Multiple sequence alignment - TraesCS1B01G377200

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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 TraesCS1B01G377200 chr1B 100.000 3768 0 0 1 3768 608997436 608993669 0.000000e+00 6959.0
1 TraesCS1B01G377200 chr1D 91.650 2563 110 48 1140 3682 445642537 445640059 0.000000e+00 3452.0
2 TraesCS1B01G377200 chr1D 90.000 500 19 5 679 1151 445643065 445642570 5.350000e-173 617.0
3 TraesCS1B01G377200 chr1A 92.146 2050 93 39 1140 3171 541895521 541893522 0.000000e+00 2832.0
4 TraesCS1B01G377200 chr1A 92.961 483 17 7 679 1151 541896029 541895554 0.000000e+00 688.0
5 TraesCS1B01G377200 chr1A 90.213 470 28 7 3215 3682 541893521 541893068 6.970000e-167 597.0
6 TraesCS1B01G377200 chr7B 97.741 664 15 0 1 664 733834810 733834147 0.000000e+00 1144.0
7 TraesCS1B01G377200 chr7B 83.161 677 80 23 995 1643 713099497 713100167 4.190000e-164 588.0
8 TraesCS1B01G377200 chr7B 83.283 664 77 21 995 1643 679684117 679683473 7.020000e-162 580.0
9 TraesCS1B01G377200 chr7B 89.627 241 23 1 1146 1384 70243723 70243963 4.730000e-79 305.0
10 TraesCS1B01G377200 chr7B 77.011 435 66 18 2383 2787 679682716 679682286 6.340000e-53 219.0
11 TraesCS1B01G377200 chr7B 83.898 118 16 3 1001 1118 679713350 679713236 3.980000e-20 110.0
12 TraesCS1B01G377200 chr7B 90.698 43 4 0 1872 1914 643186274 643186316 1.460000e-04 58.4
13 TraesCS1B01G377200 chr7A 97.583 662 16 0 1 662 62010557 62009896 0.000000e+00 1134.0
14 TraesCS1B01G377200 chr7A 89.910 664 67 0 1 664 704480625 704481288 0.000000e+00 856.0
15 TraesCS1B01G377200 chr7A 89.667 600 60 2 1 600 522995460 522996057 0.000000e+00 763.0
16 TraesCS1B01G377200 chr7A 83.655 673 71 23 995 1643 692056503 692055846 6.970000e-167 597.0
17 TraesCS1B01G377200 chr7A 82.718 677 83 22 995 1643 712307098 712307768 4.220000e-159 571.0
18 TraesCS1B01G377200 chr7A 78.246 285 30 19 1759 2042 241735832 241735579 1.810000e-33 154.0
19 TraesCS1B01G377200 chr7A 82.114 123 19 3 996 1118 692130950 692130831 6.660000e-18 102.0
20 TraesCS1B01G377200 chr3A 95.181 664 32 0 1 664 708884798 708885461 0.000000e+00 1050.0
21 TraesCS1B01G377200 chr3A 93.534 665 41 2 1 664 728747226 728746563 0.000000e+00 989.0
22 TraesCS1B01G377200 chr3A 82.609 184 20 7 1859 2042 745434394 745434223 6.520000e-33 152.0
23 TraesCS1B01G377200 chr6A 93.373 664 44 0 1 664 558593399 558592736 0.000000e+00 983.0
24 TraesCS1B01G377200 chr6A 80.672 119 23 0 2399 2517 404698546 404698428 4.010000e-15 93.5
25 TraesCS1B01G377200 chr4A 91.867 664 54 0 1 664 552863888 552864551 0.000000e+00 928.0
26 TraesCS1B01G377200 chr4A 89.458 664 70 0 1 664 341617894 341618557 0.000000e+00 839.0
27 TraesCS1B01G377200 chr7D 83.309 677 79 23 995 1643 618679625 618680295 9.010000e-166 593.0
28 TraesCS1B01G377200 chr7D 83.588 262 29 10 1389 1643 110891116 110891370 2.260000e-57 233.0
29 TraesCS1B01G377200 chr7D 78.246 285 28 17 1759 2042 15899728 15899477 6.520000e-33 152.0
30 TraesCS1B01G377200 chrUn 91.667 228 19 0 1157 1384 16612578 16612805 2.180000e-82 316.0
31 TraesCS1B01G377200 chrUn 83.846 260 31 8 1389 1643 266170711 266170458 1.750000e-58 237.0
32 TraesCS1B01G377200 chrUn 82.609 184 20 7 1859 2042 199237155 199237326 6.520000e-33 152.0
33 TraesCS1B01G377200 chrUn 78.205 156 22 7 2381 2534 87844105 87844250 5.180000e-14 89.8
34 TraesCS1B01G377200 chrUn 78.205 156 22 7 2381 2534 213329194 213329339 5.180000e-14 89.8
35 TraesCS1B01G377200 chrUn 78.205 156 22 7 2381 2534 282191678 282191823 5.180000e-14 89.8
36 TraesCS1B01G377200 chr2D 83.846 260 31 7 1389 1643 15229217 15229470 1.750000e-58 237.0
37 TraesCS1B01G377200 chr2D 83.908 261 29 10 1389 1643 15264928 15265181 1.750000e-58 237.0
38 TraesCS1B01G377200 chr2B 87.379 206 20 4 1441 1643 27356408 27356610 8.140000e-57 231.0
39 TraesCS1B01G377200 chr2A 76.374 364 53 19 2381 2711 20552259 20552622 8.370000e-37 165.0
40 TraesCS1B01G377200 chr6B 78.246 285 28 17 1759 2042 603881800 603882051 6.520000e-33 152.0
41 TraesCS1B01G377200 chr6B 80.672 119 23 0 2399 2517 445010095 445009977 4.010000e-15 93.5
42 TraesCS1B01G377200 chr3B 82.143 168 20 6 1875 2042 139478466 139478623 6.570000e-28 135.0


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 TraesCS1B01G377200 chr1B 608993669 608997436 3767 True 6959.000000 6959 100.000000 1 3768 1 chr1B.!!$R1 3767
1 TraesCS1B01G377200 chr1D 445640059 445643065 3006 True 2034.500000 3452 90.825000 679 3682 2 chr1D.!!$R1 3003
2 TraesCS1B01G377200 chr1A 541893068 541896029 2961 True 1372.333333 2832 91.773333 679 3682 3 chr1A.!!$R1 3003
3 TraesCS1B01G377200 chr7B 733834147 733834810 663 True 1144.000000 1144 97.741000 1 664 1 chr7B.!!$R2 663
4 TraesCS1B01G377200 chr7B 713099497 713100167 670 False 588.000000 588 83.161000 995 1643 1 chr7B.!!$F3 648
5 TraesCS1B01G377200 chr7B 679682286 679684117 1831 True 399.500000 580 80.147000 995 2787 2 chr7B.!!$R3 1792
