Multiple sequence alignment - TraesCS3A01G453600

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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 TraesCS3A01G453600 chr3A 100.000 2780 0 0 1 2780 691771174 691768395 0.000000e+00 5134.0
1 TraesCS3A01G453600 chr3A 98.077 364 6 1 2418 2780 738333442 738333079 1.400000e-177 632.0
2 TraesCS3A01G453600 chr3A 92.547 322 23 1 536 857 11539501 11539181 7.020000e-126 460.0
3 TraesCS3A01G453600 chr3A 92.000 325 25 1 533 857 679922358 679922681 3.260000e-124 455.0
4 TraesCS3A01G453600 chr3A 74.127 630 120 30 1025 1637 691954898 691954295 1.300000e-53 220.0
5 TraesCS3A01G453600 chr3B 96.104 1463 53 3 964 2425 738106473 738105014 0.000000e+00 2383.0
6 TraesCS3A01G453600 chr3B 73.007 1041 202 50 980 1989 738110109 738109117 2.710000e-75 292.0
7 TraesCS3A01G453600 chr3B 94.828 58 2 1 1473 1530 742109825 742109769 3.810000e-14 89.8
8 TraesCS3A01G453600 chr3D 93.047 1467 90 7 964 2429 554816821 554818276 0.000000e+00 2134.0
9 TraesCS3A01G453600 chr3D 74.065 1230 256 40 992 2190 554949423 554950620 1.960000e-121 446.0
10 TraesCS3A01G453600 chr3D 88.545 323 35 2 536 857 572122343 572122022 9.340000e-105 390.0
11 TraesCS3A01G453600 chr3D 72.035 1248 251 62 977 2191 554796593 554797775 5.860000e-72 281.0
12 TraesCS3A01G453600 chr7A 94.963 536 26 1 1 535 108769508 108768973 0.000000e+00 839.0
13 TraesCS3A01G453600 chr7A 94.600 537 25 3 1 535 707415795 707415261 0.000000e+00 828.0
14 TraesCS3A01G453600 chr7A 94.590 536 24 3 1 535 26540082 26540613 0.000000e+00 824.0
15 TraesCS3A01G453600 chr7A 94.590 536 23 4 1 535 713729172 713729702 0.000000e+00 824.0
16 TraesCS3A01G453600 chr7A 99.150 353 3 0 2428 2780 704288707 704289059 1.090000e-178 636.0
17 TraesCS3A01G453600 chr7A 93.168 322 22 0 536 857 707414851 707414530 9.010000e-130 473.0
18 TraesCS3A01G453600 chr7A 86.256 422 25 8 536 924 17776464 17776043 7.120000e-116 427.0
19 TraesCS3A01G453600 chr7A 98.113 53 1 0 1478 1530 79645560 79645508 2.950000e-15 93.5
20 TraesCS3A01G453600 chr5A 94.590 536 26 2 1 535 160014377 160014910 0.000000e+00 826.0
21 TraesCS3A01G453600 chr5A 98.864 352 4 0 2429 2780 698857304 698856953 1.820000e-176 628.0
22 TraesCS3A01G453600 chr5A 89.189 407 29 5 533 924 517013990 517014396 6.920000e-136 494.0
23 TraesCS3A01G453600 chr5A 95.185 270 13 0 536 805 30745149 30744880 7.120000e-116 427.0
24 TraesCS3A01G453600 chr5B 94.403 536 27 2 1 535 63451639 63452172 0.000000e+00 821.0
25 TraesCS3A01G453600 chr6B 94.216 536 28 2 1 535 111245393 111244860 0.000000e+00 815.0
26 TraesCS3A01G453600 chr6B 98.864 352 3 1 2429 2780 18437834 18438184 6.540000e-176 627.0
27 TraesCS3A01G453600 chr1B 94.052 538 29 2 1 537 48938543 48938008 0.000000e+00 813.0
28 TraesCS3A01G453600 chr6A 94.030 536 29 2 1 535 86903789 86904322 0.000000e+00 809.0
29 TraesCS3A01G453600 chr6A 95.726 117 2 2 846 961 525231404 525231290 4.730000e-43 185.0
30 TraesCS3A01G453600 chr7B 98.596 356 5 0 2425 2780 125224515 125224160 5.050000e-177 630.0
31 TraesCS3A01G453600 chr7B 98.315 356 5 1 2426 2780 628353139 628353494 8.460000e-175 623.0
32 TraesCS3A01G453600 chr7B 98.295 352 6 0 2429 2780 99796295 99795944 3.930000e-173 617.0
33 TraesCS3A01G453600 chr7B 98.295 352 5 1 2429 2780 125248346 125247996 1.410000e-172 616.0
34 TraesCS3A01G453600 chr7B 75.830 542 97 16 1025 1543 121777863 121777333 7.690000e-61 244.0
35 TraesCS3A01G453600 chr4B 98.295 352 6 0 2429 2780 30592315 30592666 3.930000e-173 617.0
36 TraesCS3A01G453600 chr2D 88.078 411 28 11 532 924 594831041 594831448 4.190000e-128 468.0
37 TraesCS3A01G453600 chr2D 91.331 323 26 2 536 857 25876381 25876702 9.140000e-120 440.0
38 TraesCS3A01G453600 chr2D 92.683 123 6 2 843 964 578502030 578502150 1.020000e-39 174.0
39 TraesCS3A01G453600 chr7D 75.830 542 97 17 1025 1543 160562688 160562158 7.690000e-61 244.0
40 TraesCS3A01G453600 chr4A 81.009 337 17 17 568 857 614694137 614694473 1.000000e-54 224.0
41 TraesCS3A01G453600 chr4A 93.443 122 5 2 843 963 614694492 614694611 7.910000e-41 178.0
42 TraesCS3A01G453600 chr4D 93.548 124 5 2 843 965 419244234 419244355 6.120000e-42 182.0
43 TraesCS3A01G453600 chr2A 94.915 118 3 2 847 963 18219793 18219908 6.120000e-42 182.0
44 TraesCS3A01G453600 chr2A 94.068 118 4 2 847 963 18205151 18205266 2.850000e-40 176.0
