Multiple sequence alignment - TraesCS2B01G428600

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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 TraesCS2B01G428600 chr2B 100.000 3401 0 0 1 3401 615787443 615790843 0.000000e+00 6281.0
1 TraesCS2B01G428600 chr2B 90.884 1459 131 2 991 2448 615736012 615737469 0.000000e+00 1956.0
2 TraesCS2B01G428600 chr2B 91.074 1434 121 6 991 2420 694944070 694945500 0.000000e+00 1932.0
3 TraesCS2B01G428600 chr2B 98.018 555 10 1 180 734 474422168 474422721 0.000000e+00 963.0
4 TraesCS2B01G428600 chr2B 77.033 1402 291 24 1022 2403 615577826 615579216 0.000000e+00 776.0
5 TraesCS2B01G428600 chr2B 92.818 181 12 1 2737 2916 108645776 108645596 9.360000e-66 261.0
6 TraesCS2B01G428600 chr2B 97.059 68 2 0 2849 2916 108549801 108549734 7.710000e-22 115.0
7 TraesCS2B01G428600 chr2D 94.502 1746 70 11 729 2469 522748987 522750711 0.000000e+00 2669.0
8 TraesCS2B01G428600 chr2D 92.181 1458 114 0 991 2448 522689356 522690813 0.000000e+00 2061.0
9 TraesCS2B01G428600 chr2D 90.737 1425 125 7 1000 2420 577609391 577607970 0.000000e+00 1893.0
10 TraesCS2B01G428600 chr2D 80.217 1385 248 19 1031 2402 522752629 522754000 0.000000e+00 1016.0
11 TraesCS2B01G428600 chr2D 94.512 164 6 1 729 889 522717093 522717256 2.030000e-62 250.0
12 TraesCS2B01G428600 chr2D 96.154 52 2 0 2498 2549 522751158 522751209 6.050000e-13 86.1
13 TraesCS2B01G428600 chr2A 91.209 1456 126 2 994 2448 667959447 667960901 0.000000e+00 1978.0
14 TraesCS2B01G428600 chr2A 90.808 1436 123 9 990 2420 715806781 715808212 0.000000e+00 1912.0
15 TraesCS2B01G428600 chr2A 80.101 1387 246 23 1031 2402 667964305 667965676 0.000000e+00 1005.0
16 TraesCS2B01G428600 chr2A 77.461 1402 285 22 1022 2403 667942226 667943616 0.000000e+00 809.0
17 TraesCS2B01G428600 chr5D 87.931 1334 128 15 1022 2343 551892007 551890695 0.000000e+00 1541.0
18 TraesCS2B01G428600 chr5D 91.232 479 42 0 256 734 201819950 201820428 0.000000e+00 652.0
19 TraesCS2B01G428600 chr5D 81.250 720 129 3 3 721 88500427 88499713 8.180000e-161 577.0
20 TraesCS2B01G428600 chr5D 92.748 262 18 1 1 262 201808490 201808750 8.910000e-101 377.0
21 TraesCS2B01G428600 chr1A 98.229 734 12 1 1 734 368200626 368201358 0.000000e+00 1282.0
22 TraesCS2B01G428600 chr7B 97.264 731 20 0 4 734 654027921 654027191 0.000000e+00 1240.0
23 TraesCS2B01G428600 chr1B 96.594 734 25 0 1 734 195531124 195531857 0.000000e+00 1218.0
24 TraesCS2B01G428600 chr3A 96.322 734 26 1 1 734 552693277 552692545 0.000000e+00 1205.0
25 TraesCS2B01G428600 chr4D 92.234 734 57 0 1 734 335313138 335312405 0.000000e+00 1040.0
26 TraesCS2B01G428600 chr4A 97.808 593 13 0 1 593 100659846 100660438 0.000000e+00 1024.0
27 TraesCS2B01G428600 chr3D 81.644 523 78 7 3 524 328679600 328680105 5.250000e-113 418.0
28 TraesCS2B01G428600 chr7D 83.282 323 39 10 3045 3360 108088573 108088259 2.000000e-72 283.0
29 TraesCS2B01G428600 chr5B 95.455 176 8 0 2737 2912 57099330 57099505 7.190000e-72 281.0
30 TraesCS2B01G428600 chrUn 78.977 352 64 4 2920 3262 92778292 92777942 7.340000e-57 231.0


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 TraesCS2B01G428600 chr2B 615787443 615790843 3400 False 6281.000000 6281 100.000 1 3401 1 chr2B.!!$F4 3400
1 TraesCS2B01G428600 chr2B 615736012 615737469 1457 False 1956.000000 1956 90.884 991 2448 1 chr2B.!!$F3 1457
2 TraesCS2B01G428600 chr2B 694944070 694945500 1430 False 1932.000000 1932 91.074 991 2420 1 chr2B.!!$F5 1429
3 TraesCS2B01G428600 chr2B 474422168 474422721 553 False 963.000000 963 98.018 180 734 1 chr2B.!!$F1 554
4 TraesCS2B01G428600 chr2B 615577826 615579216 1390 False 776.000000 776 77.033 1022 2403 1 chr2B.!!$F2 1381
5 TraesCS2B01G428600 chr2D 522689356 522690813 1457 False 2061.000000 2061 92.181 991 2448 1 chr2D.!!$F1 1457
6 TraesCS2B01G428600 chr2D 577607970 577609391 1421 True 1893.000000 1893 90.737 1000 2420 1 chr2D.!!$R1 1420
7 TraesCS2B01G428600 chr2D 522748987 522754000 5013 False 1257.033333 2669 90.291 729 2549 3 chr2D.!!$F3 1820
8 TraesCS2B01G428600 chr2A 715806781 715808212 1431 False 1912.000000 1912 90.808 990 2420 1 chr2A.!!$F2 1430
9 TraesCS2B01G428600 chr2A 667959447 667965676 6229 False 1491.500000 1978 85.655 994 2448 2 chr2A.!!$F3 1454
10 TraesCS2B01G428600 chr2A 667942226 667943616 1390 False 809.000000 809 77.461 1022 2403 1 chr2A.!!$F1 1381
11 TraesCS2B01G428600 chr5D 551890695 551892007 1312 True 1541.000000 1541 87.931 1022 2343 1 chr5D.!!$R2 1321
12 TraesCS2B01G428600 chr5D 88499713 88500427 714 True 577.000000 577 81.250 3 721 1 chr5D.!!$R1 718
13 TraesCS2B01G428600 chr1A 368200626 368201358 732 False 1282.000000 1282 98.229 1 734 1 chr1A.!!$F1 733
14 TraesCS2B01G428600 chr7B 654027191 654027921 730 True 1240.000000 1240 97.264 4 734 1 chr7B.!!$R1 730
15 TraesCS2B01G428600 chr1B 195531124 195531857 733 False 1218.000000 1218 96.594 1 734 1 chr1B.!!$F1 733
16 TraesCS2B01G428600 chr3A 552692545 552693277 732 True 1205.000000 1205 96.322 1 734 1 chr3A.!!$R1 733
17 TraesCS2B01G428600 chr4D 335312405 335313138 733 True 1040.000000 1040 92.234 1 734 1 chr4D.!!$R1 733
18 TraesCS2B01G428600 chr4A 100659846 100660438 592 False 1024.000000 1024 97.808 1 593 1 chr4A.!!$F1 592
19 TraesCS2B01G428600 chr3D 328679600 328680105 505 False 418.000000 418 81.644 3 524 1 chr3D.!!$F1 521

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