6 TraesCS1B01G377200 chr7A 62009896 62010557 661 True 1134.000000 1134 97.583000 1 662 1 chr7A.!!$R1 661
7 TraesCS1B01G377200 chr7A 704480625 704481288 663 False 856.000000 856 89.910000 1 664 1 chr7A.!!$F2 663
8 TraesCS1B01G377200 chr7A 522995460 522996057 597 False 763.000000 763 89.667000 1 600 1 chr7A.!!$F1 599
9 TraesCS1B01G377200 chr7A 692055846 692056503 657 True 597.000000 597 83.655000 995 1643 1 chr7A.!!$R3 648
10 TraesCS1B01G377200 chr7A 712307098 712307768 670 False 571.000000 571 82.718000 995 1643 1 chr7A.!!$F3 648
11 TraesCS1B01G377200 chr3A 708884798 708885461 663 False 1050.000000 1050 95.181000 1 664 1 chr3A.!!$F1 663
12 TraesCS1B01G377200 chr3A 728746563 728747226 663 True 989.000000 989 93.534000 1 664 1 chr3A.!!$R1 663
13 TraesCS1B01G377200 chr6A 558592736 558593399 663 True 983.000000 983 93.373000 1 664 1 chr6A.!!$R2 663
14 TraesCS1B01G377200 chr4A 552863888 552864551 663 False 928.000000 928 91.867000 1 664 1 chr4A.!!$F2 663
15 TraesCS1B01G377200 chr4A 341617894 341618557 663 False 839.000000 839 89.458000 1 664 1 chr4A.!!$F1 663
16 TraesCS1B01G377200 chr7D 618679625 618680295 670 False 593.000000 593 83.309000 995 1643 1 chr7D.!!$F2 648

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
666 667 0.103937 CTCCGCCCTCAGAAGTGATC 59.896 60.0 0.0 0.0 30.18 2.92 F
1104 1132 0.041833 CCTCCACCCTCTTCCTCTCA 59.958 60.0 0.0 0.0 0.00 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1597 1709 0.248907 CGTACATGACCGAGCCGAAT 60.249 55.0 0.00 0.0 0.00 3.34 R
2959 3340 0.320421 TTTGCACTAGGGCAGACGAC 60.320 55.0 20.92 0.0 45.88 4.34 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
169 170 2.281484 ACGCAGCAACCGAACCAT 60.281 55.556 0.00 0.00 0.00 3.55
524 525 3.551659 CCAAAAGAGCCAAACTGAAGAGC 60.552 47.826 0.00 0.00 0.00 4.09
664 665 1.984570 CCTCCGCCCTCAGAAGTGA 60.985 63.158 0.00 0.00 0.00 3.41
665 666 1.333636 CCTCCGCCCTCAGAAGTGAT 61.334 60.000 0.00 0.00 30.18 3.06
666 667 0.103937 CTCCGCCCTCAGAAGTGATC 59.896 60.000 0.00 0.00 30.18 2.92
667 668 0.614697 TCCGCCCTCAGAAGTGATCA 60.615 55.000 0.00 0.00 30.18 2.92
668 669 0.467384 CCGCCCTCAGAAGTGATCAT 59.533 55.000 0.00 0.00 30.18 2.45
669 670 1.688735 CCGCCCTCAGAAGTGATCATA 59.311 52.381 0.00 0.00 30.18 2.15
670 671 2.301296 CCGCCCTCAGAAGTGATCATAT 59.699 50.000 0.00 0.00 30.18 1.78
671 672 3.244353 CCGCCCTCAGAAGTGATCATATT 60.244 47.826 0.00 0.00 30.18 1.28
672 673 4.021104 CCGCCCTCAGAAGTGATCATATTA 60.021 45.833 0.00 0.00 30.18 0.98
673 674 5.337894 CCGCCCTCAGAAGTGATCATATTAT 60.338 44.000 0.00 0.00 30.18 1.28
674 675 5.809562 CGCCCTCAGAAGTGATCATATTATC 59.190 44.000 0.00 0.00 30.18 1.75
675 676 5.809562 GCCCTCAGAAGTGATCATATTATCG 59.190 44.000 0.00 0.00 30.18 2.92
676 677 6.573289 GCCCTCAGAAGTGATCATATTATCGT 60.573 42.308 0.00 0.00 30.18 3.73
677 678 7.363007 GCCCTCAGAAGTGATCATATTATCGTA 60.363 40.741 0.00 0.00 30.18 3.43
797 798 6.831976 ACCATATCAGAGTTTACCTCCATTC 58.168 40.000 0.00 0.00 41.47 2.67
804 805 5.468746 CAGAGTTTACCTCCATTCGTCAAAA 59.531 40.000 0.00 0.00 41.47 2.44
851 858 3.055819 TCAGGAAAGCCATATCCGATAGC 60.056 47.826 0.00 0.00 40.78 2.97
964 992 1.430992 TTCCCCAAGTCGTTTCCTCT 58.569 50.000 0.00 0.00 0.00 3.69
1009 1037 5.178096 TCAAGATAGCAAGATGGTTTCCA 57.822 39.130 0.00 0.00 38.19 3.53
1087 1115 0.618968 CCTCTCCCCTGTGTAAGCCT 60.619 60.000 0.00 0.00 0.00 4.58
1096 1124 0.178903 TGTGTAAGCCTCCACCCTCT 60.179 55.000 0.00 0.00 0.00 3.69
1097 1125 0.984995 GTGTAAGCCTCCACCCTCTT 59.015 55.000 0.00 0.00 0.00 2.85
1098 1126 1.066071 GTGTAAGCCTCCACCCTCTTC 60.066 57.143 0.00 0.00 0.00 2.87
1104 1132 0.041833 CCTCCACCCTCTTCCTCTCA 59.958 60.000 0.00 0.00 0.00 3.27
1110 1138 0.397816 CCCTCTTCCTCTCATCCCGT 60.398 60.000 0.00 0.00 0.00 5.28
1496 1608 3.300934 AAGATGCTCGGCGTGCTCA 62.301 57.895 30.34 15.03 0.00 4.26
1668 1780 1.194218 TCCATCGCTTGATCCACTCA 58.806 50.000 0.00 0.00 0.00 3.41
1778 1890 4.261197 CGCACCTTCCTATTTTAAGCATCC 60.261 45.833 0.00 0.00 0.00 3.51
1801 1913 7.514721 TCCTATCAAACCTGTCTAAACAAACT 58.485 34.615 0.00 0.00 34.24 2.66
1812 1924 4.740205 GTCTAAACAAACTTGCTGCCTTTC 59.260 41.667 0.00 0.00 0.00 2.62
1835 1947 2.032549 GGCCAAATCGTCATGATCTTCG 60.033 50.000 0.00 0.00 35.84 3.79
1874 1986 0.899019 ATGATGTTGCCTTGCATGCA 59.101 45.000 18.46 18.46 38.76 3.96
1951 2237 3.572682 CCCATACGTGTCCTCTGCTTATA 59.427 47.826 0.00 0.00 0.00 0.98
1985 2271 2.746277 CCGTGTAGCCAGCCAACC 60.746 66.667 0.00 0.00 0.00 3.77
1987 2273 1.377202 CGTGTAGCCAGCCAACCAT 60.377 57.895 0.00 0.00 0.00 3.55
1988 2274 1.647545 CGTGTAGCCAGCCAACCATG 61.648 60.000 0.00 0.00 0.00 3.66
2082 2375 8.930374 GGTTCACGATCTAACTAAAAACTTTC 57.070 34.615 0.00 0.00 0.00 2.62
2156 2482 5.630680 GTGTTGTAATCTTTGCATCTTGTGG 59.369 40.000 0.00 0.00 0.00 4.17
2226 2553 1.120530 AAGGATACGGTACCAGCCAG 58.879 55.000 13.54 0.00 46.39 4.85