45 TraesCS3A01G453600 chr2A 94.068 118 4 2 847 963 18245324 18245439 2.850000e-40 176.0
46 TraesCS3A01G453600 chr2B 93.443 122 5 2 843 963 733456094 733456213 7.910000e-41 178.0
47 TraesCS3A01G453600 chr6D 91.339 127 8 2 838 963 457683916 457684040 1.320000e-38 171.0


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 TraesCS3A01G453600 chr3A 691768395 691771174 2779 True 5134.0 5134 100.0000 1 2780 1 chr3A.!!$R2 2779
1 TraesCS3A01G453600 chr3A 691954295 691954898 603 True 220.0 220 74.1270 1025 1637 1 chr3A.!!$R3 612
2 TraesCS3A01G453600 chr3B 738105014 738110109 5095 True 1337.5 2383 84.5555 964 2425 2 chr3B.!!$R2 1461
3 TraesCS3A01G453600 chr3D 554816821 554818276 1455 False 2134.0 2134 93.0470 964 2429 1 chr3D.!!$F2 1465
4 TraesCS3A01G453600 chr3D 554949423 554950620 1197 False 446.0 446 74.0650 992 2190 1 chr3D.!!$F3 1198
5 TraesCS3A01G453600 chr3D 554796593 554797775 1182 False 281.0 281 72.0350 977 2191 1 chr3D.!!$F1 1214
6 TraesCS3A01G453600 chr7A 108768973 108769508 535 True 839.0 839 94.9630 1 535 1 chr7A.!!$R3 534
7 TraesCS3A01G453600 chr7A 26540082 26540613 531 False 824.0 824 94.5900 1 535 1 chr7A.!!$F1 534
8 TraesCS3A01G453600 chr7A 713729172 713729702 530 False 824.0 824 94.5900 1 535 1 chr7A.!!$F3 534
9 TraesCS3A01G453600 chr7A 707414530 707415795 1265 True 650.5 828 93.8840 1 857 2 chr7A.!!$R4 856
10 TraesCS3A01G453600 chr5A 160014377 160014910 533 False 826.0 826 94.5900 1 535 1 chr5A.!!$F1 534
11 TraesCS3A01G453600 chr5B 63451639 63452172 533 False 821.0 821 94.4030 1 535 1 chr5B.!!$F1 534
12 TraesCS3A01G453600 chr6B 111244860 111245393 533 True 815.0 815 94.2160 1 535 1 chr6B.!!$R1 534
13 TraesCS3A01G453600 chr1B 48938008 48938543 535 True 813.0 813 94.0520 1 537 1 chr1B.!!$R1 536
14 TraesCS3A01G453600 chr6A 86903789 86904322 533 False 809.0 809 94.0300 1 535 1 chr6A.!!$F1 534
15 TraesCS3A01G453600 chr7B 121777333 121777863 530 True 244.0 244 75.8300 1025 1543 1 chr7B.!!$R2 518
16 TraesCS3A01G453600 chr7D 160562158 160562688 530 True 244.0 244 75.8300 1025 1543 1 chr7D.!!$R1 518

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
878 1291 0.097674 TCTACGTCGACGGCTTTAGC 59.902 55.0 37.89 0.0 44.95 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2683 5397 0.339162 TGCAATGGGGAATGATGGGT 59.661 50.0 0.0 0.0 0.0 4.51 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
32 33 3.623863 CCGACGTGCAATTAGTTTTTGT 58.376 40.909 0.00 0.00 0.00 2.83
34 35 4.523813 CGACGTGCAATTAGTTTTTGTCT 58.476 39.130 0.00 0.00 0.00 3.41
49 50 8.794335 AGTTTTTGTCTTAACAGAAGAAGTCT 57.206 30.769 0.00 0.00 36.57 3.24
111 114 3.253188 TGCTCGTTAATTTGCTTCAAGCT 59.747 39.130 11.57 0.00 42.97 3.74
138 141 3.751175 GGAATAGTGTAAACTGCACTGCA 59.249 43.478 3.11 3.11 45.59 4.41
198 201 0.868406 AAGCTAAGCAACGTGAGCAC 59.132 50.000 14.66 0.00 37.40 4.40
284 288 2.549349 GCGAGGTGGGACTAAAAACAGA 60.549 50.000 0.00 0.00 0.00 3.41
318 322 3.953612 TCATTAGTACCGGTTCGTGGTAT 59.046 43.478 15.04 0.00 43.50 2.73
411 415 2.159014 TCATGGCATGAACCGGTACTAC 60.159 50.000 27.03 0.23 36.11 2.73
413 417 1.624312 TGGCATGAACCGGTACTACAA 59.376 47.619 8.00 0.00 0.00 2.41
552 965 1.369321 GGAGCCCTGGATCGATGAC 59.631 63.158 0.54 0.00 0.00 3.06
564 977 2.505498 CGATGACGTGGCGTAGTGC 61.505 63.158 0.00 0.00 41.37 4.40
605 1018 2.011617 AACCATGGGCCAGGCCTATC 62.012 60.000 30.52 14.43 46.95 2.08
607 1020 2.158810 CATGGGCCAGGCCTATCCT 61.159 63.158 30.52 6.51 46.95 3.24
672 1085 0.248907 AAACGACGCGGATCGATGAT 60.249 50.000 23.52 6.03 45.13 2.45
802 1215 2.353030 CACGCGATATGCCGACGA 60.353 61.111 15.93 0.00 42.08 4.20
805 1218 3.097728 GCGATATGCCGACGACCG 61.098 66.667 0.00 0.00 37.76 4.79
862 1275 3.777910 GCCGACGGCCCCTTTCTA 61.778 66.667 28.74 0.00 44.06 2.10
863 1276 2.186125 CCGACGGCCCCTTTCTAC 59.814 66.667 0.00 0.00 0.00 2.59
864 1277 2.202703 CGACGGCCCCTTTCTACG 60.203 66.667 0.00 0.00 0.00 3.51
866 1279 1.153686 GACGGCCCCTTTCTACGTC 60.154 63.158 0.00 0.00 45.42 4.34
867 1280 2.202703 CGGCCCCTTTCTACGTCG 60.203 66.667 0.00 0.00 0.00 5.12
868 1281 2.703798 CGGCCCCTTTCTACGTCGA 61.704 63.158 0.00 0.00 0.00 4.20
869 1282 1.153686 GGCCCCTTTCTACGTCGAC 60.154 63.158 5.18 5.18 0.00 4.20
871 1284 1.138247 CCCCTTTCTACGTCGACGG 59.862 63.158 37.89 23.24 44.95 4.79
872 1285 1.515736 CCCTTTCTACGTCGACGGC 60.516 63.158 37.89 1.64 44.95 5.68
