCAGAATGTAACATCCCAAAT 59.840 41.667 0.00 0.00 0.00 2.32
3402 5717 4.776837 TGCCAGAATGTAACATCCCAAATT 59.223 37.500 0.00 0.00 0.00 1.82
3403 5718 5.248020 TGCCAGAATGTAACATCCCAAATTT 59.752 36.000 0.00 0.00 0.00 1.82
3404 5719 6.172630 GCCAGAATGTAACATCCCAAATTTT 58.827 36.000 0.00 0.00 0.00 1.82
3405 5720 6.313658 GCCAGAATGTAACATCCCAAATTTTC 59.686 38.462 0.00 0.00 0.00 2.29
3406 5721 7.385267 CCAGAATGTAACATCCCAAATTTTCA 58.615 34.615 0.00 0.00 0.00 2.69
3407 5722 7.877097 CCAGAATGTAACATCCCAAATTTTCAA 59.123 33.333 0.00 0.00 0.00 2.69
3408 5723 9.439500 CAGAATGTAACATCCCAAATTTTCAAT 57.561 29.630 0.00 0.00 0.00 2.57
3435 5750 9.506018 TTGGAATGTTATACATAGTCATCCATG 57.494 33.333 9.68 0.00 39.12 3.66
3436 5751 7.607607 TGGAATGTTATACATAGTCATCCATGC 59.392 37.037 6.21 0.00 37.97 4.06
3437 5752 7.607607 GGAATGTTATACATAGTCATCCATGCA 59.392 37.037 0.00 0.00 37.97 3.96
3438 5753 9.170734 GAATGTTATACATAGTCATCCATGCAT 57.829 33.333 0.00 0.00 37.97 3.96
3441 5756 9.822185 TGTTATACATAGTCATCCATGCATATC 57.178 33.333 0.00 0.00 0.00 1.63
3442 5757 9.822185 GTTATACATAGTCATCCATGCATATCA 57.178 33.333 0.00 0.00 0.00 2.15
3447 5762 9.916360 ACATAGTCATCCATGCATATCATATTT 57.084 29.630 0.00 0.00 33.19 1.40
3460 5775 9.356433 TGCATATCATATTTTATTTGCATTCCG 57.644 29.630 0.00 0.00 35.86 4.30
3461 5776 9.357652 GCATATCATATTTTATTTGCATTCCGT 57.642 29.630 0.00 0.00 32.42 4.69
3465 5780 7.351981 TCATATTTTATTTGCATTCCGTCTCG 58.648 34.615 0.00 0.00 0.00 4.04
3466 5781 3.398954 TTTATTTGCATTCCGTCTCGC 57.601 42.857 0.00 0.00 0.00 5.03
3467 5782 0.927537 TATTTGCATTCCGTCTCGCG 59.072 50.000 0.00 0.00 40.95 5.87
3468 5783 0.739462 ATTTGCATTCCGTCTCGCGA 60.739 50.000 9.26 9.26 44.77 5.87
3469 5784 0.739462 TTTGCATTCCGTCTCGCGAT 60.739 50.000 10.36 0.00 44.77 4.58
3470 5785 1.145759 TTGCATTCCGTCTCGCGATC 61.146 55.000 10.36 5.22 44.77 3.69
3471 5786 2.303676 GCATTCCGTCTCGCGATCC 61.304 63.158 10.36 1.53 44.77 3.36
3472 5787 1.360551 CATTCCGTCTCGCGATCCT 59.639 57.895 10.36 0.00 44.77 3.24
3473 5788 0.249073 CATTCCGTCTCGCGATCCTT 60.249 55.000 10.36 0.00 44.77 3.36
3474 5789 0.249073 ATTCCGTCTCGCGATCCTTG 60.249 55.000 10.36 0.00 44.77 3.61
3475 5790 1.310216 TTCCGTCTCGCGATCCTTGA 61.310 55.000 10.36 0.00 44.77 3.02
3476 5791 1.138883 CCGTCTCGCGATCCTTGAA 59.861 57.895 10.36 0.00 44.77 2.69
3477 5792 0.457853 CCGTCTCGCGATCCTTGAAA 60.458 55.000 10.36 0.00 44.77 2.69
3478 5793 1.560923 CGTCTCGCGATCCTTGAAAT 58.439 50.000 10.36 0.00 44.77 2.17
3479 5794 1.518929 CGTCTCGCGATCCTTGAAATC 59.481 52.381 10.36 0.00 44.77 2.17
3480 5795 1.861575 GTCTCGCGATCCTTGAAATCC 59.138 52.381 10.36 0.00 0.00 3.01