2254 2588 2.192979 CCATCCCGTGGGTCATGG 59.807 66.667 10.39 10.39 44.79 3.66
2259 2593 3.326578 CCGTGGGTCATGGGTCCA 61.327 66.667 0.00 0.00 36.92 4.02
2260 2594 2.268920 CGTGGGTCATGGGTCCAG 59.731 66.667 0.00 0.00 0.00 3.86
2262 2596 2.209809 TGGGTCATGGGTCCAGGT 59.790 61.111 1.47 0.00 0.00 4.00
2263 2597 2.230653 TGGGTCATGGGTCCAGGTG 61.231 63.158 1.47 0.00 0.00 4.00
2282 2621 5.869888 CAGGTGGTAGAGTTCAACAATACTC 59.130 44.000 0.00 0.00 40.82 2.59
2304 2643 7.630082 ACTCCAGTTAATTAGCCAGTGAATAA 58.370 34.615 0.00 0.00 0.00 1.40
2358 2700 8.542497 TTTATGAGACGTGTGCTTTTACTAAT 57.458 30.769 0.00 0.00 0.00 1.73
2359 2701 8.542497 TTATGAGACGTGTGCTTTTACTAATT 57.458 30.769 0.00 0.00 0.00 1.40
2360 2702 9.642327 TTATGAGACGTGTGCTTTTACTAATTA 57.358 29.630 0.00 0.00 0.00 1.40
2361 2703 7.949903 TGAGACGTGTGCTTTTACTAATTAA 57.050 32.000 0.00 0.00 0.00 1.40
2373 2715 8.071967 GCTTTTACTAATTAACTGGTGAACGTT 58.928 33.333 0.00 0.00 0.00 3.99
2538 2889 5.172232 CAGTACTACAATCGCATCTTCGAAG 59.828 44.000 19.35 19.35 42.15 3.79
2560 2911 2.552031 GCCAGAGAAACGATAACTCCC 58.448 52.381 0.00 0.00 0.00 4.30
2577 2950 3.570550 ACTCCCTGCATCGATCTAACTAC 59.429 47.826 0.00 0.00 0.00 2.73
2578 2951 3.562182 TCCCTGCATCGATCTAACTACA 58.438 45.455 0.00 0.00 0.00 2.74
2579 2952 3.958147 TCCCTGCATCGATCTAACTACAA 59.042 43.478 0.00 0.00 0.00 2.41
2580 2953 4.588951 TCCCTGCATCGATCTAACTACAAT 59.411 41.667 0.00 0.00 0.00 2.71
2581 2954 4.687948 CCCTGCATCGATCTAACTACAATG 59.312 45.833 0.00 0.00 0.00 2.82
2583 2956 5.403766 CCTGCATCGATCTAACTACAATGTC 59.596 44.000 0.00 0.00 0.00 3.06
2584 2957 5.289595 TGCATCGATCTAACTACAATGTCC 58.710 41.667 0.00 0.00 0.00 4.02
2591 2971 7.974501 TCGATCTAACTACAATGTCCTCTTTTC 59.025 37.037 0.00 0.00 0.00 2.29
2623 3003 4.738998 CCCAATGGCCTCGGTGCA 62.739 66.667 3.32 0.00 0.00 4.57
2624 3004 2.676121 CCAATGGCCTCGGTGCAA 60.676 61.111 3.32 0.00 0.00 4.08
2808 3188 0.670546 CAACCGTCGCCAAGTGATCT 60.671 55.000 0.00 0.00 0.00 2.75
2842 3222 1.401905 GCAGAGAATTTTAGCCCGTGG 59.598 52.381 0.00 0.00 0.00 4.94
2850 3230 4.729227 ATTTTAGCCCGTGGTATTTTGG 57.271 40.909 0.00 0.00 0.00 3.28
2906 3287 3.117888 AGTTAATTCCGGATGATGGTGCT 60.118 43.478 4.15 0.00 0.00 4.40
2949 3330 3.136626 AGTGTGCCTGTCCTTTAGTTTCT 59.863 43.478 0.00 0.00 0.00 2.52
2959 3340 7.649306 CCTGTCCTTTAGTTTCTTGAAACATTG 59.351 37.037 22.92 12.39 35.20 2.82
2994 3375 8.753175 CCTAGTGCAAATTCGAAGTAACTATAC 58.247 37.037 3.35 0.00 0.00 1.47
3038 3419 8.425577 AAATATATATGTGCCTGAGTTATCGC 57.574 34.615 0.00 0.00 0.00 4.58
3039 3420 2.526304 TATGTGCCTGAGTTATCGCC 57.474 50.000 0.00 0.00 0.00 5.54
3040 3421 0.541392 ATGTGCCTGAGTTATCGCCA 59.459 50.000 0.00 0.00 0.00 5.69
3041 3422 0.541392 TGTGCCTGAGTTATCGCCAT 59.459 50.000 0.00 0.00 0.00 4.40
3042 3423 0.940126 GTGCCTGAGTTATCGCCATG 59.060 55.000 0.00 0.00 0.00 3.66
3043 3424 0.541392 TGCCTGAGTTATCGCCATGT 59.459 50.000 0.00 0.00 0.00 3.21
3044 3425 1.065491 TGCCTGAGTTATCGCCATGTT 60.065 47.619 0.00 0.00 0.00 2.71
3045 3426 2.017049 GCCTGAGTTATCGCCATGTTT 58.983 47.619 0.00 0.00 0.00 2.83
3046 3427 2.223340 GCCTGAGTTATCGCCATGTTTG 60.223 50.000 0.00 0.00 0.00 2.93
3047 3428 3.009723 CCTGAGTTATCGCCATGTTTGT 58.990 45.455 0.00 0.00 0.00 2.83
3048 3429 3.063997 CCTGAGTTATCGCCATGTTTGTC 59.936 47.826 0.00 0.00 0.00 3.18
3049 3430 3.669536 TGAGTTATCGCCATGTTTGTCA 58.330 40.909 0.00 0.00 0.00 3.58
3050 3431 3.435327 TGAGTTATCGCCATGTTTGTCAC 59.565 43.478 0.00 0.00 0.00 3.67
3051 3432 2.415168 AGTTATCGCCATGTTTGTCACG 59.585 45.455 0.00 0.00 0.00 4.35
3052 3433 0.724549 TATCGCCATGTTTGTCACGC 59.275 50.000 0.00 0.00 0.00 5.34
3053 3434 2.239341 ATCGCCATGTTTGTCACGCG 62.239 55.000 3.53 3.53 44.35 6.01
3054 3435 2.942879 GCCATGTTTGTCACGCGA 59.057 55.556 15.93 0.00 0.00 5.87
3055 3436 1.501741 GCCATGTTTGTCACGCGAT 59.498 52.632 15.93 0.00 0.00 4.58
3056 3437 0.521242 GCCATGTTTGTCACGCGATC 60.521 55.000 15.93 2.72 0.00 3.69
3057 3438 1.078709 CCATGTTTGTCACGCGATCT 58.921 50.000 15.93 0.00 0.00 2.75
3058 3439 1.061131 CCATGTTTGTCACGCGATCTC 59.939 52.381 15.93 0.26 0.00 2.75
3059 3440 1.995484 CATGTTTGTCACGCGATCTCT 59.005 47.619 15.93 0.00 0.00 3.10
3060 3441 1.698165 TGTTTGTCACGCGATCTCTC 58.302 50.000 15.93 0.00 0.00 3.20
3061 3442 1.000717 TGTTTGTCACGCGATCTCTCA 60.001 47.619 15.93 0.43 0.00 3.27
3062 3443 2.263077 GTTTGTCACGCGATCTCTCAT 58.737 47.619 15.93 0.00 0.00 2.90
3063 3444 3.119637 TGTTTGTCACGCGATCTCTCATA 60.120 43.478 15.93 0.00 0.00 2.15
3064 3445 2.757686 TGTCACGCGATCTCTCATAC 57.242 50.000 15.93 0.00 0.00 2.39
3065 3446 2.289565 TGTCACGCGATCTCTCATACT 58.710 47.619 15.93 0.00 0.00 2.12
3066 3447 2.683362 TGTCACGCGATCTCTCATACTT 59.317 45.455 15.93 0.00 0.00 2.24
3067 3448 3.128764 TGTCACGCGATCTCTCATACTTT 59.871 43.478 15.93 0.00 0.00 2.66
3089 3470 2.679336 TGCGTGATATGCATGATATGGC 59.321 45.455 10.16 6.49 34.76 4.40
3090 3471 2.286008 GCGTGATATGCATGATATGGCG 60.286 50.000 10.16 6.01 35.44 5.69