873 1286 1.505353 CCTTTCTACGTCGACGGCT 59.495 57.895 37.89 22.84 44.95 5.52
874 1287 0.109412 CCTTTCTACGTCGACGGCTT 60.109 55.000 37.89 22.11 44.95 4.35
876 1289 2.414559 CCTTTCTACGTCGACGGCTTTA 60.415 50.000 37.89 21.71 44.95 1.85
877 1290 2.532531 TTCTACGTCGACGGCTTTAG 57.467 50.000 37.89 28.60 44.95 1.85
878 1291 0.097674 TCTACGTCGACGGCTTTAGC 59.902 55.000 37.89 0.00 44.95 3.09
887 1300 2.824489 GGCTTTAGCTGGGCCGTC 60.824 66.667 9.93 0.00 41.70 4.79
888 1301 3.195698 GCTTTAGCTGGGCCGTCG 61.196 66.667 0.00 0.00 38.21 5.12
890 1303 4.090588 TTTAGCTGGGCCGTCGGG 62.091 66.667 14.38 0.00 0.00 5.14
908 1321 3.159298 GGTATGCCCATCTATGCCG 57.841 57.895 0.00 0.00 0.00 5.69
909 1322 0.613260 GGTATGCCCATCTATGCCGA 59.387 55.000 0.00 0.00 0.00 5.54
910 1323 1.676014 GGTATGCCCATCTATGCCGAC 60.676 57.143 0.00 0.00 0.00 4.79
911 1324 0.246360 TATGCCCATCTATGCCGACG 59.754 55.000 0.00 0.00 0.00 5.12
912 1325 2.357517 GCCCATCTATGCCGACGG 60.358 66.667 10.29 10.29 0.00 4.79
913 1326 2.343758 CCCATCTATGCCGACGGG 59.656 66.667 17.22 0.00 28.93 5.28
914 1327 2.343758 CCATCTATGCCGACGGGG 59.656 66.667 17.22 1.99 39.58 5.73
933 1346 1.941812 CCGTCGGCATAGATTTGGC 59.058 57.895 0.00 0.00 38.71 4.52
938 1351 1.941812 GGCATAGATTTGGCCGTCG 59.058 57.895 0.00 0.00 38.04 5.12
939 1352 1.507141 GGCATAGATTTGGCCGTCGG 61.507 60.000 6.99 6.99 38.04 4.79
950 1363 3.416490 CCGTCGGCAACACAAGTT 58.584 55.556 0.00 0.00 38.88 2.66
951 1364 1.725066 CCGTCGGCAACACAAGTTT 59.275 52.632 0.00 0.00 35.28 2.66
952 1365 0.099791 CCGTCGGCAACACAAGTTTT 59.900 50.000 0.00 0.00 35.28 2.43
953 1366 1.468395 CCGTCGGCAACACAAGTTTTT 60.468 47.619 0.00 0.00 35.28 1.94
954 1367 1.843753 CGTCGGCAACACAAGTTTTTC 59.156 47.619 0.00 0.00 35.28 2.29
956 1369 3.507786 GTCGGCAACACAAGTTTTTCTT 58.492 40.909 0.00 0.00 35.28 2.52
1019 3693 4.329545 GGCGTCAGGCACAGGGAA 62.330 66.667 0.00 0.00 46.16 3.97
1034 3708 3.864789 AGGGAACTGCAAGAAGAAGAA 57.135 42.857 0.00 0.00 41.13 2.52
1075 3749 0.458025 GTCCGAGCTTTCCGACGATT 60.458 55.000 0.00 0.00 0.00 3.34
1124 3798 0.692476 TACAGGTCCACATGCTGCTT 59.308 50.000 0.00 0.00 0.00 3.91
1200 3874 3.322466 CTGCCCCAGTCGACCCTT 61.322 66.667 13.01 0.00 0.00 3.95
1306 4001 0.169672 CTCGTTCATGCTGCCCAAAG 59.830 55.000 0.00 0.00 0.00 2.77
1319 4018 2.682856 TGCCCAAAGACGATAGATTTGC 59.317 45.455 0.00 0.00 41.52 3.68
1525 4232 1.614317 CCTCCCACTTCCATGTGTTCC 60.614 57.143 0.00 0.00 36.30 3.62
1832 4543 5.824904 ATCTATCACAAGGACAATTGCAC 57.175 39.130 5.05 0.00 33.28 4.57
1953 4664 4.672587 TTGGGAATAGAGTTCTCATCGG 57.327 45.455 2.64 0.00 0.00 4.18
1977 4691 6.435428 GTTGTGTGGAATTACGATGTTTTCT 58.565 36.000 0.00 0.00 0.00 2.52
2083 4797 7.710907 GCTAATGTCATACACAGTGGATTCTAA 59.289 37.037 5.31 0.00 38.85 2.10
2084 4798 9.770097 CTAATGTCATACACAGTGGATTCTAAT 57.230 33.333 5.31 0.00 38.85 1.73
2167 4881 4.199432 TCCTTTCTTCTCAGACTCATGC 57.801 45.455 0.00 0.00 0.00 4.06
2435 5149 1.996798 TCTACCTAGATTCAGGGCCG 58.003 55.000 0.00 0.00 40.29 6.13
2436 5150 0.969894 CTACCTAGATTCAGGGCCGG 59.030 60.000 0.00 0.00 40.29 6.13
2437 5151 0.263765 TACCTAGATTCAGGGCCGGT 59.736 55.000 1.90 1.93 40.29 5.28
2438 5152 1.049289 ACCTAGATTCAGGGCCGGTC 61.049 60.000 1.90 0.00 40.29 4.79
2439 5153 1.749033 CTAGATTCAGGGCCGGTCC 59.251 63.158 20.43 20.43 0.00 4.46
2440 5154 0.760945 CTAGATTCAGGGCCGGTCCT 60.761 60.000 25.80 25.80 37.71 3.85
2441 5155 0.559205 TAGATTCAGGGCCGGTCCTA 59.441 55.000 31.20 15.08 34.92 2.94
2442 5156 0.326238 AGATTCAGGGCCGGTCCTAA 60.326 55.000 31.20 21.95 34.92 2.69
2443 5157 0.106894 GATTCAGGGCCGGTCCTAAG 59.893 60.000 31.20 17.76 34.92 2.18
2444 5158 0.326238 ATTCAGGGCCGGTCCTAAGA 60.326 55.000 31.20 20.17 34.92 2.10
2445 5159 0.326238 TTCAGGGCCGGTCCTAAGAT 60.326 55.000 31.20 1.25 34.92 2.40
2446 5160 0.326238 TCAGGGCCGGTCCTAAGATT 60.326 55.000 31.20 0.25 34.92 2.40
2447 5161 0.546598 CAGGGCCGGTCCTAAGATTT 59.453 55.000 31.20 0.00 34.92 2.17
2448 5162 1.064685 CAGGGCCGGTCCTAAGATTTT 60.065 52.381 31.20 0.00 34.92 1.82
2449 5163 1.064685 AGGGCCGGTCCTAAGATTTTG 60.065 52.381 30.70 0.00 34.92 2.44
2450 5164 1.389555 GGCCGGTCCTAAGATTTTGG 58.610 55.000 1.90 0.00 0.00 3.28
2451 5165 1.389555 GCCGGTCCTAAGATTTTGGG 58.610 55.000 1.90 0.00 36.33 4.12
2452 5166 2.022238 GCCGGTCCTAAGATTTTGGGG 61.022 57.143 1.90 0.00 35.74 4.96
2453 5167 1.409661 CCGGTCCTAAGATTTTGGGGG 60.410 57.143 0.00 0.00 35.74 5.40