3481 5796 1.757118 TCTCGCGATCCTTGAAATCCT 59.243 47.619 10.36 0.00 0.00 3.24
3482 5797 2.956333 TCTCGCGATCCTTGAAATCCTA 59.044 45.455 10.36 0.00 0.00 2.94
3483 5798 3.383505 TCTCGCGATCCTTGAAATCCTAA 59.616 43.478 10.36 0.00 0.00 2.69
3484 5799 3.717707 TCGCGATCCTTGAAATCCTAAG 58.282 45.455 3.71 0.00 0.00 2.18
3485 5800 2.221981 CGCGATCCTTGAAATCCTAAGC 59.778 50.000 0.00 0.00 0.00 3.09
3486 5801 3.206150 GCGATCCTTGAAATCCTAAGCA 58.794 45.455 0.00 0.00 0.00 3.91
3487 5802 3.627577 GCGATCCTTGAAATCCTAAGCAA 59.372 43.478 0.00 0.00 0.00 3.91
3488 5803 4.496507 GCGATCCTTGAAATCCTAAGCAAC 60.497 45.833 0.00 0.00 0.00 4.17
3489 5804 4.878397 CGATCCTTGAAATCCTAAGCAACT 59.122 41.667 0.00 0.00 0.00 3.16
3490 5805 5.007136 CGATCCTTGAAATCCTAAGCAACTC 59.993 44.000 0.00 0.00 0.00 3.01
3491 5806 5.241403 TCCTTGAAATCCTAAGCAACTCA 57.759 39.130 0.00 0.00 0.00 3.41
3492 5807 5.630121 TCCTTGAAATCCTAAGCAACTCAA 58.370 37.500 0.00 0.00 0.00 3.02
3493 5808 5.707298 TCCTTGAAATCCTAAGCAACTCAAG 59.293 40.000 0.00 0.00 38.55 3.02
3494 5809 5.947443 CTTGAAATCCTAAGCAACTCAAGG 58.053 41.667 0.00 0.00 36.33 3.61
3495 5810 5.241403 TGAAATCCTAAGCAACTCAAGGA 57.759 39.130 0.00 0.00 42.17 3.36
3496 5811 5.003804 TGAAATCCTAAGCAACTCAAGGAC 58.996 41.667 0.00 0.00 40.83 3.85
3497 5812 3.636153 ATCCTAAGCAACTCAAGGACC 57.364 47.619 0.00 0.00 40.83 4.46
3498 5813 1.628846 TCCTAAGCAACTCAAGGACCC 59.371 52.381 0.00 0.00 33.18 4.46
3499 5814 1.630878 CCTAAGCAACTCAAGGACCCT 59.369 52.381 0.00 0.00 0.00 4.34
3500 5815 2.355209 CCTAAGCAACTCAAGGACCCTC 60.355 54.545 0.00 0.00 0.00 4.30
3501 5816 0.035458 AAGCAACTCAAGGACCCTCG 59.965 55.000 0.00 0.00 0.00 4.63
3502 5817 1.376037 GCAACTCAAGGACCCTCGG 60.376 63.158 0.00 0.00 0.00 4.63
3503 5818 1.827399 GCAACTCAAGGACCCTCGGA 61.827 60.000 0.00 0.00 0.00 4.55
3504 5819 0.247736 CAACTCAAGGACCCTCGGAG 59.752 60.000 13.11 13.11 35.13 4.63
3505 5820 0.114560 AACTCAAGGACCCTCGGAGA 59.885 55.000 18.66 3.61 33.98 3.71
3517 5832 3.711849 TCGGAGAGAGTTGGGGATT 57.288 52.632 0.00 0.00 0.00 3.01
3518 5833 1.952621 TCGGAGAGAGTTGGGGATTT 58.047 50.000 0.00 0.00 0.00 2.17
3519 5834 2.266279 TCGGAGAGAGTTGGGGATTTT 58.734 47.619 0.00 0.00 0.00 1.82
3520 5835 2.642807 TCGGAGAGAGTTGGGGATTTTT 59.357 45.455 0.00 0.00 0.00 1.94
3521 5836 3.010420 CGGAGAGAGTTGGGGATTTTTC 58.990 50.000 0.00 0.00 0.00 2.29
3522 5837 3.357203 GGAGAGAGTTGGGGATTTTTCC 58.643 50.000 0.00 0.00 0.00 3.13
3532 5847 3.755112 GGGATTTTTCCCGGTTTTCAA 57.245 42.857 0.00 0.00 40.59 2.69
3533 5848 4.074627 GGGATTTTTCCCGGTTTTCAAA 57.925 40.909 0.00 0.00 40.59 2.69