3132 3528 2.033448 TGGACCGGCCAACATGAC 59.967 61.111 14.27 0.00 45.87 3.06
3133 3529 2.033448 GGACCGGCCAACATGACA 59.967 61.111 0.00 0.00 36.34 3.58
3136 3532 2.270297 GACCGGCCAACATGACATGC 62.270 60.000 15.49 1.03 0.00 4.06
3159 3555 6.759827 TGCGGTGATTAAGTATTTTCTAGGAC 59.240 38.462 0.00 0.00 0.00 3.85
3211 3607 2.556559 GGTTTATCCCTGGCACTTGGAA 60.557 50.000 0.30 0.00 32.96 3.53
3238 3634 6.370994 CCATAATCACATCTGCTATCTTCCAC 59.629 42.308 0.00 0.00 0.00 4.02
3243 3639 1.794714 TCTGCTATCTTCCACCCCTC 58.205 55.000 0.00 0.00 0.00 4.30
3244 3640 1.008327 TCTGCTATCTTCCACCCCTCA 59.992 52.381 0.00 0.00 0.00 3.86
3245 3641 1.839994 CTGCTATCTTCCACCCCTCAA 59.160 52.381 0.00 0.00 0.00 3.02
3293 3694 2.881074 AGCGTGCATACAGTCTACAAG 58.119 47.619 0.00 0.00 0.00 3.16
3304 3705 1.160137 GTCTACAAGCAGCACCTTGG 58.840 55.000 17.24 4.53 44.98 3.61
3309 3710 0.524862 CAAGCAGCACCTTGGATGAC 59.475 55.000 8.11 0.00 38.78 3.06
3377 3778 7.201644 CCAATAGTTGTAGCAATACACTTGAGG 60.202 40.741 0.00 0.00 0.00 3.86
3389 3790 7.383687 CAATACACTTGAGGGTGAAACTACTA 58.616 38.462 0.00 0.00 40.13 1.82
3401 3802 5.995897 GGTGAAACTACTACCATCTTGTTGT 59.004 40.000 0.00 0.00 36.74 3.32
3402 3803 7.156673 GGTGAAACTACTACCATCTTGTTGTA 58.843 38.462 0.00 0.00 36.74 2.41
3403 3804 7.658575 GGTGAAACTACTACCATCTTGTTGTAA 59.341 37.037 0.00 0.00 36.74 2.41
3404 3805 9.048446 GTGAAACTACTACCATCTTGTTGTAAA 57.952 33.333 0.00 0.00 0.00 2.01
3405 3806 9.787435 TGAAACTACTACCATCTTGTTGTAAAT 57.213 29.630 0.00 0.00 0.00 1.40
3408 3809 8.922058 ACTACTACCATCTTGTTGTAAATACG 57.078 34.615 0.00 0.00 0.00 3.06
3409 3810 8.526147 ACTACTACCATCTTGTTGTAAATACGT 58.474 33.333 0.00 0.00 0.00 3.57
3410 3811 9.362539 CTACTACCATCTTGTTGTAAATACGTT 57.637 33.333 0.00 0.00 0.00 3.99
3411 3812 8.025243 ACTACCATCTTGTTGTAAATACGTTG 57.975 34.615 0.00 0.00 0.00 4.10
3412 3813 6.870971 ACCATCTTGTTGTAAATACGTTGT 57.129 33.333 0.00 0.00 0.00 3.32
3413 3814 7.266922 ACCATCTTGTTGTAAATACGTTGTT 57.733 32.000 0.00 0.00 0.00 2.83
3414 3815 7.136119 ACCATCTTGTTGTAAATACGTTGTTG 58.864 34.615 0.00 0.00 0.00 3.33
3421 3822 5.994887 TGTAAATACGTTGTTGCTCTTGT 57.005 34.783 0.00 0.00 0.00 3.16
3428 3829 2.351418 CGTTGTTGCTCTTGTTCAGACA 59.649 45.455 0.00 0.00 0.00 3.41
3437 3838 6.808829 TGCTCTTGTTCAGACATTCAAAAAT 58.191 32.000 0.00 0.00 35.29 1.82
3440 3841 7.306983 GCTCTTGTTCAGACATTCAAAAATTGG 60.307 37.037 0.00 0.00 35.29 3.16
3528 3929 2.825223 TGATCTTCTTCTCTGAGCCCA 58.175 47.619 0.00 0.00 0.00 5.36
3530 3931 3.584406 TGATCTTCTTCTCTGAGCCCAAA 59.416 43.478 0.00 0.00 0.00 3.28
3533 3934 2.568623 TCTTCTCTGAGCCCAAAACC 57.431 50.000 0.00 0.00 0.00 3.27
3535 3936 2.443255 TCTTCTCTGAGCCCAAAACCTT 59.557 45.455 0.00 0.00 0.00 3.50
3568 3969 3.511477 TCTTCATCCTATGGACTAGCCC 58.489 50.000 0.00 0.00 32.98 5.19
3598 3999 8.227507 AGAGGCATTTCAGTAATAAACCCATAT 58.772 33.333 0.00 0.00 0.00 1.78
3599 4000 9.515226 GAGGCATTTCAGTAATAAACCCATATA 57.485 33.333 0.00 0.00 0.00 0.86
3613 4014 5.871396 ACCCATATACAGATCTTCGTTGT 57.129 39.130 0.00 0.00 0.00 3.32
3623 4024 6.888430 ACAGATCTTCGTTGTGTTGATAAAC 58.112 36.000 0.00 0.00 0.00 2.01
3638 4041 8.612619 GTGTTGATAAACGATCTAATCCAACAT 58.387 33.333 14.67 0.00 35.37 2.71
3639 4042 9.825109 TGTTGATAAACGATCTAATCCAACATA 57.175 29.630 0.00 0.00 35.37 2.29
3694 4097 5.914898 GGTTTAAACCTCATTACTGCCAT 57.085 39.130 26.98 0.00 45.75 4.40
3695 4098 5.891451 GGTTTAAACCTCATTACTGCCATC 58.109 41.667 26.98 0.00 45.75 3.51
3696 4099 5.163550 GGTTTAAACCTCATTACTGCCATCC 60.164 44.000 26.98 0.00 45.75 3.51
3697 4100 2.332063 AACCTCATTACTGCCATCCG 57.668 50.000 0.00 0.00 0.00 4.18
3698 4101 0.179045 ACCTCATTACTGCCATCCGC 60.179 55.000 0.00 0.00 38.31 5.54
3699 4102 0.107456 CCTCATTACTGCCATCCGCT 59.893 55.000 0.00 0.00 38.78 5.52
3700 4103 1.475751 CCTCATTACTGCCATCCGCTT 60.476 52.381 0.00 0.00 38.78 4.68
3701 4104 1.869767 CTCATTACTGCCATCCGCTTC 59.130 52.381 0.00 0.00 38.78 3.86
3702 4105 1.486310 TCATTACTGCCATCCGCTTCT 59.514 47.619 0.00 0.00 38.78 2.85
3703 4106 1.869767 CATTACTGCCATCCGCTTCTC 59.130 52.381 0.00 0.00 38.78 2.87
3704 4107 0.178068 TTACTGCCATCCGCTTCTCC 59.822 55.000 0.00 0.00 38.78 3.71
3705 4108 1.686325 TACTGCCATCCGCTTCTCCC 61.686 60.000 0.00 0.00 38.78 4.30
3706 4109 3.764160 CTGCCATCCGCTTCTCCCC 62.764 68.421 0.00 0.00 38.78 4.81
3707 4110 3.797353 GCCATCCGCTTCTCCCCA 61.797 66.667 0.00 0.00 0.00 4.96
3708 4111 3.125376 GCCATCCGCTTCTCCCCAT 62.125 63.158 0.00 0.00 0.00 4.00
3709 4112 1.072159 CCATCCGCTTCTCCCCATC 59.928 63.158 0.00 0.00 0.00 3.51
3710 4113 1.072159 CATCCGCTTCTCCCCATCC 59.928 63.158 0.00 0.00 0.00 3.51
3711 4114 2.150051 ATCCGCTTCTCCCCATCCC 61.150 63.158 0.00 0.00 0.00 3.85
3712 4115 3.878667 CCGCTTCTCCCCATCCCC 61.879 72.222 0.00 0.00 0.00 4.81
3713 4116 2.770048 CGCTTCTCCCCATCCCCT 60.770 66.667 0.00 0.00 0.00 4.79
3714 4117 2.378634 CGCTTCTCCCCATCCCCTT 61.379 63.158 0.00 0.00 0.00 3.95