2454 5168 1.776662 GGTCCTAAGATTTTGGGGGC 58.223 55.000 0.00 0.00 35.74 5.80
2455 5169 1.688311 GGTCCTAAGATTTTGGGGGCC 60.688 57.143 0.00 0.00 35.74 5.80
2456 5170 0.634465 TCCTAAGATTTTGGGGGCCC 59.366 55.000 15.76 15.76 35.74 5.80
2457 5171 0.755327 CCTAAGATTTTGGGGGCCCG 60.755 60.000 17.79 0.00 39.42 6.13
2458 5172 0.755327 CTAAGATTTTGGGGGCCCGG 60.755 60.000 17.79 0.00 39.42 5.73
2459 5173 2.231540 TAAGATTTTGGGGGCCCGGG 62.232 60.000 19.09 19.09 39.42 5.73
2471 5185 4.992511 CCCGGGGCGAAACGACAA 62.993 66.667 14.71 0.00 36.10 3.18
2472 5186 2.744709 CCGGGGCGAAACGACAAT 60.745 61.111 0.00 0.00 36.10 2.71
2473 5187 2.746803 CCGGGGCGAAACGACAATC 61.747 63.158 0.00 0.00 36.10 2.67
2474 5188 2.746803 CGGGGCGAAACGACAATCC 61.747 63.158 0.00 0.00 36.10 3.01
2475 5189 2.746803 GGGGCGAAACGACAATCCG 61.747 63.158 0.00 0.00 36.10 4.18
2476 5190 2.746803 GGGCGAAACGACAATCCGG 61.747 63.158 0.00 0.00 36.10 5.14
2477 5191 2.746803 GGCGAAACGACAATCCGGG 61.747 63.158 0.00 0.00 33.63 5.73
2478 5192 2.746803 GCGAAACGACAATCCGGGG 61.747 63.158 0.00 0.00 0.00 5.73
2479 5193 2.746803 CGAAACGACAATCCGGGGC 61.747 63.158 0.00 0.00 0.00 5.80
2480 5194 2.360726 AAACGACAATCCGGGGCC 60.361 61.111 0.00 0.00 0.00 5.80
2481 5195 3.931190 AAACGACAATCCGGGGCCC 62.931 63.158 15.76 15.76 0.00 5.80
2483 5197 4.109675 CGACAATCCGGGGCCCTT 62.110 66.667 24.38 4.61 0.00 3.95
2484 5198 2.359011 GACAATCCGGGGCCCTTT 59.641 61.111 24.38 8.78 0.00 3.11
2485 5199 2.037208 ACAATCCGGGGCCCTTTG 59.963 61.111 24.38 21.90 0.00 2.77
2486 5200 2.759560 CAATCCGGGGCCCTTTGG 60.760 66.667 24.38 21.07 0.00 3.28
2501 5215 4.529716 CCTTTGGGGCCCTTAGTATAAA 57.470 45.455 25.93 12.79 0.00 1.40
2502 5216 5.074746 CCTTTGGGGCCCTTAGTATAAAT 57.925 43.478 25.93 0.00 0.00 1.40
2503 5217 4.832823 CCTTTGGGGCCCTTAGTATAAATG 59.167 45.833 25.93 8.85 0.00 2.32
2504 5218 3.518992 TGGGGCCCTTAGTATAAATGC 57.481 47.619 25.93 0.00 0.00 3.56
2505 5219 2.109304 TGGGGCCCTTAGTATAAATGCC 59.891 50.000 25.93 0.00 36.68 4.40
2506 5220 2.378886 GGGGCCCTTAGTATAAATGCCT 59.621 50.000 24.38 0.00 37.55 4.75
2507 5221 3.590182 GGGGCCCTTAGTATAAATGCCTA 59.410 47.826 24.38 0.00 37.55 3.93
2508 5222 4.229812 GGGGCCCTTAGTATAAATGCCTAT 59.770 45.833 24.38 0.00 37.55 2.57
2509 5223 5.281558 GGGGCCCTTAGTATAAATGCCTATT 60.282 44.000 24.38 0.00 37.55 1.73
2510 5224 6.069264 GGGGCCCTTAGTATAAATGCCTATTA 60.069 42.308 24.38 0.00 37.55 0.98
2511 5225 7.407729 GGGCCCTTAGTATAAATGCCTATTAA 58.592 38.462 17.04 0.00 37.55 1.40
2512 5226 8.059461 GGGCCCTTAGTATAAATGCCTATTAAT 58.941 37.037 17.04 0.00 37.55 1.40
2556 5270 9.807649 ATAATTTGTATCAAAGAAAGTGCATCC 57.192 29.630 0.00 0.00 0.00 3.51
2557 5271 6.647334 TTTGTATCAAAGAAAGTGCATCCA 57.353 33.333 0.00 0.00 0.00 3.41
2558 5272 6.647334 TTGTATCAAAGAAAGTGCATCCAA 57.353 33.333 0.00 0.00 0.00 3.53
2559 5273 6.647334 TGTATCAAAGAAAGTGCATCCAAA 57.353 33.333 0.00 0.00 0.00 3.28
2560 5274 7.048629 TGTATCAAAGAAAGTGCATCCAAAA 57.951 32.000 0.00 0.00 0.00 2.44
2561 5275 7.669427 TGTATCAAAGAAAGTGCATCCAAAAT 58.331 30.769 0.00 0.00 0.00 1.82
2562 5276 7.599621 TGTATCAAAGAAAGTGCATCCAAAATG 59.400 33.333 0.00 0.00 0.00 2.32
2563 5277 6.159299 TCAAAGAAAGTGCATCCAAAATGA 57.841 33.333 0.00 0.00 0.00 2.57
2564 5278 6.761312 TCAAAGAAAGTGCATCCAAAATGAT 58.239 32.000 0.00 0.00 0.00 2.45
2565 5279 7.218614 TCAAAGAAAGTGCATCCAAAATGATT 58.781 30.769 0.00 0.00 0.00 2.57
2566 5280 7.171848 TCAAAGAAAGTGCATCCAAAATGATTG 59.828 33.333 0.00 0.00 0.00 2.67
2567 5281 6.105397 AGAAAGTGCATCCAAAATGATTGT 57.895 33.333 0.00 0.00 0.00 2.71
2568 5282 5.929992 AGAAAGTGCATCCAAAATGATTGTG 59.070 36.000 0.00 0.00 0.00 3.33
2569 5283 3.592059 AGTGCATCCAAAATGATTGTGC 58.408 40.909 0.00 0.00 0.00 4.57
2570 5284 3.007074 AGTGCATCCAAAATGATTGTGCA 59.993 39.130 0.00 3.30 38.62 4.57
2571 5285 3.936453 GTGCATCCAAAATGATTGTGCAT 59.064 39.130 8.91 0.00 42.23 3.96
2572 5286 5.105269 AGTGCATCCAAAATGATTGTGCATA 60.105 36.000 8.91 0.00 42.23 3.14
2573 5287 5.756347 GTGCATCCAAAATGATTGTGCATAT 59.244 36.000 8.91 0.00 42.23 1.78
2574 5288 5.986741 TGCATCCAAAATGATTGTGCATATC 59.013 36.000 0.00 0.00 36.33 1.63
2575 5289 5.986741 GCATCCAAAATGATTGTGCATATCA 59.013 36.000 14.46 14.46 36.53 2.15
2576 5290 6.073980 GCATCCAAAATGATTGTGCATATCAC 60.074 38.462 14.42 0.00 45.82 3.06
2619 5333 9.692325 AGCTTCAAATATTTCTCCTAACATTCT 57.308 29.630 0.00 0.00 0.00 2.40