677 679 0.107993 CTCTGCGCCATCCTTCTTGA 60.108 55.0 4.18 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2846 3292 0.178935 CCCACCCCACCAGTTGAAAT 60.179 55.0 0.0 0.0 0.0 2.17 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
292 293 1.355381 TGTCCATGCTTGATTGGGTCT 59.645 47.619 0.22 0.00 33.62 3.85
416 418 5.431731 TCCAACAGGTAATCCCATCTAACAT 59.568 40.000 0.00 0.00 34.66 2.71
677 679 0.107993 CTCTGCGCCATCCTTCTTGA 60.108 55.000 4.18 0.00 0.00 3.02
708 710 0.597637 ATATTCGCCGAGTTGAGCCG 60.598 55.000 0.00 0.00 0.00 5.52
747 749 2.032030 GGATGTTGTGTTCTTGACCACG 60.032 50.000 0.00 0.00 0.00 4.94
885 890 2.281070 CACCGTGACCTGCTTGCT 60.281 61.111 0.00 0.00 0.00 3.91
887 892 2.031012 CCGTGACCTGCTTGCTCA 59.969 61.111 0.00 0.00 0.00 4.26
898 903 4.594920 ACCTGCTTGCTCACCTACATATAT 59.405 41.667 0.00 0.00 0.00 0.86
899 904 5.780282 ACCTGCTTGCTCACCTACATATATA 59.220 40.000 0.00 0.00 0.00 0.86
900 905 6.071108 ACCTGCTTGCTCACCTACATATATAG 60.071 42.308 0.00 0.00 0.00 1.31
917 922 0.107993 TAGTCTGCCATGCTGCTGTC 60.108 55.000 0.00 0.00 0.00 3.51
918 923 2.045634 TCTGCCATGCTGCTGTCC 60.046 61.111 0.00 0.00 0.00 4.02
919 924 2.360726 CTGCCATGCTGCTGTCCA 60.361 61.111 0.00 0.00 0.00 4.02
920 925 2.360726 TGCCATGCTGCTGTCCAG 60.361 61.111 0.00 0.00 44.67 3.86
930 935 3.303189 CTGTCCAGCCTCATCGGT 58.697 61.111 0.00 0.00 34.25 4.69
931 936 1.142748 CTGTCCAGCCTCATCGGTC 59.857 63.158 0.00 0.00 34.25 4.79
932 937 1.607801 CTGTCCAGCCTCATCGGTCA 61.608 60.000 0.00 0.00 34.25 4.02
943 948 0.745486 CATCGGTCATCAGCCAGCAA 60.745 55.000 0.00 0.00 0.00 3.91
965 970 3.252284 CTCAGCACCACCCCCACT 61.252 66.667 0.00 0.00 0.00 4.00
972 977 3.556306 CCACCCCCACTGTCACGT 61.556 66.667 0.00 0.00 0.00 4.49
1011 1016 1.982395 AACGTCGATGGGGAGAGCA 60.982 57.895 9.90 0.00 0.00 4.26
1092 1097 2.032223 CAGCTGCTGCACCTGTCT 59.968 61.111 17.73 0.00 42.74 3.41
1233 1238 2.219875 CCTCGGCATCCCCAGCTAT 61.220 63.158 0.00 0.00 0.00 2.97
1363 1368 0.250513 CAAGCTTTCCGGCTCCTACT 59.749 55.000 0.00 0.00 42.24 2.57
1506 1511 2.436115 GCCAACCACCGGCTACTC 60.436 66.667 0.00 0.00 46.56 2.59
1536 1541 1.221840 CCTGGTCTACAGCGCCATT 59.778 57.895 2.29 0.00 46.14 3.16
1542 1547 0.460811 TCTACAGCGCCATTGAGCAG 60.461 55.000 2.29 0.00 40.10 4.24
1654 1668 2.517450 GCGCTCGAGGGTGATTTCG 61.517 63.158 27.73 14.65 38.13 3.46
1911 1930 1.376424 CTTCATCTGGGTGCTGCGT 60.376 57.895 0.00 0.00 0.00 5.24
1966 1994 1.153667 GAGAGCAGCCACGAGAAGG 60.154 63.158 0.00 0.00 0.00 3.46
1976 2004 0.668706 CACGAGAAGGTGCTGTCAGG 60.669 60.000 1.14 0.00 0.00 3.86
2051 2079 2.697431 CTAGAGATCCTAGCGCACAC 57.303 55.000 11.47 0.00 38.53 3.82
2181 2209 2.015736 CGGAGCTTGTCTGCAACTAT 57.984 50.000 0.00 0.00 31.94 2.12
2316 2344 2.332514 CAACGGGCAAGTGCACTG 59.667 61.111 22.49 15.42 43.67 3.66
2450 2478 1.960417 TTCATGCCGACACAGTTCAA 58.040 45.000 0.00 0.00 0.00 2.69
2456 2484 1.663695 CCGACACAGTTCAACCAGTT 58.336 50.000 0.00 0.00 0.00 3.16
2486 2916 8.756376 TTTAAATTACGTATAAATCACGCAGC 57.244 30.769 0.00 0.00 43.10 5.25
2487 2917 5.977171 AATTACGTATAAATCACGCAGCA 57.023 34.783 0.00 0.00 43.10 4.41
2543 2989 5.321927 ACCTTTGGTTCAATGGTTAGTAGG 58.678 41.667 11.03 0.00 45.46 3.18
2544 2990 5.073965 ACCTTTGGTTCAATGGTTAGTAGGA 59.926 40.000 11.03 0.00 45.46 2.94
2545 2991 6.187682 CCTTTGGTTCAATGGTTAGTAGGAT 58.812 40.000 4.89 0.00 35.02 3.24
2546 2992 6.095440 CCTTTGGTTCAATGGTTAGTAGGATG 59.905 42.308 4.89 0.00 35.02 3.51
2547 2993 5.772393 TGGTTCAATGGTTAGTAGGATGT 57.228 39.130 0.00 0.00 0.00 3.06
2548 2994 6.134535 TGGTTCAATGGTTAGTAGGATGTT 57.865 37.500 0.00 0.00 0.00 2.71
2549 2995 6.548321 TGGTTCAATGGTTAGTAGGATGTTT 58.452 36.000 0.00 0.00 0.00 2.83
2550 2996 7.007723 TGGTTCAATGGTTAGTAGGATGTTTT 58.992 34.615 0.00 0.00 0.00 2.43
2551 2997 7.507616 TGGTTCAATGGTTAGTAGGATGTTTTT 59.492 33.333 0.00 0.00 0.00 1.94
2579 3025 7.804843 TTTTTGAAACGAATGGTTAGTAGGA 57.195 32.000 0.00 0.00 38.08 2.94
2587 3033 6.938507 ACGAATGGTTAGTAGGATGTTGTTA 58.061 36.000 0.00 0.00 0.00 2.41
2588 3034 7.388437 ACGAATGGTTAGTAGGATGTTGTTAA 58.612 34.615 0.00 0.00 0.00 2.01
2603 3049 9.313118 GGATGTTGTTAATCCAAATTTACATCC 57.687 33.333 20.16 20.16 42.79 3.51
2628 3074 8.375465 CCTAAAATTGTCGAAGATTGAATTTGC 58.625 33.333 0.00 0.00 40.67 3.68
2632 3078 3.057596 TGTCGAAGATTGAATTTGCCACC 60.058 43.478 0.00 0.00 40.67 4.61
2660 3106 1.821332 GGGCGAGGGCAGATTCAAG 60.821 63.158 0.00 0.00 42.47 3.02
2661 3107 1.821332 GGCGAGGGCAGATTCAAGG 60.821 63.158 0.00 0.00 42.47 3.61
2667 3113 1.384191 GGCAGATTCAAGGGGGTGT 59.616 57.895 0.00 0.00 0.00 4.16
2708 3154 4.537015 ACTTTTGCGTTGATTTCTAGCAC 58.463 39.130 0.00 0.00 37.57 4.40
2710 3156 2.073117 TGCGTTGATTTCTAGCACGA 57.927 45.000 0.00 0.00 32.43 4.35
2732 3178 3.032339 CGGAGGTACTAGCTCGGC 58.968 66.667 8.79 0.00 43.29 5.54
2733 3179 1.822613 CGGAGGTACTAGCTCGGCA 60.823 63.158 8.79 0.00 43.29 5.69
2734 3180 1.734748 GGAGGTACTAGCTCGGCAC 59.265 63.158 8.79 0.00 43.29 5.01
2735 3181 1.734748 GAGGTACTAGCTCGGCACC 59.265 63.158 0.00 0.00 41.55 5.01
2736 3182 1.736365 GAGGTACTAGCTCGGCACCC 61.736 65.000 0.00 0.00 41.55 4.61
2737 3183 2.056223 GGTACTAGCTCGGCACCCA 61.056 63.158 0.00 0.00 0.00 4.51
2738 3184 1.610554 GGTACTAGCTCGGCACCCAA 61.611 60.000 0.00 0.00 0.00 4.12
2739 3185 0.248289 GTACTAGCTCGGCACCCAAA 59.752 55.000 0.00 0.00 0.00 3.28
2740 3186 0.978151 TACTAGCTCGGCACCCAAAA 59.022 50.000 0.00 0.00 0.00 2.44