3715 4118 1.054406 CGCTTCTCCCCATCCCCTTA 61.054 60.000 0.00 0.00 0.00 2.69
3716 4119 0.474614 GCTTCTCCCCATCCCCTTAC 59.525 60.000 0.00 0.00 0.00 2.34
3717 4120 1.141185 CTTCTCCCCATCCCCTTACC 58.859 60.000 0.00 0.00 0.00 2.85
3718 4121 0.693092 TTCTCCCCATCCCCTTACCG 60.693 60.000 0.00 0.00 0.00 4.02
3719 4122 2.770904 TCCCCATCCCCTTACCGC 60.771 66.667 0.00 0.00 0.00 5.68
3720 4123 2.772622 CCCCATCCCCTTACCGCT 60.773 66.667 0.00 0.00 0.00 5.52
3721 4124 2.819284 CCCCATCCCCTTACCGCTC 61.819 68.421 0.00 0.00 0.00 5.03
3722 4125 1.766461 CCCATCCCCTTACCGCTCT 60.766 63.158 0.00 0.00 0.00 4.09
3723 4126 1.749033 CCATCCCCTTACCGCTCTC 59.251 63.158 0.00 0.00 0.00 3.20
3724 4127 1.048724 CCATCCCCTTACCGCTCTCA 61.049 60.000 0.00 0.00 0.00 3.27
3725 4128 0.105039 CATCCCCTTACCGCTCTCAC 59.895 60.000 0.00 0.00 0.00 3.51
3726 4129 0.032017 ATCCCCTTACCGCTCTCACT 60.032 55.000 0.00 0.00 0.00 3.41
3727 4130 0.683504 TCCCCTTACCGCTCTCACTC 60.684 60.000 0.00 0.00 0.00 3.51
3728 4131 1.677637 CCCCTTACCGCTCTCACTCC 61.678 65.000 0.00 0.00 0.00 3.85
3729 4132 1.677637 CCCTTACCGCTCTCACTCCC 61.678 65.000 0.00 0.00 0.00 4.30
3730 4133 0.684805 CCTTACCGCTCTCACTCCCT 60.685 60.000 0.00 0.00 0.00 4.20
3731 4134 1.187087 CTTACCGCTCTCACTCCCTT 58.813 55.000 0.00 0.00 0.00 3.95
3732 4135 1.135333 CTTACCGCTCTCACTCCCTTC 59.865 57.143 0.00 0.00 0.00 3.46
3733 4136 0.331954 TACCGCTCTCACTCCCTTCT 59.668 55.000 0.00 0.00 0.00 2.85
3734 4137 0.968393 ACCGCTCTCACTCCCTTCTC 60.968 60.000 0.00 0.00 0.00 2.87
3735 4138 1.671901 CCGCTCTCACTCCCTTCTCC 61.672 65.000 0.00 0.00 0.00 3.71
3736 4139 1.671901 CGCTCTCACTCCCTTCTCCC 61.672 65.000 0.00 0.00 0.00 4.30
3737 4140 1.334384 GCTCTCACTCCCTTCTCCCC 61.334 65.000 0.00 0.00 0.00 4.81
3738 4141 0.041833 CTCTCACTCCCTTCTCCCCA 59.958 60.000 0.00 0.00 0.00 4.96
3739 4142 0.719015 TCTCACTCCCTTCTCCCCAT 59.281 55.000 0.00 0.00 0.00 4.00
3740 4143 1.127343 CTCACTCCCTTCTCCCCATC 58.873 60.000 0.00 0.00 0.00 3.51
3741 4144 0.326618 TCACTCCCTTCTCCCCATCC 60.327 60.000 0.00 0.00 0.00 3.51
3742 4145 1.004891 ACTCCCTTCTCCCCATCCC 59.995 63.158 0.00 0.00 0.00 3.85
3743 4146 1.772156 CTCCCTTCTCCCCATCCCC 60.772 68.421 0.00 0.00 0.00 4.81
3744 4147 2.272170 TCCCTTCTCCCCATCCCCT 61.272 63.158 0.00 0.00 0.00 4.79
3745 4148 1.309102 CCCTTCTCCCCATCCCCTT 60.309 63.158 0.00 0.00 0.00 3.95
3746 4149 0.029059 CCCTTCTCCCCATCCCCTTA 60.029 60.000 0.00 0.00 0.00 2.69
3747 4150 1.630894 CCCTTCTCCCCATCCCCTTAA 60.631 57.143 0.00 0.00 0.00 1.85
3748 4151 2.214201 CCTTCTCCCCATCCCCTTAAA 58.786 52.381 0.00 0.00 0.00 1.52
3749 4152 2.175715 CCTTCTCCCCATCCCCTTAAAG 59.824 54.545 0.00 0.00 0.00 1.85
3750 4153 1.222567 TCTCCCCATCCCCTTAAAGC 58.777 55.000 0.00 0.00 0.00 3.51
3751 4154 0.926293 CTCCCCATCCCCTTAAAGCA 59.074 55.000 0.00 0.00 0.00 3.91
3752 4155 1.500736 CTCCCCATCCCCTTAAAGCAT 59.499 52.381 0.00 0.00 0.00 3.79
3753 4156 1.499007 TCCCCATCCCCTTAAAGCATC 59.501 52.381 0.00 0.00 0.00 3.91
3754 4157 1.500736 CCCCATCCCCTTAAAGCATCT 59.499 52.381 0.00 0.00 0.00 2.90
3755 4158 2.489802 CCCCATCCCCTTAAAGCATCTC 60.490 54.545 0.00 0.00 0.00 2.75
3756 4159 2.489802 CCCATCCCCTTAAAGCATCTCC 60.490 54.545 0.00 0.00 0.00 3.71
3757 4160 2.175499 CCATCCCCTTAAAGCATCTCCA 59.825 50.000 0.00 0.00 0.00 3.86
3758 4161 3.484407 CATCCCCTTAAAGCATCTCCAG 58.516 50.000 0.00 0.00 0.00 3.86
3759 4162 1.212935 TCCCCTTAAAGCATCTCCAGC 59.787 52.381 0.00 0.00 0.00 4.85
3760 4163 1.685148 CCCTTAAAGCATCTCCAGCC 58.315 55.000 0.00 0.00 0.00 4.85
3761 4164 1.303309 CCTTAAAGCATCTCCAGCCG 58.697 55.000 0.00 0.00 0.00 5.52
3762 4165 1.407437 CCTTAAAGCATCTCCAGCCGT 60.407 52.381 0.00 0.00 0.00 5.68
3763 4166 2.359900 CTTAAAGCATCTCCAGCCGTT 58.640 47.619 0.00 0.00 0.00 4.44
3764 4167 2.024176 TAAAGCATCTCCAGCCGTTC 57.976 50.000 0.00 0.00 0.00 3.95
3765 4168 1.021390 AAAGCATCTCCAGCCGTTCG 61.021 55.000 0.00 0.00 0.00 3.95
3766 4169 2.859273 AAGCATCTCCAGCCGTTCGG 62.859 60.000 6.90 6.90 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
598 599 6.326064 ACAGCTAAGAGTGATGATGATAAGGT 59.674 38.462 0.00 0.00 0.00 3.50
674 675 9.420551 GGAAGGTGGTTAAATCTCTTATATACG 57.579 37.037 0.00 0.00 0.00 3.06
739 740 1.946984 TCCCTACGGTCCAAGTTCAT 58.053 50.000 0.00 0.00 0.00 2.57
815 822 0.971386 TCCTGACGTGGAGGTAAACC 59.029 55.000 9.53 0.00 31.85 3.27
882 889 3.367498 GCAGAGCTTATATAGTCGTGGGG 60.367 52.174 0.00 0.00 0.00 4.96
964 992 1.592400 CCGGGAACACAGCTCGACTA 61.592 60.000 0.00 0.00 0.00 2.59
1087 1115 1.343478 GGATGAGAGGAAGAGGGTGGA 60.343 57.143 0.00 0.00 0.00 4.02
1096 1124 2.423898 GGCGACGGGATGAGAGGAA 61.424 63.158 0.00 0.00 0.00 3.36
1097 1125 2.833582 GGCGACGGGATGAGAGGA 60.834 66.667 0.00 0.00 0.00 3.71
1496 1608 4.699522 GAACAAGGCCTCGGCGGT 62.700 66.667 5.23 0.00 43.06 5.68
1597 1709 0.248907 CGTACATGACCGAGCCGAAT 60.249 55.000 0.00 0.00 0.00 3.34
1668 1780 3.543680 ACAAACGGATCGAGGATTGAT 57.456 42.857 9.72 0.00 43.46 2.57