3534 5849 4.647611 GGGATTTTTCCCGGTTTTCAAAT 58.352 39.130 0.00 0.00 40.59 2.32
3535 5850 5.067273 GGGATTTTTCCCGGTTTTCAAATT 58.933 37.500 0.00 0.00 40.59 1.82
3536 5851 5.533154 GGGATTTTTCCCGGTTTTCAAATTT 59.467 36.000 0.00 0.00 40.59 1.82
3537 5852 6.434596 GGATTTTTCCCGGTTTTCAAATTTG 58.565 36.000 12.15 12.15 0.00 2.32
3538 5853 6.261158 GGATTTTTCCCGGTTTTCAAATTTGA 59.739 34.615 16.91 16.91 34.92 2.69
3539 5854 6.424176 TTTTTCCCGGTTTTCAAATTTGAC 57.576 33.333 20.35 9.88 36.83 3.18
3540 5855 5.346181 TTTCCCGGTTTTCAAATTTGACT 57.654 34.783 20.35 0.00 36.83 3.41
3541 5856 5.346181 TTCCCGGTTTTCAAATTTGACTT 57.654 34.783 20.35 0.00 36.83 3.01
3542 5857 5.346181 TCCCGGTTTTCAAATTTGACTTT 57.654 34.783 20.35 0.00 36.83 2.66
3543 5858 6.466885 TCCCGGTTTTCAAATTTGACTTTA 57.533 33.333 20.35 3.23 36.83 1.85
3544 5859 7.056844 TCCCGGTTTTCAAATTTGACTTTAT 57.943 32.000 20.35 0.00 36.83 1.40
3545 5860 7.149307 TCCCGGTTTTCAAATTTGACTTTATC 58.851 34.615 20.35 5.92 36.83 1.75
3546 5861 6.926272 CCCGGTTTTCAAATTTGACTTTATCA 59.074 34.615 20.35 1.32 36.83 2.15
3547 5862 7.439655 CCCGGTTTTCAAATTTGACTTTATCAA 59.560 33.333 20.35 7.66 45.92 2.57
3562 5877 9.443323 TGACTTTATCAAATTATGAAACGAGGA 57.557 29.630 0.00 0.00 42.54 3.71
3568 5883 8.931385 ATCAAATTATGAAACGAGGATTTTGG 57.069 30.769 0.00 0.00 42.54 3.28
3569 5884 7.891561 TCAAATTATGAAACGAGGATTTTGGT 58.108 30.769 0.00 0.00 34.30 3.67
3570 5885 8.364142 TCAAATTATGAAACGAGGATTTTGGTT 58.636 29.630 0.00 0.00 34.30 3.67
3571 5886 8.987890 CAAATTATGAAACGAGGATTTTGGTTT 58.012 29.630 0.00 0.00 35.47 3.27
3572 5887 9.554395 AAATTATGAAACGAGGATTTTGGTTTT 57.446 25.926 0.00 0.00 33.13 2.43
3573 5888 8.757164 ATTATGAAACGAGGATTTTGGTTTTC 57.243 30.769 0.00 0.00 33.13 2.29
3574 5889 5.584253 TGAAACGAGGATTTTGGTTTTCA 57.416 34.783 0.00 0.00 33.13 2.69
3575 5890 6.155475 TGAAACGAGGATTTTGGTTTTCAT 57.845 33.333 0.00 0.00 33.13 2.57
3576 5891 6.578023 TGAAACGAGGATTTTGGTTTTCATT 58.422 32.000 0.00 0.00 33.13 2.57
3577 5892 7.717568 TGAAACGAGGATTTTGGTTTTCATTA 58.282 30.769 0.00 0.00 33.13 1.90
3578 5893 8.364142 TGAAACGAGGATTTTGGTTTTCATTAT 58.636 29.630 0.00 0.00 33.13 1.28
3579 5894 9.203421 GAAACGAGGATTTTGGTTTTCATTATT 57.797 29.630 0.00 0.00 33.13 1.40
3580 5895 9.554395 AAACGAGGATTTTGGTTTTCATTATTT 57.446 25.926 0.00 0.00 28.85 1.40
3581 5896 9.554395 AACGAGGATTTTGGTTTTCATTATTTT 57.446 25.926 0.00 0.00 0.00 1.82
3582 5897 9.554395 ACGAGGATTTTGGTTTTCATTATTTTT 57.446 25.926 0.00 0.00 0.00 1.94
3589 5904 8.810652 TTTGGTTTTCATTATTTTTCTCTCCG 57.189 30.769 0.00 0.00 0.00 4.63
3590 5905 7.753309 TGGTTTTCATTATTTTTCTCTCCGA 57.247 32.000 0.00 0.00 0.00 4.55