2741 3187 0.109723 ACTAGCTCGGCACCCAAAAA 59.890 50.000 0.00 0.00 0.00 1.94
2742 3188 1.271926 ACTAGCTCGGCACCCAAAAAT 60.272 47.619 0.00 0.00 0.00 1.82
2743 3189 1.133025 CTAGCTCGGCACCCAAAAATG 59.867 52.381 0.00 0.00 0.00 2.32
2744 3190 1.737735 GCTCGGCACCCAAAAATGC 60.738 57.895 0.00 0.00 41.29 3.56
2745 3191 1.966762 CTCGGCACCCAAAAATGCT 59.033 52.632 0.00 0.00 41.74 3.79
2746 3192 1.173043 CTCGGCACCCAAAAATGCTA 58.827 50.000 0.00 0.00 41.74 3.49
2747 3193 1.133025 CTCGGCACCCAAAAATGCTAG 59.867 52.381 0.00 0.00 41.74 3.42
2748 3194 1.173043 CGGCACCCAAAAATGCTAGA 58.827 50.000 0.00 0.00 41.74 2.43
2749 3195 1.135402 CGGCACCCAAAAATGCTAGAC 60.135 52.381 0.00 0.00 41.74 2.59
2750 3196 1.892474 GGCACCCAAAAATGCTAGACA 59.108 47.619 0.00 0.00 41.74 3.41
2751 3197 2.352715 GGCACCCAAAAATGCTAGACAC 60.353 50.000 0.00 0.00 41.74 3.67
2752 3198 2.295909 GCACCCAAAAATGCTAGACACA 59.704 45.455 0.00 0.00 38.84 3.72
2753 3199 3.056607 GCACCCAAAAATGCTAGACACAT 60.057 43.478 0.00 0.00 38.84 3.21
2754 3200 4.487948 CACCCAAAAATGCTAGACACATG 58.512 43.478 0.00 0.00 0.00 3.21
2755 3201 3.511146 ACCCAAAAATGCTAGACACATGG 59.489 43.478 0.00 0.00 0.00 3.66
2756 3202 3.763360 CCCAAAAATGCTAGACACATGGA 59.237 43.478 0.00 0.00 0.00 3.41
2757 3203 4.380867 CCCAAAAATGCTAGACACATGGAC 60.381 45.833 0.00 0.00 0.00 4.02
2758 3204 4.380867 CCAAAAATGCTAGACACATGGACC 60.381 45.833 0.00 0.00 0.00 4.46
2759 3205 3.719268 AAATGCTAGACACATGGACCA 57.281 42.857 0.00 0.00 0.00 4.02
2760 3206 3.719268 AATGCTAGACACATGGACCAA 57.281 42.857 0.00 0.00 0.00 3.67
2761 3207 3.719268 ATGCTAGACACATGGACCAAA 57.281 42.857 0.00 0.00 0.00 3.28
2762 3208 3.719268 TGCTAGACACATGGACCAAAT 57.281 42.857 0.00 0.00 0.00 2.32
2763 3209 3.609853 TGCTAGACACATGGACCAAATC 58.390 45.455 0.00 0.00 0.00 2.17
2764 3210 3.008923 TGCTAGACACATGGACCAAATCA 59.991 43.478 0.00 0.00 0.00 2.57
2765 3211 4.009675 GCTAGACACATGGACCAAATCAA 58.990 43.478 0.00 0.00 0.00 2.57
2766 3212 4.142600 GCTAGACACATGGACCAAATCAAC 60.143 45.833 0.00 0.00 0.00 3.18
2767 3213 3.831323 AGACACATGGACCAAATCAACA 58.169 40.909 0.00 0.00 0.00 3.33
2768 3214 3.822735 AGACACATGGACCAAATCAACAG 59.177 43.478 0.00 0.00 0.00 3.16
2769 3215 2.892852 ACACATGGACCAAATCAACAGG 59.107 45.455 0.00 0.00 0.00 4.00
2770 3216 3.156293 CACATGGACCAAATCAACAGGA 58.844 45.455 0.00 0.00 0.00 3.86
2771 3217 3.765511 CACATGGACCAAATCAACAGGAT 59.234 43.478 0.00 0.00 38.05 3.24
2782 3228 3.773418 TCAACAGGATTTTACGGACCA 57.227 42.857 0.00 0.00 0.00 4.02
2783 3229 3.670625 TCAACAGGATTTTACGGACCAG 58.329 45.455 0.00 0.00 0.00 4.00
2784 3230 2.109425 ACAGGATTTTACGGACCAGC 57.891 50.000 0.00 0.00 0.00 4.85
2785 3231 1.339727 ACAGGATTTTACGGACCAGCC 60.340 52.381 0.00 0.00 0.00 4.85
2795 3241 3.060866 GACCAGCCGACTTGTCCT 58.939 61.111 0.00 0.00 33.46 3.85
2796 3242 1.371558 GACCAGCCGACTTGTCCTT 59.628 57.895 0.00 0.00 33.46 3.36
2797 3243 0.250338 GACCAGCCGACTTGTCCTTT 60.250 55.000 0.00 0.00 33.46 3.11
2798 3244 0.182775 ACCAGCCGACTTGTCCTTTT 59.817 50.000 0.00 0.00 0.00 2.27
2799 3245 0.593128 CCAGCCGACTTGTCCTTTTG 59.407 55.000 0.00 0.00 0.00 2.44
2800 3246 1.308998 CAGCCGACTTGTCCTTTTGT 58.691 50.000 0.00 0.00 0.00 2.83
2801 3247 1.002468 CAGCCGACTTGTCCTTTTGTG 60.002 52.381 0.00 0.00 0.00 3.33
2802 3248 1.134220 AGCCGACTTGTCCTTTTGTGA 60.134 47.619 0.00 0.00 0.00 3.58
2803 3249 1.880027 GCCGACTTGTCCTTTTGTGAT 59.120 47.619 0.00 0.00 0.00 3.06
2804 3250 2.293399 GCCGACTTGTCCTTTTGTGATT 59.707 45.455 0.00 0.00 0.00 2.57
2805 3251 3.853307 GCCGACTTGTCCTTTTGTGATTG 60.853 47.826 0.00 0.00 0.00 2.67
2806 3252 3.304659 CCGACTTGTCCTTTTGTGATTGG 60.305 47.826 0.00 0.00 0.00 3.16
2807 3253 3.304659 CGACTTGTCCTTTTGTGATTGGG 60.305 47.826 0.00 0.00 0.00 4.12
2808 3254 2.965147 ACTTGTCCTTTTGTGATTGGGG 59.035 45.455 0.00 0.00 0.00 4.96
2809 3255 2.765689 TGTCCTTTTGTGATTGGGGT 57.234 45.000 0.00 0.00 0.00 4.95
2810 3256 3.885976 TGTCCTTTTGTGATTGGGGTA 57.114 42.857 0.00 0.00 0.00 3.69
2811 3257 4.186077 TGTCCTTTTGTGATTGGGGTAA 57.814 40.909 0.00 0.00 0.00 2.85
2812 3258 4.547671 TGTCCTTTTGTGATTGGGGTAAA 58.452 39.130 0.00 0.00 0.00 2.01
2813 3259 5.151454 TGTCCTTTTGTGATTGGGGTAAAT 58.849 37.500 0.00 0.00 0.00 1.40
2814 3260 6.315714 TGTCCTTTTGTGATTGGGGTAAATA 58.684 36.000 0.00 0.00 0.00 1.40
2815 3261 6.782988 TGTCCTTTTGTGATTGGGGTAAATAA 59.217 34.615 0.00 0.00 0.00 1.40
2816 3262 7.456269 TGTCCTTTTGTGATTGGGGTAAATAAT 59.544 33.333 0.00 0.00 0.00 1.28
2817 3263 7.979537 GTCCTTTTGTGATTGGGGTAAATAATC 59.020 37.037 0.00 0.00 0.00 1.75
2818 3264 7.898636 TCCTTTTGTGATTGGGGTAAATAATCT 59.101 33.333 0.00 0.00 33.21 2.40
2819 3265 8.539544 CCTTTTGTGATTGGGGTAAATAATCTT 58.460 33.333 0.00 0.00 33.21 2.40
2820 3266 9.942850 CTTTTGTGATTGGGGTAAATAATCTTT 57.057 29.630 0.00 0.00 33.21 2.52
2821 3267 9.936759 TTTTGTGATTGGGGTAAATAATCTTTC 57.063 29.630 0.00 0.00 33.21 2.62
2822 3268 7.654022 TGTGATTGGGGTAAATAATCTTTCC 57.346 36.000 0.00 0.00 33.21 3.13
2823 3269 6.609616 TGTGATTGGGGTAAATAATCTTTCCC 59.390 38.462 0.00 0.00 33.21 3.97
2824 3270 6.839134 GTGATTGGGGTAAATAATCTTTCCCT 59.161 38.462 0.00 0.00 35.65 4.20
2825 3271 7.014326 GTGATTGGGGTAAATAATCTTTCCCTC 59.986 40.741 0.00 0.00 35.65 4.30
2826 3272 5.397553 TGGGGTAAATAATCTTTCCCTCC 57.602 43.478 0.00 0.00 35.65 4.30
2827 3273 5.050685 TGGGGTAAATAATCTTTCCCTCCT 58.949 41.667 0.00 0.00 35.65 3.69
2828 3274 6.221850 TGGGGTAAATAATCTTTCCCTCCTA 58.778 40.000 0.00 0.00 35.65 2.94