1739 1851 3.340928 GGTGCGTGTACCTTATCCTTTT 58.659 45.455 0.00 0.00 37.74 2.27
1749 1861 2.685850 AATAGGAAGGTGCGTGTACC 57.314 50.000 0.00 0.00 41.17 3.34
1778 1890 7.591426 GCAAGTTTGTTTAGACAGGTTTGATAG 59.409 37.037 8.85 0.00 37.04 2.08
1812 1924 2.569059 AGATCATGACGATTTGGCCAG 58.431 47.619 5.11 0.00 33.17 4.85
1835 1947 4.037446 TCATGTAAAAGAACTTGGGTGTGC 59.963 41.667 0.00 0.00 0.00 4.57
1951 2237 3.388024 ACACGGGATGCAAGTACAGATAT 59.612 43.478 0.00 0.00 0.00 1.63
1985 2271 2.094700 AGAGCAACAGAAAGCATGCATG 60.095 45.455 22.70 22.70 41.18 4.06
1987 2273 1.538512 GAGAGCAACAGAAAGCATGCA 59.461 47.619 21.98 0.00 41.18 3.96
1988 2274 1.465354 CGAGAGCAACAGAAAGCATGC 60.465 52.381 10.51 10.51 39.06 4.06
2077 2367 6.291648 TCTGATGAAGTGCTAGATGAAAGT 57.708 37.500 0.00 0.00 0.00 2.66
2080 2370 7.871463 CACATATCTGATGAAGTGCTAGATGAA 59.129 37.037 0.00 0.00 31.19 2.57
2082 2375 7.116519 CACACATATCTGATGAAGTGCTAGATG 59.883 40.741 14.62 4.35 31.34 2.90
2156 2482 1.613925 GAGTTGGCAAAAGGGAAGGAC 59.386 52.381 0.00 0.00 0.00 3.85
2191 2517 8.680001 ACCGTATCCTTTTCCATTAATTACAAC 58.320 33.333 0.00 0.00 0.00 3.32
2193 2519 9.328845 GTACCGTATCCTTTTCCATTAATTACA 57.671 33.333 0.00 0.00 0.00 2.41
2194 2520 8.777413 GGTACCGTATCCTTTTCCATTAATTAC 58.223 37.037 0.00 0.00 0.00 1.89
2226 2553 0.394352 ACGGGATGGAGCCAATGTTC 60.394 55.000 0.00 0.00 0.00 3.18
2254 2588 1.640917 TGAACTCTACCACCTGGACC 58.359 55.000 0.00 0.00 38.94 4.46
2256 2590 2.684943 TGTTGAACTCTACCACCTGGA 58.315 47.619 0.00 0.00 38.94 3.86
2257 2591 3.485463 TTGTTGAACTCTACCACCTGG 57.515 47.619 0.00 0.00 42.17 4.45
2259 2593 5.046520 GGAGTATTGTTGAACTCTACCACCT 60.047 44.000 0.00 0.00 41.53 4.00
2260 2594 5.176592 GGAGTATTGTTGAACTCTACCACC 58.823 45.833 0.00 2.48 41.53 4.61
2262 2596 5.542635 ACTGGAGTATTGTTGAACTCTACCA 59.457 40.000 0.00 0.00 41.53 3.25
2263 2597 6.038997 ACTGGAGTATTGTTGAACTCTACC 57.961 41.667 0.00 0.00 41.53 3.18
2282 2621 7.865706 ACTTATTCACTGGCTAATTAACTGG 57.134 36.000 0.00 0.00 0.00 4.00
2330 2672 4.732285 AAAGCACACGTCTCATAAAGTG 57.268 40.909 0.00 0.00 40.17 3.16
2335 2677 9.642327 TTAATTAGTAAAAGCACACGTCTCATA 57.358 29.630 0.00 0.00 0.00 2.15
2358 2700 6.651643 AGCACAATATAACGTTCACCAGTTAA 59.348 34.615 2.82 0.00 36.56 2.01
2359 2701 6.091577 CAGCACAATATAACGTTCACCAGTTA 59.908 38.462 2.82 0.00 37.26 2.24
2360 2702 5.001232 AGCACAATATAACGTTCACCAGTT 58.999 37.500 2.82 0.00 0.00 3.16
2361 2703 4.391830 CAGCACAATATAACGTTCACCAGT 59.608 41.667 2.82 0.00 0.00 4.00
2484 2835 3.444034 TGTAGAGGTCGAACTTGATGAGG 59.556 47.826 3.47 0.00 0.00 3.86
2538 2889 1.588861 GAGTTATCGTTTCTCTGGCGC 59.411 52.381 0.00 0.00 0.00 6.53
2560 2911 5.403766 GGACATTGTAGTTAGATCGATGCAG 59.596 44.000 0.54 0.00 0.00 4.41
2577 2950 4.726416 CACGGAATGAAAAGAGGACATTG 58.274 43.478 0.00 0.00 34.94 2.82
2578 2951 3.191371 GCACGGAATGAAAAGAGGACATT 59.809 43.478 0.00 0.00 37.03 2.71
2579 2952 2.749621 GCACGGAATGAAAAGAGGACAT 59.250 45.455 0.00 0.00 0.00 3.06
2580 2953 2.151202 GCACGGAATGAAAAGAGGACA 58.849 47.619 0.00 0.00 0.00 4.02
2581 2954 2.151202 TGCACGGAATGAAAAGAGGAC 58.849 47.619 0.00 0.00 0.00 3.85
2583 2956 2.426522 TCTGCACGGAATGAAAAGAGG 58.573 47.619 0.00 0.00 0.00 3.69
2584 2957 3.064545 GGATCTGCACGGAATGAAAAGAG 59.935 47.826 0.00 0.00 0.00 2.85
2591 2971 0.394216 TTGGGGATCTGCACGGAATG 60.394 55.000 0.00 0.00 0.00 2.67
2656 3036 2.299521 GGAGTCGACCTGTAGTAGCAT 58.700 52.381 13.01 0.00 0.00 3.79
2749 3129 3.335579 AGCTTATTTCTCAACGGTGACC 58.664 45.455 0.00 0.00 0.00 4.02
2790 3170 0.892755 TAGATCACTTGGCGACGGTT 59.107 50.000 0.00 0.00 0.00 4.44
2791 3171 0.892755 TTAGATCACTTGGCGACGGT 59.107 50.000 0.00 0.00 0.00 4.83
2829 3209 3.449377 CCCAAAATACCACGGGCTAAAAT 59.551 43.478 0.00 0.00 0.00 1.82
2906 3287 8.251026 CACACTCAAACTATCTAACAGATACCA 58.749 37.037 0.00 0.00 36.20 3.25
2949 3330 1.606668 GGGCAGACGACAATGTTTCAA 59.393 47.619 0.00 0.00 0.00 2.69
2959 3340 0.320421 TTTGCACTAGGGCAGACGAC 60.320 55.000 20.92 0.00 45.88 4.34
3014 3395 6.986817 GGCGATAACTCAGGCACATATATATT 59.013 38.462 0.00 0.00 0.00 1.28
3015 3396 6.098266 TGGCGATAACTCAGGCACATATATAT 59.902 38.462 0.00 0.00 35.49 0.86
3028 3409 3.435327 GTGACAAACATGGCGATAACTCA 59.565 43.478 0.00 0.00 0.00 3.41
3029 3410 3.483574 CGTGACAAACATGGCGATAACTC 60.484 47.826 0.00 0.00 32.38 3.01
3030 3411 2.415168 CGTGACAAACATGGCGATAACT 59.585 45.455 0.00 0.00 32.38 2.24
3031 3412 2.769376 CGTGACAAACATGGCGATAAC 58.231 47.619 0.00 0.00 32.38 1.89
3032 3413 1.129624 GCGTGACAAACATGGCGATAA 59.870 47.619 0.00 0.00 36.16 1.75
3033 3414 0.724549 GCGTGACAAACATGGCGATA 59.275 50.000 0.00 0.00 36.16 2.92
3034 3415 1.501741 GCGTGACAAACATGGCGAT 59.498 52.632 0.00 0.00 36.16 4.58
3035 3416 2.942879 GCGTGACAAACATGGCGA 59.057 55.556 0.00 0.00 36.16 5.54
3036 3417 2.499520 CGCGTGACAAACATGGCG 60.500 61.111 0.00 0.00 43.44 5.69
3037 3418 0.521242 GATCGCGTGACAAACATGGC 60.521 55.000 5.77 0.00 36.16 4.40