3591 5906 8.172352 TGGTTTTCATTATTTTTCTCTCCGAA 57.828 30.769 0.00 0.00 0.00 4.30
3592 5907 8.634444 TGGTTTTCATTATTTTTCTCTCCGAAA 58.366 29.630 0.00 0.00 39.76 3.46
3593 5908 9.471084 GGTTTTCATTATTTTTCTCTCCGAAAA 57.529 29.630 0.00 0.00 46.81 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 9.841295 TTCTAGGCTACCAACGATTTATTTTAT 57.159 29.630 0.00 0.00 0.00 1.40
30 31 9.321562 CTTCTAGGCTACCAACGATTTATTTTA 57.678 33.333 0.00 0.00 0.00 1.52
64 65 8.867097 GTTATACATTTACAGGGACATCTCCTA 58.133 37.037 0.00 0.00 36.68 2.94
65 66 7.347222 TGTTATACATTTACAGGGACATCTCCT 59.653 37.037 0.00 0.00 36.68 3.69
66 67 7.506114 TGTTATACATTTACAGGGACATCTCC 58.494 38.462 0.00 0.00 35.50 3.71
91 92 7.829378 AATCGACTCGTTAGCTTTTCTATTT 57.171 32.000 0.00 0.00 0.00 1.40
93 94 7.167801 GCTAAATCGACTCGTTAGCTTTTCTAT 59.832 37.037 19.26 0.00 44.08 1.98
94 95 6.471519 GCTAAATCGACTCGTTAGCTTTTCTA 59.528 38.462 19.26 0.00 44.08 2.10
96 97 5.061808 TGCTAAATCGACTCGTTAGCTTTTC 59.938 40.000 23.59 6.16 46.41 2.29
130 162 6.507929 CGCTAGCTTTTTCTGGAAAACAAAAC 60.508 38.462 13.93 0.00 39.70 2.43
155 187 3.671716 ACCCGTACAAAGAAACCTGATC 58.328 45.455 0.00 0.00 0.00 2.92
169 201 0.819582 TGGTTGCTAGCTACCCGTAC 59.180 55.000 35.32 17.49 40.30 3.67
198 230 5.600669 TCTGATAACTAGCTCCCCTCATA 57.399 43.478 0.00 0.00 0.00 2.15
199 231 4.477536 TCTGATAACTAGCTCCCCTCAT 57.522 45.455 0.00 0.00 0.00 2.90
200 232 3.973472 TCTGATAACTAGCTCCCCTCA 57.027 47.619 0.00 0.00 0.00 3.86
201 233 5.546526 CAAATCTGATAACTAGCTCCCCTC 58.453 45.833 0.00 0.00 0.00 4.30
202 234 4.202409 GCAAATCTGATAACTAGCTCCCCT 60.202 45.833 0.00 0.00 0.00 4.79
204 236 4.708177 TGCAAATCTGATAACTAGCTCCC 58.292 43.478 0.00 0.00 0.00 4.30
205 237 9.311916 CTATATGCAAATCTGATAACTAGCTCC 57.688 37.037 0.00 0.00 0.00 4.70
214 246 4.225042 ACCGGCCTATATGCAAATCTGATA 59.775 41.667 0.00 0.00 0.00 2.15
216 248 2.371841 ACCGGCCTATATGCAAATCTGA 59.628 45.455 0.00 0.00 0.00 3.27
251 287 3.683340 CCAAAACTAAAGCCTACCTCGTC 59.317 47.826 0.00 0.00 0.00 4.20
253 289 3.007635 CCCAAAACTAAAGCCTACCTCG 58.992 50.000 0.00 0.00 0.00 4.63
261 297 4.053469 TGTCAAAGCCCAAAACTAAAGC 57.947 40.909 0.00 0.00 0.00 3.51
262 298 7.552458 AATTTGTCAAAGCCCAAAACTAAAG 57.448 32.000 4.03 0.00 34.52 1.85
300 336 9.567776 TGTCAATGTCACCTTATTTCTTTTCTA 57.432 29.630 0.00 0.00 0.00 2.10
352 388 2.287427 CGGGTCCGTCTATGTCACATAC 60.287 54.545 0.00 0.00 34.35 2.39
372 408 8.894409 AATTTCTTTTTGCCTTTTTCTTTTCG 57.106 26.923 0.00 0.00 0.00 3.46
385 421 9.977762 GATATTCATGTGGAAATTTCTTTTTGC 57.022 29.630 17.42 0.91 39.39 3.68