2829 3275 6.683791 TGGGGTAAATAATCTTTCCCTCCTAA 59.316 38.462 0.00 0.00 35.65 2.69
2830 3276 7.355212 TGGGGTAAATAATCTTTCCCTCCTAAT 59.645 37.037 0.00 0.00 35.65 1.73
2831 3277 8.232412 GGGGTAAATAATCTTTCCCTCCTAATT 58.768 37.037 0.00 0.00 35.65 1.40
2838 3284 9.746457 ATAATCTTTCCCTCCTAATTAATCAGC 57.254 33.333 0.00 0.00 0.00 4.26
2839 3285 5.941788 TCTTTCCCTCCTAATTAATCAGCC 58.058 41.667 0.00 0.00 0.00 4.85
2840 3286 4.724279 TTCCCTCCTAATTAATCAGCCC 57.276 45.455 0.00 0.00 0.00 5.19
2841 3287 2.986728 TCCCTCCTAATTAATCAGCCCC 59.013 50.000 0.00 0.00 0.00 5.80
2842 3288 2.041755 CCCTCCTAATTAATCAGCCCCC 59.958 54.545 0.00 0.00 0.00 5.40
2859 3305 2.456577 CCCCCTAATTTCAACTGGTGG 58.543 52.381 0.00 0.00 0.00 4.61
2860 3306 2.456577 CCCCTAATTTCAACTGGTGGG 58.543 52.381 0.00 0.00 0.00 4.61
2861 3307 2.456577 CCCTAATTTCAACTGGTGGGG 58.543 52.381 0.00 0.00 0.00 4.96
2862 3308 2.225267 CCCTAATTTCAACTGGTGGGGT 60.225 50.000 0.00 0.00 0.00 4.95
2863 3309 2.825532 CCTAATTTCAACTGGTGGGGTG 59.174 50.000 0.00 0.00 0.00 4.61
2864 3310 1.715785 AATTTCAACTGGTGGGGTGG 58.284 50.000 0.00 0.00 0.00 4.61
2865 3311 0.178935 ATTTCAACTGGTGGGGTGGG 60.179 55.000 0.00 0.00 0.00 4.61
2866 3312 2.937959 TTTCAACTGGTGGGGTGGGC 62.938 60.000 0.00 0.00 0.00 5.36
2867 3313 4.217210 CAACTGGTGGGGTGGGCA 62.217 66.667 0.00 0.00 0.00 5.36
2868 3314 3.902112 AACTGGTGGGGTGGGCAG 61.902 66.667 0.00 0.00 0.00 4.85
2883 3329 2.800736 CAGCCATGCCCGTAAAGC 59.199 61.111 0.00 0.00 0.00 3.51
2884 3330 2.440247 AGCCATGCCCGTAAAGCC 60.440 61.111 0.00 0.00 0.00 4.35
2885 3331 2.440247 GCCATGCCCGTAAAGCCT 60.440 61.111 0.00 0.00 0.00 4.58
2886 3332 2.481471 GCCATGCCCGTAAAGCCTC 61.481 63.158 0.00 0.00 0.00 4.70
2887 3333 1.823899 CCATGCCCGTAAAGCCTCC 60.824 63.158 0.00 0.00 0.00 4.30
2888 3334 2.180204 CATGCCCGTAAAGCCTCCG 61.180 63.158 0.00 0.00 0.00 4.63
2889 3335 2.666098 ATGCCCGTAAAGCCTCCGT 61.666 57.895 0.00 0.00 0.00 4.69
2890 3336 1.332144 ATGCCCGTAAAGCCTCCGTA 61.332 55.000 0.00 0.00 0.00 4.02
2891 3337 1.332144 TGCCCGTAAAGCCTCCGTAT 61.332 55.000 0.00 0.00 0.00 3.06
2892 3338 0.179065 GCCCGTAAAGCCTCCGTATT 60.179 55.000 0.00 0.00 0.00 1.89
2893 3339 1.861971 CCCGTAAAGCCTCCGTATTC 58.138 55.000 0.00 0.00 0.00 1.75
2894 3340 1.484356 CCGTAAAGCCTCCGTATTCG 58.516 55.000 0.00 0.00 0.00 3.34
2895 3341 1.202336 CCGTAAAGCCTCCGTATTCGT 60.202 52.381 0.00 0.00 35.01 3.85
2896 3342 2.114825 CGTAAAGCCTCCGTATTCGTC 58.885 52.381 0.00 0.00 35.01 4.20
2897 3343 2.467838 GTAAAGCCTCCGTATTCGTCC 58.532 52.381 0.00 0.00 35.01 4.79
2898 3344 0.179119 AAAGCCTCCGTATTCGTCCG 60.179 55.000 0.00 0.00 35.01 4.79
2899 3345 1.318158 AAGCCTCCGTATTCGTCCGT 61.318 55.000 0.00 0.00 35.01 4.69
2900 3346 1.140375 GCCTCCGTATTCGTCCGTT 59.860 57.895 0.00 0.00 35.01 4.44
2901 3347 1.143969 GCCTCCGTATTCGTCCGTTG 61.144 60.000 0.00 0.00 35.01 4.10
2902 3348 0.452987 CCTCCGTATTCGTCCGTTGA 59.547 55.000 0.00 0.00 35.01 3.18
2903 3349 1.066605 CCTCCGTATTCGTCCGTTGAT 59.933 52.381 0.00 0.00 35.01 2.57
2904 3350 2.117137 CTCCGTATTCGTCCGTTGATG 58.883 52.381 0.00 0.00 35.01 3.07
2905 3351 1.473677 TCCGTATTCGTCCGTTGATGT 59.526 47.619 0.00 0.00 35.01 3.06
2906 3352 2.682352 TCCGTATTCGTCCGTTGATGTA 59.318 45.455 0.00 0.00 35.01 2.29
2907 3353 3.040795 CCGTATTCGTCCGTTGATGTAG 58.959 50.000 0.00 0.00 35.01 2.74
2908 3354 2.466571 CGTATTCGTCCGTTGATGTAGC 59.533 50.000 0.00 0.00 0.00 3.58
2909 3355 2.665649 ATTCGTCCGTTGATGTAGCA 57.334 45.000 0.00 0.00 0.00 3.49
2910 3356 2.442212 TTCGTCCGTTGATGTAGCAA 57.558 45.000 0.00 0.00 0.00 3.91
2911 3357 2.442212 TCGTCCGTTGATGTAGCAAA 57.558 45.000 0.00 0.00 0.00 3.68
2912 3358 2.333926 TCGTCCGTTGATGTAGCAAAG 58.666 47.619 0.00 0.00 0.00 2.77
2913 3359 1.201921 CGTCCGTTGATGTAGCAAAGC 60.202 52.381 0.00 0.00 0.00 3.51
2914 3360 2.076863 GTCCGTTGATGTAGCAAAGCT 58.923 47.619 0.00 0.00 43.41 3.74
2915 3361 2.094417 GTCCGTTGATGTAGCAAAGCTC 59.906 50.000 0.00 0.00 40.44 4.09
2916 3362 1.398390 CCGTTGATGTAGCAAAGCTCC 59.602 52.381 0.00 0.00 40.44 4.70
2917 3363 2.350522 CGTTGATGTAGCAAAGCTCCT 58.649 47.619 0.00 0.00 40.44 3.69
2918 3364 2.349886 CGTTGATGTAGCAAAGCTCCTC 59.650 50.000 0.00 0.00 40.44 3.71
2936 3382 3.066814 GGCACCTACCCGACGACT 61.067 66.667 0.00 0.00 0.00 4.18
2952 3398 2.672651 CTGACATTGCCGCCCACA 60.673 61.111 0.00 0.00 0.00 4.17
2985 3431 4.329545 TGTGGAGGCTCGGGTTGC 62.330 66.667 8.69 0.00 0.00 4.17
3006 3452 3.417185 CCGCGCTCAAGACTAAATTTTC 58.583 45.455 5.56 0.00 0.00 2.29
3015 3461 5.810587 TCAAGACTAAATTTTCCGGAGATCG 59.189 40.000 3.34 0.00 38.88 3.69
3030 3476 1.377366 GATCGAGTCTCAGGCGGTGA 61.377 60.000 0.00 0.00 0.00 4.02
3040 3486 3.044305 GGCGGTGACAGAGCACAC 61.044 66.667 0.00 0.00 40.52 3.82
3050 3496 4.767255 GAGCACACCAGGCCTCCG 62.767 72.222 0.00 0.00 0.00 4.63
3061 3507 2.438434 GCCTCCGGTGACCATTGG 60.438 66.667 4.76 0.00 0.00 3.16
3088 3534 4.467084 GATCAAGCCGGCGACCCA 62.467 66.667 23.20 4.78 0.00 4.51
3106 3552 2.221749 CCCACATTGTAATCGATGAGCG 59.778 50.000 0.00 0.00 38.46 5.03
3126 3572 2.412977 CGGGACAATATACGAGAGAGCG 60.413 54.545 0.00 0.00 37.29 5.03
3129 3575 1.069159 ACAATATACGAGAGAGCGGCG 60.069 52.381 0.51 0.51 35.12 6.46
3150 3596 0.804989 GGAGGCGATGACAAGGTTTG 59.195 55.000 0.00 0.00 0.00 2.93
3209 3655 1.617850 CATTGGGAGAGGGATCTCGAG 59.382 57.143 5.93 5.93 44.47 4.04
3213 3659 0.958822 GGAGAGGGATCTCGAGAAGC 59.041 60.000 20.91 14.28 44.47 3.86