3038 3419 1.061131 GAGATCGCGTGACAAACATGG 59.939 52.381 5.77 0.00 36.16 3.66
3039 3420 1.995484 AGAGATCGCGTGACAAACATG 59.005 47.619 5.77 0.00 38.43 3.21
3040 3421 2.263077 GAGAGATCGCGTGACAAACAT 58.737 47.619 5.77 0.00 0.00 2.71
3041 3422 1.000717 TGAGAGATCGCGTGACAAACA 60.001 47.619 5.77 0.00 0.00 2.83
3042 3423 1.698165 TGAGAGATCGCGTGACAAAC 58.302 50.000 5.77 0.00 0.00 2.93
3043 3424 2.654749 ATGAGAGATCGCGTGACAAA 57.345 45.000 5.77 0.00 0.00 2.83
3044 3425 2.683362 AGTATGAGAGATCGCGTGACAA 59.317 45.455 5.77 0.00 0.00 3.18
3045 3426 2.289565 AGTATGAGAGATCGCGTGACA 58.710 47.619 5.77 0.00 0.00 3.58
3046 3427 3.341857 AAGTATGAGAGATCGCGTGAC 57.658 47.619 5.77 0.00 0.00 3.67
3047 3428 4.105486 CAAAAGTATGAGAGATCGCGTGA 58.895 43.478 5.77 0.00 0.00 4.35
3048 3429 3.302092 GCAAAAGTATGAGAGATCGCGTG 60.302 47.826 5.77 0.00 0.00 5.34
3049 3430 2.860735 GCAAAAGTATGAGAGATCGCGT 59.139 45.455 5.77 0.00 0.00 6.01
3050 3431 2.097685 CGCAAAAGTATGAGAGATCGCG 60.098 50.000 0.00 0.00 0.00 5.87
3051 3432 2.860735 ACGCAAAAGTATGAGAGATCGC 59.139 45.455 0.00 0.00 0.00 4.58
3052 3433 4.105486 TCACGCAAAAGTATGAGAGATCG 58.895 43.478 0.00 0.00 0.00 3.69
3053 3434 7.621013 GCATATCACGCAAAAGTATGAGAGATC 60.621 40.741 0.00 0.00 33.85 2.75
3054 3435 6.146837 GCATATCACGCAAAAGTATGAGAGAT 59.853 38.462 0.00 0.00 35.42 2.75
3055 3436 5.463392 GCATATCACGCAAAAGTATGAGAGA 59.537 40.000 0.00 0.00 0.00 3.10
3056 3437 5.234972 TGCATATCACGCAAAAGTATGAGAG 59.765 40.000 0.00 0.00 36.17 3.20
3057 3438 5.115480 TGCATATCACGCAAAAGTATGAGA 58.885 37.500 0.00 0.00 36.17 3.27
3058 3439 5.408204 TGCATATCACGCAAAAGTATGAG 57.592 39.130 0.00 0.00 36.17 2.90
3059 3440 5.526846 TCATGCATATCACGCAAAAGTATGA 59.473 36.000 0.00 0.00 43.84 2.15
3060 3441 5.750650 TCATGCATATCACGCAAAAGTATG 58.249 37.500 0.00 0.00 43.84 2.39
3061 3442 6.564709 ATCATGCATATCACGCAAAAGTAT 57.435 33.333 0.00 0.00 43.84 2.12
3062 3443 7.361116 CCATATCATGCATATCACGCAAAAGTA 60.361 37.037 0.00 0.00 43.84 2.24
3063 3444 4.906065 ATCATGCATATCACGCAAAAGT 57.094 36.364 0.00 0.00 43.84 2.66
3064 3445 5.798434 CCATATCATGCATATCACGCAAAAG 59.202 40.000 0.00 0.00 43.84 2.27
3065 3446 5.701855 CCATATCATGCATATCACGCAAAA 58.298 37.500 0.00 0.00 43.84 2.44
3066 3447 4.379708 GCCATATCATGCATATCACGCAAA 60.380 41.667 0.00 0.00 43.84 3.68
3067 3448 3.127376 GCCATATCATGCATATCACGCAA 59.873 43.478 0.00 0.00 43.84 4.85
3132 3528 7.441157 TCCTAGAAAATACTTAATCACCGCATG 59.559 37.037 0.00 0.00 0.00 4.06
3133 3529 7.441458 GTCCTAGAAAATACTTAATCACCGCAT 59.559 37.037 0.00 0.00 0.00 4.73
3136 3532 7.980099 ACAGTCCTAGAAAATACTTAATCACCG 59.020 37.037 0.00 0.00 0.00 4.94
3159 3555 2.430332 TGAGGCCCAACAAAAAGAACAG 59.570 45.455 0.00 0.00 0.00 3.16
3211 3607 7.037802 TGGAAGATAGCAGATGTGATTATGGAT 60.038 37.037 0.00 0.00 0.00 3.41
3293 3694 0.524862 CAAGTCATCCAAGGTGCTGC 59.475 55.000 0.00 0.00 0.00 5.25
3377 3778 5.995897 ACAACAAGATGGTAGTAGTTTCACC 59.004 40.000 0.00 0.00 0.00 4.02
3389 3790 6.870971 ACAACGTATTTACAACAAGATGGT 57.129 33.333 0.00 0.00 0.00 3.55
3401 3802 6.480651 TCTGAACAAGAGCAACAACGTATTTA 59.519 34.615 0.00 0.00 0.00 1.40
3402 3803 5.295787 TCTGAACAAGAGCAACAACGTATTT 59.704 36.000 0.00 0.00 0.00 1.40
3403 3804 4.814234 TCTGAACAAGAGCAACAACGTATT 59.186 37.500 0.00 0.00 0.00 1.89
3404 3805 4.211374 GTCTGAACAAGAGCAACAACGTAT 59.789 41.667 0.00 0.00 34.84 3.06
3405 3806 3.554324 GTCTGAACAAGAGCAACAACGTA 59.446 43.478 0.00 0.00 34.84 3.57
3406 3807 2.351726 GTCTGAACAAGAGCAACAACGT 59.648 45.455 0.00 0.00 34.84 3.99
3407 3808 2.351418 TGTCTGAACAAGAGCAACAACG 59.649 45.455 0.00 0.00 34.84 4.10
3408 3809 4.558538 ATGTCTGAACAAGAGCAACAAC 57.441 40.909 0.00 0.00 39.30 3.32
3409 3810 4.639755 TGAATGTCTGAACAAGAGCAACAA 59.360 37.500 0.00 0.00 39.30 2.83
3410 3811 4.198530 TGAATGTCTGAACAAGAGCAACA 58.801 39.130 0.00 0.00 39.30 3.33
3411 3812 4.818534 TGAATGTCTGAACAAGAGCAAC 57.181 40.909 0.00 0.00 39.30 4.17
3412 3813 5.833406 TTTGAATGTCTGAACAAGAGCAA 57.167 34.783 0.00 0.00 39.30 3.91
3413 3814 5.833406 TTTTGAATGTCTGAACAAGAGCA 57.167 34.783 0.00 0.00 39.30 4.26
3414 3815 7.306983 CCAATTTTTGAATGTCTGAACAAGAGC 60.307 37.037 0.00 0.00 39.30 4.09
3421 3822 5.602145 AGGTCCCAATTTTTGAATGTCTGAA 59.398 36.000 0.00 0.00 0.00 3.02
3469 3870 9.139734 AGCTTGGACAAATGATCATATTGTAAT 57.860 29.630 23.95 11.24 37.41 1.89
3556 3957 2.894731 CCTCTGATGGGCTAGTCCATA 58.105 52.381 28.68 12.81 46.67 2.74
3568 3969 7.420800 GGTTTATTACTGAAATGCCTCTGATG 58.579 38.462 0.00 0.00 0.00 3.07
3598 3999 7.148869 CGTTTATCAACACAACGAAGATCTGTA 60.149 37.037 0.00 0.00 44.85 2.74
3599 4000 6.346598 CGTTTATCAACACAACGAAGATCTGT 60.347 38.462 0.00 0.00 44.85 3.41
3608 4009 7.117454 GGATTAGATCGTTTATCAACACAACG 58.883 38.462 0.00 0.00 43.70 4.10
3613 4014 8.731275 ATGTTGGATTAGATCGTTTATCAACA 57.269 30.769 18.24 18.24 37.03 3.33
3623 4024 9.546909 GCATGTTATTTATGTTGGATTAGATCG 57.453 33.333 0.00 0.00 0.00 3.69