405 441 8.694975 ATGTCACTAATCGTATGCAGATATTC 57.305 34.615 0.00 0.00 0.00 1.75
553 589 3.482786 CTTTATGCAGCTCACGTCAAAC 58.517 45.455 0.00 0.00 0.00 2.93
570 606 2.421952 GCATCCCAGATCTGTGGCTTTA 60.422 50.000 21.11 6.85 36.11 1.85
654 701 0.721718 GCGTGCAGTAGTGTCAATCC 59.278 55.000 0.00 0.00 0.00 3.01
679 726 6.369005 CAACAGTTCTCAAAGATACAAGCTG 58.631 40.000 0.00 0.00 0.00 4.24
1033 1080 2.347490 GGCAAGGAGAGGCACGAA 59.653 61.111 0.00 0.00 0.00 3.85
1051 1098 3.800604 GCGAAGAGAATGAGGGGTATGAC 60.801 52.174 0.00 0.00 0.00 3.06
1221 1274 1.016130 CGAAACGGAGCAGCATCAGT 61.016 55.000 0.00 0.00 0.00 3.41
2027 2098 0.943835 CGAACATGTCCTGCACGTGA 60.944 55.000 22.23 3.45 43.96 4.35
2191 2262 1.470979 CCATGTGTACGTAGTGGAGGC 60.471 57.143 0.00 0.00 45.73 4.70
2202 2273 2.029290 ACTCCTTCACGACCATGTGTAC 60.029 50.000 0.00 0.00 40.74 2.90
2682 2756 6.015772 TCGTTATTGCTGGCATAGTAGTGATA 60.016 38.462 0.00 0.00 0.00 2.15
2769 2854 3.895232 TTTTTAAAGCCAGCAACCACA 57.105 38.095 0.00 0.00 0.00 4.17
2806 2891 6.859508 CAGTTATTTACCCTCCGTTTTGTTTC 59.140 38.462 0.00 0.00 0.00 2.78
2829 2917 9.817365 CTTCTTAATTATTAATCGATGTGGCAG 57.183 33.333 0.00 0.00 0.00 4.85
2884 4800 9.090103 TGATCTATTTGTATCGGTCTTTATCCT 57.910 33.333 0.00 0.00 0.00 3.24
2908 5222 4.279922 TCTTAGTGAGTTGTCCGAATGTGA 59.720 41.667 0.00 0.00 0.00 3.58
2914 5228 5.723672 ATCTTTCTTAGTGAGTTGTCCGA 57.276 39.130 0.00 0.00 0.00 4.55
2920 5234 9.646427 GTCATGAAGTATCTTTCTTAGTGAGTT 57.354 33.333 0.00 0.00 0.00 3.01
2925 5239 6.443849 TGGGGTCATGAAGTATCTTTCTTAGT 59.556 38.462 0.00 0.00 0.00 2.24
2967 5281 6.555812 TGTGGTTGTTGCGTGTTATTTATA 57.444 33.333 0.00 0.00 0.00 0.98
2971 5285 3.784701 TTGTGGTTGTTGCGTGTTATT 57.215 38.095 0.00 0.00 0.00 1.40
3012 5326 5.538849 TGATTTTGTTGGGGGTTTCTTAC 57.461 39.130 0.00 0.00 0.00 2.34
3063 5377 2.676839 TCCGATTGACTCGTCTCAGTAC 59.323 50.000 0.00 0.00 46.18 2.73
3064 5378 2.937149 CTCCGATTGACTCGTCTCAGTA 59.063 50.000 0.00 0.00 46.18 2.74
3076 5390 0.459899 CGACCACCATCTCCGATTGA 59.540 55.000 0.00 0.00 0.00 2.57
3173 5487 3.795688 ATCAAAGAGGTGAAGAAGGCA 57.204 42.857 0.00 0.00 0.00 4.75
3188 5502 4.072131 AGGCTTCTACGAGCAAAATCAAA 58.928 39.130 0.00 0.00 44.49 2.69
3409 5724 9.506018 CATGGATGACTATGTATAACATTCCAA 57.494 33.333 12.13 1.04 41.27 3.53
3410 5725 7.607607 GCATGGATGACTATGTATAACATTCCA 59.392 37.037 11.02 11.02 41.80 3.53
3411 5726 7.607607 TGCATGGATGACTATGTATAACATTCC 59.392 37.037 0.00 0.02 39.88 3.01
3412 5727 8.552083 TGCATGGATGACTATGTATAACATTC 57.448 34.615 0.00 0.00 39.88 2.67
3415 5730 9.822185 GATATGCATGGATGACTATGTATAACA 57.178 33.333 10.16 0.00 42.12 2.41