3234 3680 1.961277 AAGAACGACGCCAAGGCAG 60.961 57.895 12.19 6.64 42.06 4.85
3263 3709 1.081174 TCCAGGGTCAAGAAGGAGGAT 59.919 52.381 0.00 0.00 0.00 3.24
3265 3711 1.211457 CAGGGTCAAGAAGGAGGATGG 59.789 57.143 0.00 0.00 0.00 3.51
3266 3712 0.548510 GGGTCAAGAAGGAGGATGGG 59.451 60.000 0.00 0.00 0.00 4.00
3267 3713 0.548510 GGTCAAGAAGGAGGATGGGG 59.451 60.000 0.00 0.00 0.00 4.96
3268 3714 1.584724 GTCAAGAAGGAGGATGGGGA 58.415 55.000 0.00 0.00 0.00 4.81
3269 3715 2.131023 GTCAAGAAGGAGGATGGGGAT 58.869 52.381 0.00 0.00 0.00 3.85
3270 3716 2.511637 GTCAAGAAGGAGGATGGGGATT 59.488 50.000 0.00 0.00 0.00 3.01
3271 3717 3.053320 GTCAAGAAGGAGGATGGGGATTT 60.053 47.826 0.00 0.00 0.00 2.17
3272 3718 3.203040 TCAAGAAGGAGGATGGGGATTTC 59.797 47.826 0.00 0.00 0.00 2.17
3273 3719 2.863884 AGAAGGAGGATGGGGATTTCA 58.136 47.619 0.00 0.00 0.00 2.69
3274 3720 2.782341 AGAAGGAGGATGGGGATTTCAG 59.218 50.000 0.00 0.00 0.00 3.02
3284 3730 1.943340 GGGGATTTCAGCGATGACTTC 59.057 52.381 1.08 2.91 0.00 3.01
3298 3744 5.524284 CGATGACTTCTGACTCGGATAATT 58.476 41.667 0.00 0.00 0.00 1.40
3319 3769 9.959749 ATAATTTGTAGTGTGTTTGTAGTTTGG 57.040 29.630 0.00 0.00 0.00 3.28
3326 3776 4.034742 GTGTGTTTGTAGTTTGGATGTCGT 59.965 41.667 0.00 0.00 0.00 4.34
3327 3777 4.034626 TGTGTTTGTAGTTTGGATGTCGTG 59.965 41.667 0.00 0.00 0.00 4.35
3341 3791 5.178623 TGGATGTCGTGCTAGTTTAAGTTTG 59.821 40.000 0.00 0.00 0.00 2.93
3347 3797 7.278424 TGTCGTGCTAGTTTAAGTTTGTAGTTT 59.722 33.333 0.00 0.00 0.00 2.66
3350 3800 9.577003 CGTGCTAGTTTAAGTTTGTAGTTTAAG 57.423 33.333 0.00 0.00 0.00 1.85
3361 3811 7.767261 AGTTTGTAGTTTAAGTTTGCATGTCA 58.233 30.769 0.00 0.00 0.00 3.58
3364 3814 6.954944 TGTAGTTTAAGTTTGCATGTCAGAC 58.045 36.000 0.00 0.00 0.00 3.51
3365 3815 6.765989 TGTAGTTTAAGTTTGCATGTCAGACT 59.234 34.615 1.31 7.27 41.36 3.24
3377 3885 5.215160 GCATGTCAGACTGGTTTAAGTTTG 58.785 41.667 1.81 0.00 34.43 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
416 418 5.559770 TGACATCAAGAAGGCATTTGACTA 58.440 37.500 1.33 0.00 36.26 2.59
677 679 3.062763 CGGCGAATATTGCTCTCATTCT 58.937 45.455 0.00 0.00 0.00 2.40
708 710 0.037975 CCATGCCAGAAACTTGCACC 60.038 55.000 0.00 0.00 35.03 5.01
747 749 2.510691 GCCATGTGCCTTGCATGC 60.511 61.111 11.82 11.82 41.91 4.06
869 874 2.031163 GAGCAAGCAGGTCACGGT 59.969 61.111 3.83 0.00 44.14 4.83
885 890 6.127338 GCATGGCAGACTATATATGTAGGTGA 60.127 42.308 10.82 0.00 0.00 4.02
887 892 5.960811 AGCATGGCAGACTATATATGTAGGT 59.039 40.000 10.82 0.00 0.00 3.08
898 903 0.107993 GACAGCAGCATGGCAGACTA 60.108 55.000 0.00 0.00 35.86 2.59
899 904 1.376942 GACAGCAGCATGGCAGACT 60.377 57.895 0.00 0.00 35.86 3.24
900 905 2.404995 GGACAGCAGCATGGCAGAC 61.405 63.158 0.00 0.00 35.86 3.51
917 922 0.249784 CTGATGACCGATGAGGCTGG 60.250 60.000 0.00 0.00 46.52 4.85
918 923 0.879400 GCTGATGACCGATGAGGCTG 60.879 60.000 0.00 0.00 46.52 4.85
919 924 1.445095 GCTGATGACCGATGAGGCT 59.555 57.895 0.00 0.00 46.52 4.58
920 925 1.596477 GGCTGATGACCGATGAGGC 60.596 63.158 0.00 0.00 46.52 4.70
922 927 0.879400 GCTGGCTGATGACCGATGAG 60.879 60.000 0.00 0.00 0.00 2.90
923 928 1.144716 GCTGGCTGATGACCGATGA 59.855 57.895 0.00 0.00 0.00 2.92
924 929 0.745486 TTGCTGGCTGATGACCGATG 60.745 55.000 0.00 0.00 0.00 3.84
925 930 0.745845 GTTGCTGGCTGATGACCGAT 60.746 55.000 0.00 0.00 0.00 4.18
926 931 1.375908 GTTGCTGGCTGATGACCGA 60.376 57.895 0.00 0.00 0.00 4.69
927 932 1.364626 GAGTTGCTGGCTGATGACCG 61.365 60.000 0.00 0.00 0.00 4.79
928 933 0.321919 TGAGTTGCTGGCTGATGACC 60.322 55.000 0.00 0.00 0.00 4.02
929 934 0.801251 GTGAGTTGCTGGCTGATGAC 59.199 55.000 0.00 0.00 0.00 3.06
930 935 0.689055 AGTGAGTTGCTGGCTGATGA 59.311 50.000 0.00 0.00 0.00 2.92
931 936 1.085091 GAGTGAGTTGCTGGCTGATG 58.915 55.000 0.00 0.00 0.00 3.07
932 937 0.689055 TGAGTGAGTTGCTGGCTGAT 59.311 50.000 0.00 0.00 0.00 2.90
943 948 2.520536 GGGGTGGTGCTGAGTGAGT 61.521 63.158 0.00 0.00 0.00 3.41
972 977 3.062466 CTCTCCGTGGCGTGAGGA 61.062 66.667 0.00 0.00 0.00 3.71
1011 1016 2.437359 GGCTCCATTGCGTGCTCT 60.437 61.111 0.00 0.00 0.00 4.09
1336 1341 0.108138 CCGGAAAGCTTGTCGAGGAT 60.108 55.000 19.19 0.00 0.00 3.24
1363 1368 1.226859 GCACTACGACTATGCGGCA 60.227 57.895 4.58 4.58 35.12 5.69
1536 1541 1.595109 CTTGGTCGCACACTGCTCA 60.595 57.895 0.00 0.00 42.25 4.26
1542 1547 2.235546 GAACTCCTTGGTCGCACAC 58.764 57.895 0.00 0.00 0.00 3.82
1927 1946 1.594293 CGGCCTCCGCGAATATGTT 60.594 57.895 8.23 0.00 41.17 2.71
1954 1982 2.345244 CAGCACCTTCTCGTGGCT 59.655 61.111 0.00 0.00 34.16 4.75
1966 1994 0.465460 TTGGTGAACCCTGACAGCAC 60.465 55.000 0.00 0.00 42.67 4.40
1976 2004 1.098712 TTCGGTGTGCTTGGTGAACC 61.099 55.000 0.00 0.00 0.00 3.62
2034 2062 1.729470 CGGTGTGCGCTAGGATCTCT 61.729 60.000 9.73 0.00 0.00 3.10
2181 2209 2.688666 AGGATGCCGGCCTTGAGA 60.689 61.111 26.77 3.54 29.44 3.27
2469 2497 4.671880 TTTTGCTGCGTGATTTATACGT 57.328 36.364 0.00 0.00 43.09 3.57
2555 3001 7.804843 TCCTACTAACCATTCGTTTCAAAAA 57.195 32.000 0.00 0.00 35.79 1.94
2556 3002 7.446013 ACATCCTACTAACCATTCGTTTCAAAA 59.554 33.333 0.00 0.00 35.79 2.44
2557 3003 6.938030 ACATCCTACTAACCATTCGTTTCAAA 59.062 34.615 0.00 0.00 35.79 2.69
2558 3004 6.469410 ACATCCTACTAACCATTCGTTTCAA 58.531 36.000 0.00 0.00 35.79 2.69
2559 3005 6.045072 ACATCCTACTAACCATTCGTTTCA 57.955 37.500 0.00 0.00 35.79 2.69
2560 3006 6.370718 ACAACATCCTACTAACCATTCGTTTC 59.629 38.462 0.00 0.00 35.79 2.78