2620 5334 9.727627 GCTTCAAATATTTCTCCTAACATTCTG 57.272 33.333 0.00 0.00 0.00 3.02
2626 5340 8.845413 ATATTTCTCCTAACATTCTGAGATGC 57.155 34.615 0.00 0.00 34.11 3.91
2627 5341 5.682234 TTCTCCTAACATTCTGAGATGCA 57.318 39.130 0.00 0.00 34.11 3.96
2628 5342 5.682234 TCTCCTAACATTCTGAGATGCAA 57.318 39.130 0.00 0.00 0.00 4.08
2629 5343 6.053632 TCTCCTAACATTCTGAGATGCAAA 57.946 37.500 0.00 0.00 0.00 3.68
2630 5344 6.475504 TCTCCTAACATTCTGAGATGCAAAA 58.524 36.000 0.00 0.00 0.00 2.44
2631 5345 7.114754 TCTCCTAACATTCTGAGATGCAAAAT 58.885 34.615 0.00 0.00 0.00 1.82
2632 5346 7.281774 TCTCCTAACATTCTGAGATGCAAAATC 59.718 37.037 0.00 0.00 0.00 2.17
2633 5347 6.885918 TCCTAACATTCTGAGATGCAAAATCA 59.114 34.615 0.00 0.00 0.00 2.57
2634 5348 6.971184 CCTAACATTCTGAGATGCAAAATCAC 59.029 38.462 0.00 0.00 0.00 3.06
2635 5349 6.585695 AACATTCTGAGATGCAAAATCACT 57.414 33.333 0.00 0.00 0.00 3.41
2636 5350 7.692460 AACATTCTGAGATGCAAAATCACTA 57.308 32.000 0.00 0.00 0.00 2.74
2637 5351 7.317842 ACATTCTGAGATGCAAAATCACTAG 57.682 36.000 0.00 0.00 0.00 2.57
2638 5352 5.808042 TTCTGAGATGCAAAATCACTAGC 57.192 39.130 0.00 0.00 0.00 3.42
2639 5353 5.095145 TCTGAGATGCAAAATCACTAGCT 57.905 39.130 0.00 0.00 0.00 3.32
2640 5354 5.494724 TCTGAGATGCAAAATCACTAGCTT 58.505 37.500 0.00 0.00 0.00 3.74
2641 5355 5.583854 TCTGAGATGCAAAATCACTAGCTTC 59.416 40.000 0.00 0.00 0.00 3.86
2642 5356 4.330894 TGAGATGCAAAATCACTAGCTTCG 59.669 41.667 0.00 0.00 36.59 3.79
2643 5357 4.256920 AGATGCAAAATCACTAGCTTCGT 58.743 39.130 0.00 0.00 36.59 3.85
2644 5358 3.811722 TGCAAAATCACTAGCTTCGTG 57.188 42.857 8.98 8.98 0.00 4.35
2645 5359 2.095768 TGCAAAATCACTAGCTTCGTGC 60.096 45.455 10.12 0.00 43.29 5.34
2656 5370 1.789506 GCTTCGTGCTCTTTCAGTCT 58.210 50.000 0.00 0.00 38.95 3.24
2657 5371 2.139118 GCTTCGTGCTCTTTCAGTCTT 58.861 47.619 0.00 0.00 38.95 3.01
2658 5372 2.545946 GCTTCGTGCTCTTTCAGTCTTT 59.454 45.455 0.00 0.00 38.95 2.52
2659 5373 3.363477 GCTTCGTGCTCTTTCAGTCTTTC 60.363 47.826 0.00 0.00 38.95 2.62
2660 5374 3.452755 TCGTGCTCTTTCAGTCTTTCA 57.547 42.857 0.00 0.00 0.00 2.69
2661 5375 3.995199 TCGTGCTCTTTCAGTCTTTCAT 58.005 40.909 0.00 0.00 0.00 2.57
2662 5376 4.380531 TCGTGCTCTTTCAGTCTTTCATT 58.619 39.130 0.00 0.00 0.00 2.57
2663 5377 5.538118 TCGTGCTCTTTCAGTCTTTCATTA 58.462 37.500 0.00 0.00 0.00 1.90
2664 5378 5.989168 TCGTGCTCTTTCAGTCTTTCATTAA 59.011 36.000 0.00 0.00 0.00 1.40
2665 5379 6.650807 TCGTGCTCTTTCAGTCTTTCATTAAT 59.349 34.615 0.00 0.00 0.00 1.40
2666 5380 7.817478 TCGTGCTCTTTCAGTCTTTCATTAATA 59.183 33.333 0.00 0.00 0.00 0.98
2667 5381 8.607459 CGTGCTCTTTCAGTCTTTCATTAATAT 58.393 33.333 0.00 0.00 0.00 1.28
2668 5382 9.713740 GTGCTCTTTCAGTCTTTCATTAATATG 57.286 33.333 0.00 0.00 0.00 1.78
2669 5383 8.400947 TGCTCTTTCAGTCTTTCATTAATATGC 58.599 33.333 0.00 0.00 0.00 3.14
2670 5384 7.859875 GCTCTTTCAGTCTTTCATTAATATGCC 59.140 37.037 0.00 0.00 0.00 4.40
2671 5385 9.118300 CTCTTTCAGTCTTTCATTAATATGCCT 57.882 33.333 0.00 0.00 0.00 4.75
2672 5386 9.113838 TCTTTCAGTCTTTCATTAATATGCCTC 57.886 33.333 0.00 0.00 0.00 4.70
2673 5387 7.807977 TTCAGTCTTTCATTAATATGCCTCC 57.192 36.000 0.00 0.00 0.00 4.30
2674 5388 6.899089 TCAGTCTTTCATTAATATGCCTCCA 58.101 36.000 0.00 0.00 0.00 3.86
2675 5389 6.767902 TCAGTCTTTCATTAATATGCCTCCAC 59.232 38.462 0.00 0.00 0.00 4.02
2676 5390 6.769822 CAGTCTTTCATTAATATGCCTCCACT 59.230 38.462 0.00 0.00 0.00 4.00
2677 5391 6.995091 AGTCTTTCATTAATATGCCTCCACTC 59.005 38.462 0.00 0.00 0.00 3.51
2678 5392 6.767902 GTCTTTCATTAATATGCCTCCACTCA 59.232 38.462 0.00 0.00 0.00 3.41
2679 5393 6.767902 TCTTTCATTAATATGCCTCCACTCAC 59.232 38.462 0.00 0.00 0.00 3.51
2680 5394 5.628797 TCATTAATATGCCTCCACTCACA 57.371 39.130 0.00 0.00 0.00 3.58
2681 5395 6.000246 TCATTAATATGCCTCCACTCACAA 58.000 37.500 0.00 0.00 0.00 3.33
2682 5396 6.422333 TCATTAATATGCCTCCACTCACAAA 58.578 36.000 0.00 0.00 0.00 2.83
2683 5397 6.889177 TCATTAATATGCCTCCACTCACAAAA 59.111 34.615 0.00 0.00 0.00 2.44
2684 5398 6.509418 TTAATATGCCTCCACTCACAAAAC 57.491 37.500 0.00 0.00 0.00 2.43
2685 5399 1.620822 ATGCCTCCACTCACAAAACC 58.379 50.000 0.00 0.00 0.00 3.27
2686 5400 0.467290 TGCCTCCACTCACAAAACCC 60.467 55.000 0.00 0.00 0.00 4.11
2687 5401 0.467290 GCCTCCACTCACAAAACCCA 60.467 55.000 0.00 0.00 0.00 4.51
2688 5402 1.823250 GCCTCCACTCACAAAACCCAT 60.823 52.381 0.00 0.00 0.00 4.00