3416 5731 9.822185 TGATATGCATGGATGACTATGTATAAC 57.178 33.333 10.16 0.00 42.12 1.89
3421 5736 9.916360 AAATATGATATGCATGGATGACTATGT 57.084 29.630 10.16 0.00 37.87 2.29
3434 5749 9.356433 CGGAATGCAAATAAAATATGATATGCA 57.644 29.630 0.00 0.00 45.36 3.96
3435 5750 9.357652 ACGGAATGCAAATAAAATATGATATGC 57.642 29.630 0.00 0.00 0.00 3.14
3439 5754 8.017373 CGAGACGGAATGCAAATAAAATATGAT 58.983 33.333 0.00 0.00 0.00 2.45
3440 5755 7.351981 CGAGACGGAATGCAAATAAAATATGA 58.648 34.615 0.00 0.00 0.00 2.15
3441 5756 6.086765 GCGAGACGGAATGCAAATAAAATATG 59.913 38.462 0.00 0.00 0.00 1.78
3442 5757 6.142817 GCGAGACGGAATGCAAATAAAATAT 58.857 36.000 0.00 0.00 0.00 1.28
3443 5758 5.507077 GCGAGACGGAATGCAAATAAAATA 58.493 37.500 0.00 0.00 0.00 1.40
3444 5759 4.351192 GCGAGACGGAATGCAAATAAAAT 58.649 39.130 0.00 0.00 0.00 1.82
3445 5760 3.726486 CGCGAGACGGAATGCAAATAAAA 60.726 43.478 0.00 0.00 38.44 1.52
3446 5761 2.222931 CGCGAGACGGAATGCAAATAAA 60.223 45.455 0.00 0.00 38.44 1.40
3447 5762 1.326245 CGCGAGACGGAATGCAAATAA 59.674 47.619 0.00 0.00 38.44 1.40
3448 5763 0.927537 CGCGAGACGGAATGCAAATA 59.072 50.000 0.00 0.00 38.44 1.40
3449 5764 0.739462 TCGCGAGACGGAATGCAAAT 60.739 50.000 3.71 0.00 43.89 2.32
3450 5765 0.739462 ATCGCGAGACGGAATGCAAA 60.739 50.000 16.66 0.00 46.97 3.68
3451 5766 1.145759 GATCGCGAGACGGAATGCAA 61.146 55.000 16.66 0.00 46.97 4.08
3452 5767 1.588932 GATCGCGAGACGGAATGCA 60.589 57.895 16.66 0.00 46.97 3.96
3453 5768 2.303676 GGATCGCGAGACGGAATGC 61.304 63.158 16.66 0.00 46.97 3.56
3454 5769 0.249073 AAGGATCGCGAGACGGAATG 60.249 55.000 16.66 0.00 46.97 2.67
3455 5770 0.249073 CAAGGATCGCGAGACGGAAT 60.249 55.000 16.66 0.00 46.97 3.01
3456 5771 1.138883 CAAGGATCGCGAGACGGAA 59.861 57.895 16.66 0.00 46.97 4.30
3457 5772 1.310216 TTCAAGGATCGCGAGACGGA 61.310 55.000 16.66 10.12 46.97 4.69
3458 5773 0.457853 TTTCAAGGATCGCGAGACGG 60.458 55.000 16.66 7.94 46.97 4.79
3459 5774 1.518929 GATTTCAAGGATCGCGAGACG 59.481 52.381 16.66 0.89 46.97 4.18
3460 5775 1.861575 GGATTTCAAGGATCGCGAGAC 59.138 52.381 16.66 10.04 46.97 3.36
3462 5777 2.231215 AGGATTTCAAGGATCGCGAG 57.769 50.000 16.66 0.00 0.00 5.03
3463 5778 3.717707 CTTAGGATTTCAAGGATCGCGA 58.282 45.455 13.09 13.09 0.00 5.87
3464 5779 2.221981 GCTTAGGATTTCAAGGATCGCG 59.778 50.000 0.00 0.00 0.00 5.87
3465 5780 3.206150 TGCTTAGGATTTCAAGGATCGC 58.794 45.455 0.00 0.00 0.00 4.58
3466 5781 4.878397 AGTTGCTTAGGATTTCAAGGATCG 59.122 41.667 0.00 0.00 0.00 3.69
3467 5782 5.882557 TGAGTTGCTTAGGATTTCAAGGATC 59.117 40.000 0.00 0.00 0.00 3.36
3468 5783 5.819991 TGAGTTGCTTAGGATTTCAAGGAT 58.180 37.500 0.00 0.00 0.00 3.24