2561 3007 6.235664 ACAACATCCTACTAACCATTCGTTT 58.764 36.000 0.00 0.00 35.79 3.60
2562 3008 5.801380 ACAACATCCTACTAACCATTCGTT 58.199 37.500 0.00 0.00 38.57 3.85
2563 3009 5.416271 ACAACATCCTACTAACCATTCGT 57.584 39.130 0.00 0.00 0.00 3.85
2564 3010 7.837202 TTAACAACATCCTACTAACCATTCG 57.163 36.000 0.00 0.00 0.00 3.34
2565 3011 8.837389 GGATTAACAACATCCTACTAACCATTC 58.163 37.037 0.00 0.00 37.77 2.67
2566 3012 8.333235 TGGATTAACAACATCCTACTAACCATT 58.667 33.333 0.82 0.00 40.99 3.16
2567 3013 7.867921 TGGATTAACAACATCCTACTAACCAT 58.132 34.615 0.82 0.00 40.99 3.55
2568 3014 7.260387 TGGATTAACAACATCCTACTAACCA 57.740 36.000 0.82 0.00 40.99 3.67
2569 3015 8.570068 TTTGGATTAACAACATCCTACTAACC 57.430 34.615 0.82 0.00 40.99 2.85
2588 3034 9.801873 CGACAATTTTAGGATGTAAATTTGGAT 57.198 29.630 0.00 0.00 34.61 3.41
2597 3043 9.443323 TTCAATCTTCGACAATTTTAGGATGTA 57.557 29.630 0.00 0.00 0.00 2.29
2602 3048 8.375465 GCAAATTCAATCTTCGACAATTTTAGG 58.625 33.333 0.00 0.00 0.00 2.69
2603 3049 8.375465 GGCAAATTCAATCTTCGACAATTTTAG 58.625 33.333 0.00 0.00 0.00 1.85
2611 3057 3.501950 GGTGGCAAATTCAATCTTCGAC 58.498 45.455 0.00 0.00 0.00 4.20
2640 3086 1.852157 TTGAATCTGCCCTCGCCCTT 61.852 55.000 0.00 0.00 0.00 3.95
2645 3091 1.153086 CCCCTTGAATCTGCCCTCG 60.153 63.158 0.00 0.00 0.00 4.63
2653 3099 1.682344 GGCCACACCCCCTTGAATC 60.682 63.158 0.00 0.00 0.00 2.52
2691 3137 1.724623 GTCGTGCTAGAAATCAACGCA 59.275 47.619 0.00 0.00 0.00 5.24
2696 3142 0.459585 GGCCGTCGTGCTAGAAATCA 60.460 55.000 0.00 0.00 0.00 2.57
2700 3146 4.124351 CCGGCCGTCGTGCTAGAA 62.124 66.667 26.12 0.00 37.11 2.10
2708 3154 2.514592 TAGTACCTCCGGCCGTCG 60.515 66.667 26.12 14.28 38.88 5.12
2710 3156 2.832201 GCTAGTACCTCCGGCCGT 60.832 66.667 26.12 7.98 0.00 5.68
2723 3169 1.133025 CATTTTTGGGTGCCGAGCTAG 59.867 52.381 0.00 0.00 0.00 3.42
2730 3176 1.892474 TGTCTAGCATTTTTGGGTGCC 59.108 47.619 0.00 0.00 42.20 5.01
2731 3177 2.295909 TGTGTCTAGCATTTTTGGGTGC 59.704 45.455 0.00 0.00 41.57 5.01
2732 3178 4.487948 CATGTGTCTAGCATTTTTGGGTG 58.512 43.478 0.00 0.00 0.00 4.61
2733 3179 3.511146 CCATGTGTCTAGCATTTTTGGGT 59.489 43.478 0.00 0.00 0.00 4.51
2734 3180 3.763360 TCCATGTGTCTAGCATTTTTGGG 59.237 43.478 0.00 0.00 0.00 4.12
2735 3181 4.380867 GGTCCATGTGTCTAGCATTTTTGG 60.381 45.833 0.00 0.00 0.00 3.28
2736 3182 4.218200 TGGTCCATGTGTCTAGCATTTTTG 59.782 41.667 0.00 0.00 0.00 2.44
2737 3183 4.406456 TGGTCCATGTGTCTAGCATTTTT 58.594 39.130 0.00 0.00 0.00 1.94
2738 3184 4.032960 TGGTCCATGTGTCTAGCATTTT 57.967 40.909 0.00 0.00 0.00 1.82
2739 3185 3.719268 TGGTCCATGTGTCTAGCATTT 57.281 42.857 0.00 0.00 0.00 2.32
2740 3186 3.719268 TTGGTCCATGTGTCTAGCATT 57.281 42.857 0.00 0.00 0.00 3.56
2741 3187 3.719268 TTTGGTCCATGTGTCTAGCAT 57.281 42.857 0.00 0.00 0.00 3.79
2742 3188 3.008923 TGATTTGGTCCATGTGTCTAGCA 59.991 43.478 0.00 0.00 0.00 3.49
2743 3189 3.609853 TGATTTGGTCCATGTGTCTAGC 58.390 45.455 0.00 0.00 0.00 3.42
2744 3190 5.003160 TGTTGATTTGGTCCATGTGTCTAG 58.997 41.667 0.00 0.00 0.00 2.43
2745 3191 4.979335 TGTTGATTTGGTCCATGTGTCTA 58.021 39.130 0.00 0.00 0.00 2.59
2746 3192 3.822735 CTGTTGATTTGGTCCATGTGTCT 59.177 43.478 0.00 0.00 0.00 3.41
2747 3193 3.057315 CCTGTTGATTTGGTCCATGTGTC 60.057 47.826 0.00 0.00 0.00 3.67
2748 3194 2.892852 CCTGTTGATTTGGTCCATGTGT 59.107 45.455 0.00 0.00 0.00 3.72
2749 3195 3.156293 TCCTGTTGATTTGGTCCATGTG 58.844 45.455 0.00 0.00 0.00 3.21
2750 3196 3.524095 TCCTGTTGATTTGGTCCATGT 57.476 42.857 0.00 0.00 0.00 3.21
2760 3206 4.658063 TGGTCCGTAAAATCCTGTTGATT 58.342 39.130 0.00 0.00 45.75 2.57
2761 3207 4.261801 CTGGTCCGTAAAATCCTGTTGAT 58.738 43.478 0.00 0.00 34.22 2.57
2762 3208 3.670625 CTGGTCCGTAAAATCCTGTTGA 58.329 45.455 0.00 0.00 0.00 3.18
2763 3209 2.161609 GCTGGTCCGTAAAATCCTGTTG 59.838 50.000 0.00 0.00 0.00 3.33
2764 3210 2.433436 GCTGGTCCGTAAAATCCTGTT 58.567 47.619 0.00 0.00 0.00 3.16
2765 3211 1.339727 GGCTGGTCCGTAAAATCCTGT 60.340 52.381 0.00 0.00 0.00 4.00
2766 3212 1.379527 GGCTGGTCCGTAAAATCCTG 58.620 55.000 0.00 0.00 0.00 3.86
2767 3213 3.875865 GGCTGGTCCGTAAAATCCT 57.124 52.632 0.00 0.00 0.00 3.24
2778 3224 0.250338 AAAGGACAAGTCGGCTGGTC 60.250 55.000 16.56 16.56 43.39 4.02
2779 3225 0.182775 AAAAGGACAAGTCGGCTGGT 59.817 50.000 0.00 0.00 0.00 4.00
2780 3226 0.593128 CAAAAGGACAAGTCGGCTGG 59.407 55.000 0.00 0.00 0.00 4.85
2781 3227 1.002468 CACAAAAGGACAAGTCGGCTG 60.002 52.381 0.00 0.00 0.00 4.85
2782 3228 1.134220 TCACAAAAGGACAAGTCGGCT 60.134 47.619 0.00 0.00 0.00 5.52
2783 3229 1.305201 TCACAAAAGGACAAGTCGGC 58.695 50.000 0.00 0.00 0.00 5.54
2784 3230 3.304659 CCAATCACAAAAGGACAAGTCGG 60.305 47.826 0.00 0.00 0.00 4.79
2785 3231 3.304659 CCCAATCACAAAAGGACAAGTCG 60.305 47.826 0.00 0.00 0.00 4.18
2786 3232 3.005791 CCCCAATCACAAAAGGACAAGTC 59.994 47.826 0.00 0.00 0.00 3.01
2787 3233 2.965147 CCCCAATCACAAAAGGACAAGT 59.035 45.455 0.00 0.00 0.00 3.16
2788 3234 2.965147 ACCCCAATCACAAAAGGACAAG 59.035 45.455 0.00 0.00 0.00 3.16
2789 3235 3.039252 ACCCCAATCACAAAAGGACAA 57.961 42.857 0.00 0.00 0.00 3.18
2790 3236 2.765689 ACCCCAATCACAAAAGGACA 57.234 45.000 0.00 0.00 0.00 4.02
2791 3237 5.738619 ATTTACCCCAATCACAAAAGGAC 57.261 39.130 0.00 0.00 0.00 3.85
2792 3238 7.898636 AGATTATTTACCCCAATCACAAAAGGA 59.101 33.333 0.00 0.00 32.27 3.36
2793 3239 8.078060 AGATTATTTACCCCAATCACAAAAGG 57.922 34.615 0.00 0.00 32.27 3.11
2794 3240 9.942850 AAAGATTATTTACCCCAATCACAAAAG 57.057 29.630 0.00 0.00 32.27 2.27