2689 5403 2.162681 CCTCCACTCACAAAACCCATC 58.837 52.381 0.00 0.00 0.00 3.51
2690 5404 2.488891 CCTCCACTCACAAAACCCATCA 60.489 50.000 0.00 0.00 0.00 3.07
2691 5405 3.424703 CTCCACTCACAAAACCCATCAT 58.575 45.455 0.00 0.00 0.00 2.45
2692 5406 3.828451 CTCCACTCACAAAACCCATCATT 59.172 43.478 0.00 0.00 0.00 2.57
2693 5407 3.826157 TCCACTCACAAAACCCATCATTC 59.174 43.478 0.00 0.00 0.00 2.67
2694 5408 3.056607 CCACTCACAAAACCCATCATTCC 60.057 47.826 0.00 0.00 0.00 3.01
2695 5409 3.056607 CACTCACAAAACCCATCATTCCC 60.057 47.826 0.00 0.00 0.00 3.97
2696 5410 2.497273 CTCACAAAACCCATCATTCCCC 59.503 50.000 0.00 0.00 0.00 4.81
2697 5411 2.158249 TCACAAAACCCATCATTCCCCA 60.158 45.455 0.00 0.00 0.00 4.96
2698 5412 2.839425 CACAAAACCCATCATTCCCCAT 59.161 45.455 0.00 0.00 0.00 4.00
2699 5413 3.263937 CACAAAACCCATCATTCCCCATT 59.736 43.478 0.00 0.00 0.00 3.16
2700 5414 3.263937 ACAAAACCCATCATTCCCCATTG 59.736 43.478 0.00 0.00 0.00 2.82
2701 5415 1.499368 AACCCATCATTCCCCATTGC 58.501 50.000 0.00 0.00 0.00 3.56
2702 5416 0.339162 ACCCATCATTCCCCATTGCA 59.661 50.000 0.00 0.00 0.00 4.08
2703 5417 0.754472 CCCATCATTCCCCATTGCAC 59.246 55.000 0.00 0.00 0.00 4.57
2704 5418 1.690209 CCCATCATTCCCCATTGCACT 60.690 52.381 0.00 0.00 0.00 4.40
2705 5419 1.684983 CCATCATTCCCCATTGCACTC 59.315 52.381 0.00 0.00 0.00 3.51
2706 5420 2.662866 CATCATTCCCCATTGCACTCT 58.337 47.619 0.00 0.00 0.00 3.24
2707 5421 2.905415 TCATTCCCCATTGCACTCTT 57.095 45.000 0.00 0.00 0.00 2.85
2708 5422 2.449464 TCATTCCCCATTGCACTCTTG 58.551 47.619 0.00 0.00 0.00 3.02
2725 5439 7.092137 CACTCTTGCATTTATCAGAATTGGA 57.908 36.000 0.00 0.00 0.00 3.53
2726 5440 7.541162 CACTCTTGCATTTATCAGAATTGGAA 58.459 34.615 0.00 0.00 0.00 3.53
2727 5441 8.030692 CACTCTTGCATTTATCAGAATTGGAAA 58.969 33.333 0.00 0.00 0.00 3.13
2728 5442 8.248945 ACTCTTGCATTTATCAGAATTGGAAAG 58.751 33.333 0.00 0.00 0.00 2.62
2729 5443 7.037438 TCTTGCATTTATCAGAATTGGAAAGC 58.963 34.615 0.00 0.00 0.00 3.51
2730 5444 6.534475 TGCATTTATCAGAATTGGAAAGCT 57.466 33.333 0.00 0.00 0.00 3.74
2731 5445 6.938507 TGCATTTATCAGAATTGGAAAGCTT 58.061 32.000 0.00 0.00 0.00 3.74
2732 5446 8.065473 TGCATTTATCAGAATTGGAAAGCTTA 57.935 30.769 0.00 0.00 0.00 3.09
2733 5447 7.975616 TGCATTTATCAGAATTGGAAAGCTTAC 59.024 33.333 0.00 0.00 0.00 2.34
2734 5448 7.975616 GCATTTATCAGAATTGGAAAGCTTACA 59.024 33.333 0.00 0.00 0.00 2.41
2735 5449 9.512435 CATTTATCAGAATTGGAAAGCTTACAG 57.488 33.333 0.00 0.00 0.00 2.74
2736 5450 5.573337 ATCAGAATTGGAAAGCTTACAGC 57.427 39.130 0.00 0.00 42.84 4.40
2748 5462 2.976729 GCTTACAGCGAAAACGAAACA 58.023 42.857 0.00 0.00 0.00 2.83
2749 5463 2.712466 GCTTACAGCGAAAACGAAACAC 59.288 45.455 0.00 0.00 0.00 3.32
2750 5464 3.545426 GCTTACAGCGAAAACGAAACACT 60.545 43.478 0.00 0.00 0.00 3.55
2751 5465 4.584394 CTTACAGCGAAAACGAAACACTT 58.416 39.130 0.00 0.00 0.00 3.16
2752 5466 3.481112 ACAGCGAAAACGAAACACTTT 57.519 38.095 0.00 0.00 0.00 2.66
2753 5467 3.422655 ACAGCGAAAACGAAACACTTTC 58.577 40.909 0.00 0.00 36.32 2.62
2754 5468 3.126343 ACAGCGAAAACGAAACACTTTCT 59.874 39.130 0.00 0.00 37.52 2.52
2755 5469 4.095610 CAGCGAAAACGAAACACTTTCTT 58.904 39.130 0.00 0.00 37.52 2.52
2756 5470 4.557301 CAGCGAAAACGAAACACTTTCTTT 59.443 37.500 0.00 0.00 37.52 2.52
2757 5471 4.557301 AGCGAAAACGAAACACTTTCTTTG 59.443 37.500 0.00 0.00 37.52 2.77
2758 5472 4.322539 GCGAAAACGAAACACTTTCTTTGT 59.677 37.500 0.00 0.00 37.52 2.83
2759 5473 5.717491 GCGAAAACGAAACACTTTCTTTGTG 60.717 40.000 0.00 0.00 40.87 3.33
2761 5475 6.446659 AAAACGAAACACTTTCTTTGTGTG 57.553 33.333 0.13 0.00 46.46 3.82
2762 5476 4.759516 ACGAAACACTTTCTTTGTGTGT 57.240 36.364 0.13 0.00 46.46 3.72
2770 5484 7.778470 ACACTTTCTTTGTGTGTTTTGAAAA 57.222 28.000 0.00 0.00 45.57 2.29
2771 5485 8.202745 ACACTTTCTTTGTGTGTTTTGAAAAA 57.797 26.923 0.00 0.00 45.57 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
111 114 5.761234 AGTGCAGTTTACACTATTCCGAAAA 59.239 36.000 0.00 0.00 46.32 2.29
138 141 2.159226 GGTAGACTGCACGAAGCTATGT 60.159 50.000 6.22 0.00 45.94 2.29
198 201 2.426738 AGACGATGAAGAAGAGGCTCAG 59.573 50.000 18.26 0.00 0.00 3.35
284 288 5.305585 CGGTACTAATGAGGTTATGGCAAT 58.694 41.667 0.00 0.00 0.00 3.56
318 322 3.770589 CCATTTGGTGCCGGTTCA 58.229 55.556 1.90 0.00 0.00 3.18
329 333 1.616091 GGCCCCACCATCACCATTTG 61.616 60.000 0.00 0.00 38.86 2.32