3469 5784 5.241403 TGAGTTGCTTAGGATTTCAAGGA 57.759 39.130 0.00 0.00 0.00 3.36
3470 5785 5.947443 CTTGAGTTGCTTAGGATTTCAAGG 58.053 41.667 14.98 3.28 37.48 3.61
3471 5786 5.707298 TCCTTGAGTTGCTTAGGATTTCAAG 59.293 40.000 15.49 15.49 39.60 3.02
3472 5787 5.473504 GTCCTTGAGTTGCTTAGGATTTCAA 59.526 40.000 0.00 1.92 38.92 2.69
3473 5788 5.003804 GTCCTTGAGTTGCTTAGGATTTCA 58.996 41.667 0.00 0.00 38.92 2.69
3474 5789 4.396478 GGTCCTTGAGTTGCTTAGGATTTC 59.604 45.833 0.00 0.00 38.92 2.17
3475 5790 4.336280 GGTCCTTGAGTTGCTTAGGATTT 58.664 43.478 0.00 0.00 38.92 2.17
3476 5791 3.308473 GGGTCCTTGAGTTGCTTAGGATT 60.308 47.826 0.00 0.00 38.92 3.01
3477 5792 2.239907 GGGTCCTTGAGTTGCTTAGGAT 59.760 50.000 0.00 0.00 38.92 3.24
3478 5793 1.628846 GGGTCCTTGAGTTGCTTAGGA 59.371 52.381 0.00 0.00 34.50 2.94
3479 5794 1.630878 AGGGTCCTTGAGTTGCTTAGG 59.369 52.381 0.00 0.00 0.00 2.69
3480 5795 2.675317 CGAGGGTCCTTGAGTTGCTTAG 60.675 54.545 0.00 0.00 0.00 2.18
3481 5796 1.275291 CGAGGGTCCTTGAGTTGCTTA 59.725 52.381 0.00 0.00 0.00 3.09
3482 5797 0.035458 CGAGGGTCCTTGAGTTGCTT 59.965 55.000 0.00 0.00 0.00 3.91
3483 5798 1.674057 CGAGGGTCCTTGAGTTGCT 59.326 57.895 0.00 0.00 0.00 3.91
3484 5799 1.376037 CCGAGGGTCCTTGAGTTGC 60.376 63.158 5.84 0.00 0.00 4.17
3485 5800 0.247736 CTCCGAGGGTCCTTGAGTTG 59.752 60.000 5.84 0.00 0.00 3.16
3486 5801 0.114560 TCTCCGAGGGTCCTTGAGTT 59.885 55.000 5.84 0.00 31.48 3.01
3487 5802 0.323908 CTCTCCGAGGGTCCTTGAGT 60.324 60.000 5.84 0.00 31.48 3.41
3488 5803 0.033991 TCTCTCCGAGGGTCCTTGAG 60.034 60.000 5.84 8.15 0.00 3.02
3489 5804 0.033991 CTCTCTCCGAGGGTCCTTGA 60.034 60.000 5.84 0.00 36.06 3.02
3490 5805 0.323908 ACTCTCTCCGAGGGTCCTTG 60.324 60.000 0.00 0.00 39.45 3.61
3491 5806 0.410270 AACTCTCTCCGAGGGTCCTT 59.590 55.000 0.00 0.00 43.29 3.36
3492 5807 0.323908 CAACTCTCTCCGAGGGTCCT 60.324 60.000 0.00 0.00 43.29 3.85
3493 5808 1.324005 CCAACTCTCTCCGAGGGTCC 61.324 65.000 0.00 0.00 43.29 4.46
3494 5809 1.324005 CCCAACTCTCTCCGAGGGTC 61.324 65.000 0.00 0.00 43.29 4.46
3495 5810 1.305381 CCCAACTCTCTCCGAGGGT 60.305 63.158 0.00 0.00 46.42 4.34
3496 5811 2.060980 CCCCAACTCTCTCCGAGGG 61.061 68.421 0.00 0.00 44.33 4.30
3497 5812 0.397816 ATCCCCAACTCTCTCCGAGG 60.398 60.000 0.00 0.00 44.33 4.63
3498 5813 1.490574 AATCCCCAACTCTCTCCGAG 58.509 55.000 0.00 0.00 45.56 4.63
3499 5814 1.952621 AAATCCCCAACTCTCTCCGA 58.047 50.000 0.00 0.00 0.00 4.55
3500 5815 2.789409 AAAATCCCCAACTCTCTCCG 57.211 50.000 0.00 0.00 0.00 4.63
3501 5816 3.357203 GGAAAAATCCCCAACTCTCTCC 58.643 50.000 0.00 0.00 0.00 3.71
3502 5817 3.357203 GGGAAAAATCCCCAACTCTCTC 58.643 50.000 2.28 0.00 44.18 3.20