2795 3241 9.936759 GAAAGATTATTTACCCCAATCACAAAA 57.063 29.630 0.00 0.00 32.27 2.44
2796 3242 8.536175 GGAAAGATTATTTACCCCAATCACAAA 58.464 33.333 0.00 0.00 32.27 2.83
2797 3243 7.125053 GGGAAAGATTATTTACCCCAATCACAA 59.875 37.037 0.00 0.00 32.27 3.33
2798 3244 6.609616 GGGAAAGATTATTTACCCCAATCACA 59.390 38.462 0.00 0.00 32.27 3.58
2799 3245 6.839134 AGGGAAAGATTATTTACCCCAATCAC 59.161 38.462 1.26 0.00 38.22 3.06
2800 3246 6.992235 AGGGAAAGATTATTTACCCCAATCA 58.008 36.000 1.26 0.00 38.22 2.57
2801 3247 6.493802 GGAGGGAAAGATTATTTACCCCAATC 59.506 42.308 1.26 0.00 38.22 2.67
2802 3248 6.164042 AGGAGGGAAAGATTATTTACCCCAAT 59.836 38.462 12.38 0.00 38.22 3.16
2803 3249 5.498373 AGGAGGGAAAGATTATTTACCCCAA 59.502 40.000 12.38 0.00 38.22 4.12
2804 3250 5.050685 AGGAGGGAAAGATTATTTACCCCA 58.949 41.667 12.38 0.00 38.22 4.96
2805 3251 5.664815 AGGAGGGAAAGATTATTTACCCC 57.335 43.478 1.26 3.46 38.22 4.95
2812 3258 9.746457 GCTGATTAATTAGGAGGGAAAGATTAT 57.254 33.333 9.11 0.00 0.00 1.28
2813 3259 8.164070 GGCTGATTAATTAGGAGGGAAAGATTA 58.836 37.037 9.11 0.00 0.00 1.75
2814 3260 7.007116 GGCTGATTAATTAGGAGGGAAAGATT 58.993 38.462 9.11 0.00 0.00 2.40
2815 3261 6.467921 GGGCTGATTAATTAGGAGGGAAAGAT 60.468 42.308 9.11 0.00 0.00 2.40
2816 3262 5.163088 GGGCTGATTAATTAGGAGGGAAAGA 60.163 44.000 9.11 0.00 0.00 2.52
2817 3263 5.073428 GGGCTGATTAATTAGGAGGGAAAG 58.927 45.833 9.11 0.00 0.00 2.62
2818 3264 4.141018 GGGGCTGATTAATTAGGAGGGAAA 60.141 45.833 9.11 0.00 0.00 3.13
2819 3265 3.397955 GGGGCTGATTAATTAGGAGGGAA 59.602 47.826 9.11 0.00 0.00 3.97
2820 3266 2.986728 GGGGCTGATTAATTAGGAGGGA 59.013 50.000 9.11 0.00 0.00 4.20
2821 3267 2.041755 GGGGGCTGATTAATTAGGAGGG 59.958 54.545 9.11 0.00 0.00 4.30
2822 3268 3.441500 GGGGGCTGATTAATTAGGAGG 57.558 52.381 9.11 0.00 0.00 4.30
2839 3285 2.456577 CCACCAGTTGAAATTAGGGGG 58.543 52.381 0.00 0.00 36.42 5.40
2840 3286 2.456577 CCCACCAGTTGAAATTAGGGG 58.543 52.381 0.00 0.00 0.00 4.79
2841 3287 2.225267 ACCCCACCAGTTGAAATTAGGG 60.225 50.000 0.00 0.00 38.04 3.53
2842 3288 2.825532 CACCCCACCAGTTGAAATTAGG 59.174 50.000 0.00 0.00 0.00 2.69
2843 3289 2.825532 CCACCCCACCAGTTGAAATTAG 59.174 50.000 0.00 0.00 0.00 1.73
2844 3290 2.491825 CCCACCCCACCAGTTGAAATTA 60.492 50.000 0.00 0.00 0.00 1.40
2845 3291 1.715785 CCACCCCACCAGTTGAAATT 58.284 50.000 0.00 0.00 0.00 1.82
2846 3292 0.178935 CCCACCCCACCAGTTGAAAT 60.179 55.000 0.00 0.00 0.00 2.17
2847 3293 1.231641 CCCACCCCACCAGTTGAAA 59.768 57.895 0.00 0.00 0.00 2.69
2848 3294 2.931107 CCCACCCCACCAGTTGAA 59.069 61.111 0.00 0.00 0.00 2.69
2849 3295 3.897122 GCCCACCCCACCAGTTGA 61.897 66.667 0.00 0.00 0.00 3.18
2850 3296 4.217210 TGCCCACCCCACCAGTTG 62.217 66.667 0.00 0.00 0.00 3.16
2851 3297 3.902112 CTGCCCACCCCACCAGTT 61.902 66.667 0.00 0.00 0.00 3.16
2866 3312 2.774799 GGCTTTACGGGCATGGCTG 61.775 63.158 25.50 25.50 0.00 4.85
2867 3313 2.440247 GGCTTTACGGGCATGGCT 60.440 61.111 19.78 2.39 0.00 4.75
2868 3314 2.440247 AGGCTTTACGGGCATGGC 60.440 61.111 11.56 11.56 0.00 4.40
2869 3315 1.823899 GGAGGCTTTACGGGCATGG 60.824 63.158 0.00 0.00 0.00 3.66
2870 3316 2.180204 CGGAGGCTTTACGGGCATG 61.180 63.158 0.00 0.00 0.00 4.06
2871 3317 1.332144 TACGGAGGCTTTACGGGCAT 61.332 55.000 10.96 0.00 0.00 4.40
2872 3318 1.332144 ATACGGAGGCTTTACGGGCA 61.332 55.000 10.96 0.00 0.00 5.36
2873 3319 0.179065 AATACGGAGGCTTTACGGGC 60.179 55.000 10.96 0.00 0.00 6.13
2874 3320 1.861971 GAATACGGAGGCTTTACGGG 58.138 55.000 10.96 0.00 0.00 5.28
2875 3321 1.202336 ACGAATACGGAGGCTTTACGG 60.202 52.381 10.96 0.00 44.46 4.02
2876 3322 2.114825 GACGAATACGGAGGCTTTACG 58.885 52.381 5.80 5.80 44.46 3.18
2877 3323 2.467838 GGACGAATACGGAGGCTTTAC 58.532 52.381 0.00 0.00 44.46 2.01
2878 3324 1.066002 CGGACGAATACGGAGGCTTTA 59.934 52.381 0.00 0.00 44.46 1.85
2879 3325 0.179119 CGGACGAATACGGAGGCTTT 60.179 55.000 0.00 0.00 44.46 3.51
2880 3326 1.318158 ACGGACGAATACGGAGGCTT 61.318 55.000 0.00 0.00 44.46 4.35
2881 3327 1.318158 AACGGACGAATACGGAGGCT 61.318 55.000 0.00 0.00 44.46 4.58
2882 3328 1.140375 AACGGACGAATACGGAGGC 59.860 57.895 0.00 0.00 44.46 4.70
2883 3329 0.452987 TCAACGGACGAATACGGAGG 59.547 55.000 0.00 0.00 44.46 4.30
2884 3330 2.117137 CATCAACGGACGAATACGGAG 58.883 52.381 0.00 0.00 44.46 4.63
2885 3331 1.473677 ACATCAACGGACGAATACGGA 59.526 47.619 0.00 0.00 44.46 4.69
2886 3332 1.917273 ACATCAACGGACGAATACGG 58.083 50.000 0.00 0.00 44.46 4.02
2887 3333 2.466571 GCTACATCAACGGACGAATACG 59.533 50.000 0.00 0.00 45.75 3.06
2888 3334 3.441163 TGCTACATCAACGGACGAATAC 58.559 45.455 0.00 0.00 0.00 1.89
2889 3335 3.786516 TGCTACATCAACGGACGAATA 57.213 42.857 0.00 0.00 0.00 1.75
2890 3336 2.665649 TGCTACATCAACGGACGAAT 57.334 45.000 0.00 0.00 0.00 3.34
2891 3337 2.442212 TTGCTACATCAACGGACGAA 57.558 45.000 0.00 0.00 0.00 3.85
2892 3338 2.333926 CTTTGCTACATCAACGGACGA 58.666 47.619 0.00 0.00 0.00 4.20
2893 3339 1.201921 GCTTTGCTACATCAACGGACG 60.202 52.381 0.00 0.00 0.00 4.79
2894 3340 2.076863 AGCTTTGCTACATCAACGGAC 58.923 47.619 0.00 0.00 36.99 4.79
2895 3341 2.346803 GAGCTTTGCTACATCAACGGA 58.653 47.619 0.00 0.00 39.88 4.69
2896 3342 1.398390 GGAGCTTTGCTACATCAACGG 59.602 52.381 0.00 0.00 39.71 4.44
2897 3343 2.349886 GAGGAGCTTTGCTACATCAACG 59.650 50.000 4.51 0.00 42.99 4.10
2898 3344 2.349886 CGAGGAGCTTTGCTACATCAAC 59.650 50.000 4.51 0.00 42.99 3.18
2899 3345 2.621338 CGAGGAGCTTTGCTACATCAA 58.379 47.619 4.51 0.00 42.99 2.57