564 977 2.027605 CCACGTCATCGATCCCCG 59.972 66.667 0.00 0.22 40.62 5.73
572 985 2.327568 CATGGTTTTTGCCACGTCATC 58.672 47.619 0.00 0.00 41.94 2.92
682 1095 3.909312 GACGTCATCGATCTGCGG 58.091 61.111 11.55 0.00 41.33 5.69
802 1215 3.192212 GCTTAGAATATACCTACGGCGGT 59.808 47.826 13.24 1.39 41.10 5.68
805 1218 4.620184 CGTTGCTTAGAATATACCTACGGC 59.380 45.833 0.00 0.00 0.00 5.68
857 1270 2.855180 CTAAAGCCGTCGACGTAGAAA 58.145 47.619 33.49 16.47 37.74 2.52
860 1273 0.098376 AGCTAAAGCCGTCGACGTAG 59.902 55.000 33.49 27.12 43.38 3.51
861 1274 0.179181 CAGCTAAAGCCGTCGACGTA 60.179 55.000 33.49 19.40 43.38 3.57
862 1275 1.443872 CAGCTAAAGCCGTCGACGT 60.444 57.895 33.49 19.32 43.38 4.34
863 1276 2.158959 CCAGCTAAAGCCGTCGACG 61.159 63.158 30.33 30.33 43.38 5.12
864 1277 1.810030 CCCAGCTAAAGCCGTCGAC 60.810 63.158 5.18 5.18 43.38 4.20
866 1279 3.195698 GCCCAGCTAAAGCCGTCG 61.196 66.667 0.00 0.00 43.38 5.12
867 1280 2.824489 GGCCCAGCTAAAGCCGTC 60.824 66.667 5.19 0.00 43.38 4.79
871 1284 3.195698 CGACGGCCCAGCTAAAGC 61.196 66.667 0.00 0.00 42.49 3.51
872 1285 2.511600 CCGACGGCCCAGCTAAAG 60.512 66.667 0.00 0.00 0.00 1.85
873 1286 4.090588 CCCGACGGCCCAGCTAAA 62.091 66.667 8.86 0.00 0.00 1.85
878 1291 4.235762 CATACCCCGACGGCCCAG 62.236 72.222 8.86 0.00 33.26 4.45
890 1303 0.613260 TCGGCATAGATGGGCATACC 59.387 55.000 0.00 0.00 40.81 2.73
893 1306 1.004560 CGTCGGCATAGATGGGCAT 60.005 57.895 0.00 0.00 0.00 4.40
894 1307 2.421314 CGTCGGCATAGATGGGCA 59.579 61.111 0.00 0.00 0.00 5.36
897 1310 2.343758 CCCCGTCGGCATAGATGG 59.656 66.667 5.50 7.19 44.79 3.51
915 1328 1.507141 GGCCAAATCTATGCCGACGG 61.507 60.000 10.29 10.29 35.08 4.79
916 1329 1.941812 GGCCAAATCTATGCCGACG 59.058 57.895 0.00 0.00 35.08 5.12
920 1333 1.507141 CCGACGGCCAAATCTATGCC 61.507 60.000 2.24 0.00 41.85 4.40
921 1334 1.941812 CCGACGGCCAAATCTATGC 59.058 57.895 2.24 0.00 0.00 3.14
922 1335 1.941812 GCCGACGGCCAAATCTATG 59.058 57.895 28.74 0.00 44.06 2.23
923 1336 4.456806 GCCGACGGCCAAATCTAT 57.543 55.556 28.74 0.00 44.06 1.98
933 1346 0.099791 AAAACTTGTGTTGCCGACGG 59.900 50.000 10.29 10.29 36.39 4.79
935 1348 3.145212 AGAAAAACTTGTGTTGCCGAC 57.855 42.857 0.00 0.00 36.39 4.79
936 1349 3.859411 AAGAAAAACTTGTGTTGCCGA 57.141 38.095 0.00 0.00 37.45 5.54
947 1360 3.875134 CACCGGTCACTACAAGAAAAACT 59.125 43.478 2.59 0.00 0.00 2.66
948 1361 3.002965 CCACCGGTCACTACAAGAAAAAC 59.997 47.826 2.59 0.00 0.00 2.43
949 1362 3.118334 TCCACCGGTCACTACAAGAAAAA 60.118 43.478 2.59 0.00 0.00 1.94
950 1363 2.435069 TCCACCGGTCACTACAAGAAAA 59.565 45.455 2.59 0.00 0.00 2.29
951 1364 2.040939 TCCACCGGTCACTACAAGAAA 58.959 47.619 2.59 0.00 0.00 2.52
952 1365 1.342174 GTCCACCGGTCACTACAAGAA 59.658 52.381 2.59 0.00 0.00 2.52
953 1366 0.963962 GTCCACCGGTCACTACAAGA 59.036 55.000 2.59 0.00 0.00 3.02
954 1367 0.677288 TGTCCACCGGTCACTACAAG 59.323 55.000 2.59 0.00 0.00 3.16
956 1369 0.677288 CTTGTCCACCGGTCACTACA 59.323 55.000 2.59 3.67 0.00 2.74
957 1370 0.677842 ACTTGTCCACCGGTCACTAC 59.322 55.000 2.59 0.56 0.00 2.73
958 1371 0.963962 GACTTGTCCACCGGTCACTA 59.036 55.000 2.59 0.01 0.00 2.74
959 1372 0.759436 AGACTTGTCCACCGGTCACT 60.759 55.000 2.59 0.00 0.00 3.41
960 1373 0.319641 GAGACTTGTCCACCGGTCAC 60.320 60.000 2.59 4.96 0.00 3.67
962 1375 0.391597 TTGAGACTTGTCCACCGGTC 59.608 55.000 2.59 0.00 0.00 4.79
1006 3680 1.993701 TTGCAGTTCCCTGTGCCTGA 61.994 55.000 0.00 0.00 41.02 3.86
1019 3693 3.557595 CGTGTCTTTCTTCTTCTTGCAGT 59.442 43.478 0.00 0.00 0.00 4.40
1034 3708 1.313812 CGGGCTACTCTCCGTGTCTT 61.314 60.000 0.00 0.00 41.23 3.01
1200 3874 0.326595 TTTGGTAGAAGATGCCGGCA 59.673 50.000 34.80 34.80 36.21 5.69
1306 4001 2.797156 AGTGCATCGCAAATCTATCGTC 59.203 45.455 0.00 0.00 41.47 4.20
1319 4018 0.370273 GCCGTCTAACAAGTGCATCG 59.630 55.000 0.00 0.00 0.00 3.84
1525 4232 0.038892 AAATCAGCAGGCGCAAACTG 60.039 50.000 10.83 13.13 42.27 3.16
1832 4543 5.175859 TCAGAAGTACCCTTATTTGCGAAG 58.824 41.667 0.00 0.00 0.00 3.79
1953 4664 6.435428 AGAAAACATCGTAATTCCACACAAC 58.565 36.000 0.00 0.00 0.00 3.32
2030 4744 2.365617 ACTTGATTGGTGACTCGTGACT 59.634 45.455 0.00 0.00 0.00 3.41
2083 4797 3.994392 CACATATAAAACGGCGCTCCTAT 59.006 43.478 6.90 1.60 0.00 2.57
2084 4798 3.068448 TCACATATAAAACGGCGCTCCTA 59.932 43.478 6.90 0.00 0.00 2.94
2167 4881 2.484651 AGAGTACTAGTGCCGATATGCG 59.515 50.000 5.39 0.00 40.47 4.73
2269 4983 2.223782 TGTCAGGCACATGCAAAAACTC 60.224 45.455 6.15 0.00 44.36 3.01