3503 5818 3.458044 GGGAAAAATCCCCAACTCTCT 57.542 47.619 2.28 0.00 44.18 3.10
3512 5827 3.755112 TTGAAAACCGGGAAAAATCCC 57.245 42.857 6.32 3.70 46.43 3.85
3513 5828 6.261158 TCAAATTTGAAAACCGGGAAAAATCC 59.739 34.615 18.45 0.00 33.55 3.01
3514 5829 7.011950 AGTCAAATTTGAAAACCGGGAAAAATC 59.988 33.333 22.07 4.56 39.21 2.17
3515 5830 6.826231 AGTCAAATTTGAAAACCGGGAAAAAT 59.174 30.769 22.07 1.68 39.21 1.82
3516 5831 6.174049 AGTCAAATTTGAAAACCGGGAAAAA 58.826 32.000 22.07 0.00 39.21 1.94
3517 5832 5.735766 AGTCAAATTTGAAAACCGGGAAAA 58.264 33.333 22.07 0.00 39.21 2.29
3518 5833 5.346181 AGTCAAATTTGAAAACCGGGAAA 57.654 34.783 22.07 0.00 39.21 3.13
3519 5834 5.346181 AAGTCAAATTTGAAAACCGGGAA 57.654 34.783 22.07 0.00 39.21 3.97
3520 5835 5.346181 AAAGTCAAATTTGAAAACCGGGA 57.654 34.783 22.07 0.00 39.21 5.14
3521 5836 6.926272 TGATAAAGTCAAATTTGAAAACCGGG 59.074 34.615 22.07 0.00 39.21 5.73
3522 5837 7.938563 TGATAAAGTCAAATTTGAAAACCGG 57.061 32.000 22.07 0.00 39.21 5.28
3536 5851 9.443323 TCCTCGTTTCATAATTTGATAAAGTCA 57.557 29.630 0.00 0.00 33.34 3.41
3543 5858 8.531146 ACCAAAATCCTCGTTTCATAATTTGAT 58.469 29.630 0.00 0.00 33.34 2.57
3544 5859 7.891561 ACCAAAATCCTCGTTTCATAATTTGA 58.108 30.769 0.00 0.00 0.00 2.69
3545 5860 8.532977 AACCAAAATCCTCGTTTCATAATTTG 57.467 30.769 0.00 0.00 0.00 2.32
3546 5861 9.554395 AAAACCAAAATCCTCGTTTCATAATTT 57.446 25.926 0.00 0.00 0.00 1.82
3547 5862 9.203421 GAAAACCAAAATCCTCGTTTCATAATT 57.797 29.630 0.00 0.00 0.00 1.40
3548 5863 8.364142 TGAAAACCAAAATCCTCGTTTCATAAT 58.636 29.630 0.00 0.00 0.00 1.28
3549 5864 7.717568 TGAAAACCAAAATCCTCGTTTCATAA 58.282 30.769 0.00 0.00 0.00 1.90
3550 5865 7.278461 TGAAAACCAAAATCCTCGTTTCATA 57.722 32.000 0.00 0.00 0.00 2.15
3551 5866 6.155475 TGAAAACCAAAATCCTCGTTTCAT 57.845 33.333 0.00 0.00 0.00 2.57
3552 5867 5.584253 TGAAAACCAAAATCCTCGTTTCA 57.416 34.783 0.00 0.00 0.00 2.69
3553 5868 8.757164 ATAATGAAAACCAAAATCCTCGTTTC 57.243 30.769 0.00 0.00 0.00 2.78
3554 5869 9.554395 AAATAATGAAAACCAAAATCCTCGTTT 57.446 25.926 0.00 0.00 0.00 3.60
3555 5870 9.554395 AAAATAATGAAAACCAAAATCCTCGTT 57.446 25.926 0.00 0.00 0.00 3.85
3556 5871 9.554395 AAAAATAATGAAAACCAAAATCCTCGT 57.446 25.926 0.00 0.00 0.00 4.18
3563 5878 9.255304 CGGAGAGAAAAATAATGAAAACCAAAA 57.745 29.630 0.00 0.00 0.00 2.44
3564 5879 8.634444 TCGGAGAGAAAAATAATGAAAACCAAA 58.366 29.630 0.00 0.00 0.00 3.28
3565 5880 8.172352 TCGGAGAGAAAAATAATGAAAACCAA 57.828 30.769 0.00 0.00 0.00 3.67
3566 5881 7.753309 TCGGAGAGAAAAATAATGAAAACCA 57.247 32.000 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.