2900 3346 1.134699 CCGAGGAGCTTTGCTACATCA 60.135 52.381 4.51 0.00 42.99 3.07
2901 3347 1.576356 CCGAGGAGCTTTGCTACATC 58.424 55.000 4.51 0.00 42.99 3.06
2902 3348 0.462759 GCCGAGGAGCTTTGCTACAT 60.463 55.000 4.51 0.00 42.99 2.29
2903 3349 1.079127 GCCGAGGAGCTTTGCTACA 60.079 57.895 4.51 0.00 42.99 2.74
2904 3350 1.079127 TGCCGAGGAGCTTTGCTAC 60.079 57.895 0.00 0.00 39.88 3.58
2905 3351 1.079127 GTGCCGAGGAGCTTTGCTA 60.079 57.895 0.00 0.00 39.88 3.49
2906 3352 2.359230 GTGCCGAGGAGCTTTGCT 60.359 61.111 0.00 0.00 43.88 3.91
2907 3353 2.521958 TAGGTGCCGAGGAGCTTTGC 62.522 60.000 2.86 0.00 0.00 3.68
2908 3354 0.741221 GTAGGTGCCGAGGAGCTTTG 60.741 60.000 2.86 0.00 0.00 2.77
2909 3355 1.597461 GTAGGTGCCGAGGAGCTTT 59.403 57.895 2.86 0.00 0.00 3.51
2910 3356 2.359967 GGTAGGTGCCGAGGAGCTT 61.360 63.158 2.86 0.00 0.00 3.74
2911 3357 2.760385 GGTAGGTGCCGAGGAGCT 60.760 66.667 0.00 0.00 0.00 4.09
2912 3358 3.851128 GGGTAGGTGCCGAGGAGC 61.851 72.222 0.00 0.00 0.00 4.70
2913 3359 3.528370 CGGGTAGGTGCCGAGGAG 61.528 72.222 0.00 0.00 0.00 3.69
2914 3360 4.051167 TCGGGTAGGTGCCGAGGA 62.051 66.667 0.00 0.00 0.00 3.71
2915 3361 3.834799 GTCGGGTAGGTGCCGAGG 61.835 72.222 0.00 0.00 36.64 4.63
2916 3362 4.189188 CGTCGGGTAGGTGCCGAG 62.189 72.222 0.00 0.00 36.64 4.63
2917 3363 4.720902 TCGTCGGGTAGGTGCCGA 62.721 66.667 0.00 0.00 0.00 5.54
2918 3364 4.487412 GTCGTCGGGTAGGTGCCG 62.487 72.222 0.00 0.00 0.00 5.69
2934 3380 2.672996 GTGGGCGGCAATGTCAGT 60.673 61.111 12.47 0.00 0.00 3.41
2936 3382 2.983030 GTGTGGGCGGCAATGTCA 60.983 61.111 12.47 0.00 0.00 3.58
2985 3431 3.417185 GAAAATTTAGTCTTGAGCGCGG 58.583 45.455 8.83 0.00 0.00 6.46
2993 3439 5.974108 TCGATCTCCGGAAAATTTAGTCTT 58.026 37.500 5.23 0.00 39.14 3.01
2996 3442 5.127356 AGACTCGATCTCCGGAAAATTTAGT 59.873 40.000 5.23 9.51 39.14 2.24
3015 3461 1.214062 CTGTCACCGCCTGAGACTC 59.786 63.158 0.00 0.00 33.56 3.36
3022 3468 3.233980 TGTGCTCTGTCACCGCCT 61.234 61.111 0.00 0.00 36.17 5.52
3030 3476 2.851102 AGGCCTGGTGTGCTCTGT 60.851 61.111 3.11 0.00 0.00 3.41
3050 3496 0.107165 GGCTAGTCCCAATGGTCACC 60.107 60.000 0.00 0.00 0.00 4.02
3051 3497 3.478540 GGCTAGTCCCAATGGTCAC 57.521 57.895 0.00 0.00 0.00 3.67
3061 3507 1.069935 GGCTTGATCGGGCTAGTCC 59.930 63.158 2.21 2.21 0.00 3.85
3077 3523 3.961838 TACAATGTGGGTCGCCGGC 62.962 63.158 19.07 19.07 0.00 6.13
3083 3529 3.248602 GCTCATCGATTACAATGTGGGTC 59.751 47.826 0.00 0.00 0.00 4.46
3088 3534 2.102420 TCCCGCTCATCGATTACAATGT 59.898 45.455 0.00 0.00 41.67 2.71
3106 3552 2.095161 CCGCTCTCTCGTATATTGTCCC 60.095 54.545 0.00 0.00 0.00 4.46
3126 3572 3.371097 TTGTCATCGCCTCCTCGCC 62.371 63.158 0.00 0.00 0.00 5.54
3129 3575 0.250513 AACCTTGTCATCGCCTCCTC 59.749 55.000 0.00 0.00 0.00 3.71
3141 3587 0.396974 TGCTCCCTTGCAAACCTTGT 60.397 50.000 0.00 0.00 40.29 3.16
3150 3596 1.821332 CCTTCGGATGCTCCCTTGC 60.821 63.158 0.00 0.00 31.13 4.01
3165 3611 5.923733 AACATCTCGTTCTAGACATCCTT 57.076 39.130 0.00 0.00 29.27 3.36
3189 3635 1.617850 CTCGAGATCCCTCTCCCAATG 59.382 57.143 6.58 0.00 44.36 2.82
3191 3637 0.927029 TCTCGAGATCCCTCTCCCAA 59.073 55.000 12.08 0.00 44.36 4.12
3195 3641 0.591170 CGCTTCTCGAGATCCCTCTC 59.409 60.000 17.44 0.06 43.86 3.20
3209 3655 2.202058 GCGTCGTTCTTGCGCTTC 60.202 61.111 9.73 0.00 46.55 3.86
3213 3659 2.170985 CTTGGCGTCGTTCTTGCG 59.829 61.111 0.00 0.00 0.00 4.85
3234 3680 1.863155 TTGACCCTGGATGAAGGCCC 61.863 60.000 0.00 0.00 35.85 5.80
3245 3691 1.211457 CCATCCTCCTTCTTGACCCTG 59.789 57.143 0.00 0.00 0.00 4.45
3246 3692 1.589414 CCATCCTCCTTCTTGACCCT 58.411 55.000 0.00 0.00 0.00 4.34
3263 3709 0.911769 AGTCATCGCTGAAATCCCCA 59.088 50.000 0.00 0.00 31.85 4.96
3265 3711 2.611292 CAGAAGTCATCGCTGAAATCCC 59.389 50.000 0.00 0.00 31.85 3.85
3266 3712 3.308323 GTCAGAAGTCATCGCTGAAATCC 59.692 47.826 0.00 0.00 40.05 3.01
3267 3713 4.180057 AGTCAGAAGTCATCGCTGAAATC 58.820 43.478 0.00 0.00 40.05 2.17
3268 3714 4.180057 GAGTCAGAAGTCATCGCTGAAAT 58.820 43.478 0.00 0.00 40.05 2.17
3269 3715 3.579709 GAGTCAGAAGTCATCGCTGAAA 58.420 45.455 0.00 0.00 40.05 2.69
3270 3716 2.414691 CGAGTCAGAAGTCATCGCTGAA 60.415 50.000 0.00 0.00 40.05 3.02
3271 3717 1.131315 CGAGTCAGAAGTCATCGCTGA 59.869 52.381 0.00 0.00 36.40 4.26
3272 3718 1.543614 CGAGTCAGAAGTCATCGCTG 58.456 55.000 0.00 0.00 0.00 5.18
3273 3719 0.453793 CCGAGTCAGAAGTCATCGCT 59.546 55.000 0.00 0.00 32.23 4.93
3274 3720 0.452184 TCCGAGTCAGAAGTCATCGC 59.548 55.000 0.00 0.00 32.23 4.58
3284 3730 6.100004 ACACACTACAAATTATCCGAGTCAG 58.900 40.000 0.00 0.00 0.00 3.51
3298 3744 6.600032 ACATCCAAACTACAAACACACTACAA 59.400 34.615 0.00 0.00 0.00 2.41
3319 3769 6.224420 ACAAACTTAAACTAGCACGACATC 57.776 37.500 0.00 0.00 0.00 3.06
3341 3791 7.072030 CAGTCTGACATGCAAACTTAAACTAC 58.928 38.462 10.88 0.00 0.00 2.73
3347 3797 4.085357 ACCAGTCTGACATGCAAACTTA 57.915 40.909 10.88 0.00 0.00 2.24
3350 3800 3.715628 AAACCAGTCTGACATGCAAAC 57.284 42.857 10.88 0.00 0.00 2.93
3356 3806 7.280356 ACTACAAACTTAAACCAGTCTGACAT 58.720 34.615 10.88 0.00 0.00 3.06
3357 3807 6.646267 ACTACAAACTTAAACCAGTCTGACA 58.354 36.000 10.88 0.00 0.00 3.58
3358 3808 7.279313 TCAACTACAAACTTAAACCAGTCTGAC 59.721 37.037 0.00 0.00 0.00 3.51
3359 3809 7.332557 TCAACTACAAACTTAAACCAGTCTGA 58.667 34.615 0.00 0.00 0.00 3.27
3361 3811 8.747538 ATTCAACTACAAACTTAAACCAGTCT 57.252 30.769 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.