3638 4041 9.482627 CACCTTTGGTTTTAAGCATGTTATTTA 57.517 29.630 0.00 0.00 36.16 1.40
3639 4042 7.443879 CCACCTTTGGTTTTAAGCATGTTATTT 59.556 33.333 0.00 0.00 38.23 1.40
3640 4043 6.934083 CCACCTTTGGTTTTAAGCATGTTATT 59.066 34.615 0.00 0.00 38.23 1.40
3645 4048 3.066380 GCCACCTTTGGTTTTAAGCATG 58.934 45.455 0.00 0.00 45.98 4.06
3690 4093 3.125376 ATGGGGAGAAGCGGATGGC 62.125 63.158 0.00 0.00 44.05 4.40
3691 4094 1.072159 GATGGGGAGAAGCGGATGG 59.928 63.158 0.00 0.00 0.00 3.51
3692 4095 1.072159 GGATGGGGAGAAGCGGATG 59.928 63.158 0.00 0.00 0.00 3.51
3693 4096 2.150051 GGGATGGGGAGAAGCGGAT 61.150 63.158 0.00 0.00 0.00 4.18
3694 4097 2.768344 GGGATGGGGAGAAGCGGA 60.768 66.667 0.00 0.00 0.00 5.54
3695 4098 3.878667 GGGGATGGGGAGAAGCGG 61.879 72.222 0.00 0.00 0.00 5.52
3696 4099 1.054406 TAAGGGGATGGGGAGAAGCG 61.054 60.000 0.00 0.00 0.00 4.68
3697 4100 0.474614 GTAAGGGGATGGGGAGAAGC 59.525 60.000 0.00 0.00 0.00 3.86
3698 4101 1.141185 GGTAAGGGGATGGGGAGAAG 58.859 60.000 0.00 0.00 0.00 2.85
3699 4102 0.693092 CGGTAAGGGGATGGGGAGAA 60.693 60.000 0.00 0.00 0.00 2.87
3700 4103 1.074775 CGGTAAGGGGATGGGGAGA 60.075 63.158 0.00 0.00 0.00 3.71
3701 4104 2.819284 GCGGTAAGGGGATGGGGAG 61.819 68.421 0.00 0.00 0.00 4.30
3702 4105 2.770904 GCGGTAAGGGGATGGGGA 60.771 66.667 0.00 0.00 0.00 4.81
3703 4106 2.772622 AGCGGTAAGGGGATGGGG 60.773 66.667 0.00 0.00 0.00 4.96
3704 4107 1.759459 GAGAGCGGTAAGGGGATGGG 61.759 65.000 0.00 0.00 0.00 4.00
3705 4108 1.048724 TGAGAGCGGTAAGGGGATGG 61.049 60.000 0.00 0.00 0.00 3.51
3706 4109 0.105039 GTGAGAGCGGTAAGGGGATG 59.895 60.000 0.00 0.00 0.00 3.51
3707 4110 0.032017 AGTGAGAGCGGTAAGGGGAT 60.032 55.000 0.00 0.00 0.00 3.85
3708 4111 0.683504 GAGTGAGAGCGGTAAGGGGA 60.684 60.000 0.00 0.00 0.00 4.81
3709 4112 1.677637 GGAGTGAGAGCGGTAAGGGG 61.678 65.000 0.00 0.00 0.00 4.79
3710 4113 1.677637 GGGAGTGAGAGCGGTAAGGG 61.678 65.000 0.00 0.00 0.00 3.95
3711 4114 0.684805 AGGGAGTGAGAGCGGTAAGG 60.685 60.000 0.00 0.00 0.00 2.69
3712 4115 1.135333 GAAGGGAGTGAGAGCGGTAAG 59.865 57.143 0.00 0.00 0.00 2.34
3713 4116 1.183549 GAAGGGAGTGAGAGCGGTAA 58.816 55.000 0.00 0.00 0.00 2.85
3714 4117 0.331954 AGAAGGGAGTGAGAGCGGTA 59.668 55.000 0.00 0.00 0.00 4.02
3715 4118 0.968393 GAGAAGGGAGTGAGAGCGGT 60.968 60.000 0.00 0.00 0.00 5.68
3716 4119 1.671901 GGAGAAGGGAGTGAGAGCGG 61.672 65.000 0.00 0.00 0.00 5.52
3717 4120 1.671901 GGGAGAAGGGAGTGAGAGCG 61.672 65.000 0.00 0.00 0.00 5.03
3718 4121 1.334384 GGGGAGAAGGGAGTGAGAGC 61.334 65.000 0.00 0.00 0.00 4.09
3719 4122 0.041833 TGGGGAGAAGGGAGTGAGAG 59.958 60.000 0.00 0.00 0.00 3.20
3720 4123 0.719015 ATGGGGAGAAGGGAGTGAGA 59.281 55.000 0.00 0.00 0.00 3.27
3721 4124 1.127343 GATGGGGAGAAGGGAGTGAG 58.873 60.000 0.00 0.00 0.00 3.51
3722 4125 0.326618 GGATGGGGAGAAGGGAGTGA 60.327 60.000 0.00 0.00 0.00 3.41
3723 4126 1.348775 GGGATGGGGAGAAGGGAGTG 61.349 65.000 0.00 0.00 0.00 3.51
3724 4127 1.004891 GGGATGGGGAGAAGGGAGT 59.995 63.158 0.00 0.00 0.00 3.85
3725 4128 1.772156 GGGGATGGGGAGAAGGGAG 60.772 68.421 0.00 0.00 0.00 4.30
3726 4129 1.848835 AAGGGGATGGGGAGAAGGGA 61.849 60.000 0.00 0.00 0.00 4.20
3727 4130 0.029059 TAAGGGGATGGGGAGAAGGG 60.029 60.000 0.00 0.00 0.00 3.95
3728 4131 1.907240 TTAAGGGGATGGGGAGAAGG 58.093 55.000 0.00 0.00 0.00 3.46
3729 4132 2.423517 GCTTTAAGGGGATGGGGAGAAG 60.424 54.545 0.00 0.00 0.00 2.85
3730 4133 1.569072 GCTTTAAGGGGATGGGGAGAA 59.431 52.381 0.00 0.00 0.00 2.87
3731 4134 1.222567 GCTTTAAGGGGATGGGGAGA 58.777 55.000 0.00 0.00 0.00 3.71
3732 4135 0.926293 TGCTTTAAGGGGATGGGGAG 59.074 55.000 0.00 0.00 0.00 4.30
3733 4136 1.499007 GATGCTTTAAGGGGATGGGGA 59.501 52.381 0.00 0.00 0.00 4.81
3734 4137 1.500736 AGATGCTTTAAGGGGATGGGG 59.499 52.381 0.00 0.00 0.00 4.96
3735 4138 2.489802 GGAGATGCTTTAAGGGGATGGG 60.490 54.545 0.00 0.00 0.00 4.00
3736 4139 2.175499 TGGAGATGCTTTAAGGGGATGG 59.825 50.000 0.00 0.00 0.00 3.51
3737 4140 3.484407 CTGGAGATGCTTTAAGGGGATG 58.516 50.000 0.00 0.00 0.00 3.51
3738 4141 2.158549 GCTGGAGATGCTTTAAGGGGAT 60.159 50.000 0.00 0.00 0.00 3.85
3739 4142 1.212935 GCTGGAGATGCTTTAAGGGGA 59.787 52.381 0.00 0.00 0.00 4.81
3740 4143 1.685148 GCTGGAGATGCTTTAAGGGG 58.315 55.000 0.00 0.00 0.00 4.79
3741 4144 1.685148 GGCTGGAGATGCTTTAAGGG 58.315 55.000 0.00 0.00 0.00 3.95
3742 4145 1.303309 CGGCTGGAGATGCTTTAAGG 58.697 55.000 0.00 0.00 0.00 2.69
3743 4146 2.029838 ACGGCTGGAGATGCTTTAAG 57.970 50.000 0.00 0.00 0.00 1.85
3744 4147 2.356135 GAACGGCTGGAGATGCTTTAA 58.644 47.619 0.00 0.00 0.00 1.52
3745 4148 1.739035 CGAACGGCTGGAGATGCTTTA 60.739 52.381 0.00 0.00 0.00 1.85
3746 4149 1.021390 CGAACGGCTGGAGATGCTTT 61.021 55.000 0.00 0.00 0.00 3.51
3747 4150 1.448540 CGAACGGCTGGAGATGCTT 60.449 57.895 0.00 0.00 0.00 3.91
3748 4151 2.185350 CGAACGGCTGGAGATGCT 59.815 61.111 0.00 0.00 0.00 3.79
3749 4152 2.892425 CCGAACGGCTGGAGATGC 60.892 66.667 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.