2420 5134 1.749033 GACCGGCCCTGAATCTAGG 59.251 63.158 0.00 0.00 37.59 3.02
2429 5143 1.064685 CAAAATCTTAGGACCGGCCCT 60.065 52.381 15.88 15.88 40.29 5.19
2430 5144 1.389555 CAAAATCTTAGGACCGGCCC 58.610 55.000 0.00 0.00 37.37 5.80
2431 5145 1.389555 CCAAAATCTTAGGACCGGCC 58.610 55.000 0.00 3.58 0.00 6.13
2432 5146 1.389555 CCCAAAATCTTAGGACCGGC 58.610 55.000 0.00 0.00 0.00 6.13
2433 5147 1.409661 CCCCCAAAATCTTAGGACCGG 60.410 57.143 0.00 0.00 0.00 5.28
2434 5148 2.022238 GCCCCCAAAATCTTAGGACCG 61.022 57.143 0.00 0.00 0.00 4.79
2435 5149 1.688311 GGCCCCCAAAATCTTAGGACC 60.688 57.143 0.00 0.00 0.00 4.46
2436 5150 1.688311 GGGCCCCCAAAATCTTAGGAC 60.688 57.143 12.23 0.00 35.81 3.85
2437 5151 0.634465 GGGCCCCCAAAATCTTAGGA 59.366 55.000 12.23 0.00 35.81 2.94
2438 5152 0.755327 CGGGCCCCCAAAATCTTAGG 60.755 60.000 18.66 0.00 35.37 2.69
2439 5153 0.755327 CCGGGCCCCCAAAATCTTAG 60.755 60.000 18.66 0.00 35.37 2.18
2440 5154 1.308326 CCGGGCCCCCAAAATCTTA 59.692 57.895 18.66 0.00 35.37 2.10
2441 5155 2.038813 CCGGGCCCCCAAAATCTT 59.961 61.111 18.66 0.00 35.37 2.40
2442 5156 4.074408 CCCGGGCCCCCAAAATCT 62.074 66.667 18.66 0.00 35.37 2.40
2454 5168 4.992511 TTGTCGTTTCGCCCCGGG 62.993 66.667 15.80 15.80 0.00 5.73
2455 5169 2.744709 ATTGTCGTTTCGCCCCGG 60.745 61.111 0.00 0.00 0.00 5.73
2456 5170 2.746803 GGATTGTCGTTTCGCCCCG 61.747 63.158 0.00 0.00 0.00 5.73
2457 5171 2.746803 CGGATTGTCGTTTCGCCCC 61.747 63.158 0.00 0.00 0.00 5.80
2458 5172 2.746803 CCGGATTGTCGTTTCGCCC 61.747 63.158 0.00 0.00 0.00 6.13
2459 5173 2.746803 CCCGGATTGTCGTTTCGCC 61.747 63.158 0.73 0.00 0.00 5.54
2460 5174 2.746803 CCCCGGATTGTCGTTTCGC 61.747 63.158 0.73 0.00 0.00 4.70
2461 5175 2.746803 GCCCCGGATTGTCGTTTCG 61.747 63.158 0.73 0.00 0.00 3.46
2462 5176 2.404186 GGCCCCGGATTGTCGTTTC 61.404 63.158 0.73 0.00 0.00 2.78
2463 5177 2.360726 GGCCCCGGATTGTCGTTT 60.361 61.111 0.73 0.00 0.00 3.60
2464 5178 4.419921 GGGCCCCGGATTGTCGTT 62.420 66.667 12.23 0.00 0.00 3.85
2466 5180 3.638592 AAAGGGCCCCGGATTGTCG 62.639 63.158 21.43 0.00 0.00 4.35
2467 5181 2.052104 CAAAGGGCCCCGGATTGTC 61.052 63.158 21.43 0.00 0.00 3.18
2468 5182 2.037208 CAAAGGGCCCCGGATTGT 59.963 61.111 21.43 0.00 0.00 2.71
2469 5183 2.759560 CCAAAGGGCCCCGGATTG 60.760 66.667 21.43 18.23 0.00 2.67
2470 5184 4.074408 CCCAAAGGGCCCCGGATT 62.074 66.667 21.43 2.26 35.35 3.01
2480 5194 4.529716 TTTATACTAAGGGCCCCAAAGG 57.470 45.455 21.43 7.25 39.47 3.11
2481 5195 4.280929 GCATTTATACTAAGGGCCCCAAAG 59.719 45.833 21.43 16.28 0.00 2.77
2482 5196 4.219919 GCATTTATACTAAGGGCCCCAAA 58.780 43.478 21.43 7.98 0.00 3.28
2483 5197 3.437344 GGCATTTATACTAAGGGCCCCAA 60.437 47.826 21.43 5.68 33.93 4.12
2484 5198 2.109304 GGCATTTATACTAAGGGCCCCA 59.891 50.000 21.43 5.68 33.93 4.96
2485 5199 2.378886 AGGCATTTATACTAAGGGCCCC 59.621 50.000 21.43 0.00 40.75 5.80
2486 5200 3.808834 AGGCATTTATACTAAGGGCCC 57.191 47.619 16.46 16.46 40.75 5.80
2530 5244 9.807649 GGATGCACTTTCTTTGATACAAATTAT 57.192 29.630 0.00 0.00 0.00 1.28
2531 5245 8.801299 TGGATGCACTTTCTTTGATACAAATTA 58.199 29.630 0.00 0.00 0.00 1.40
2532 5246 7.669427 TGGATGCACTTTCTTTGATACAAATT 58.331 30.769 0.00 0.00 0.00 1.82
2533 5247 7.230849 TGGATGCACTTTCTTTGATACAAAT 57.769 32.000 0.00 0.00 0.00 2.32
2534 5248 6.647334 TGGATGCACTTTCTTTGATACAAA 57.353 33.333 0.00 0.00 0.00 2.83
2535 5249 6.647334 TTGGATGCACTTTCTTTGATACAA 57.353 33.333 0.00 0.00 0.00 2.41
2536 5250 6.647334 TTTGGATGCACTTTCTTTGATACA 57.353 33.333 0.00 0.00 0.00 2.29
2537 5251 7.814107 TCATTTTGGATGCACTTTCTTTGATAC 59.186 33.333 0.00 0.00 0.00 2.24
2538 5252 7.894708 TCATTTTGGATGCACTTTCTTTGATA 58.105 30.769 0.00 0.00 0.00 2.15
2539 5253 6.761312 TCATTTTGGATGCACTTTCTTTGAT 58.239 32.000 0.00 0.00 0.00 2.57
2540 5254 6.159299 TCATTTTGGATGCACTTTCTTTGA 57.841 33.333 0.00 0.00 0.00 2.69
2541 5255 7.041644 ACAATCATTTTGGATGCACTTTCTTTG 60.042 33.333 0.00 0.00 0.00 2.77
2542 5256 6.993902 ACAATCATTTTGGATGCACTTTCTTT 59.006 30.769 0.00 0.00 0.00 2.52
2543 5257 6.425721 CACAATCATTTTGGATGCACTTTCTT 59.574 34.615 0.00 0.00 0.00 2.52
2544 5258 5.929992 CACAATCATTTTGGATGCACTTTCT 59.070 36.000 0.00 0.00 0.00 2.52
2545 5259 5.390145 GCACAATCATTTTGGATGCACTTTC 60.390 40.000 0.00 0.00 0.00 2.62
2546 5260 4.453136 GCACAATCATTTTGGATGCACTTT 59.547 37.500 0.00 0.00 0.00 2.66
2547 5261 3.998341 GCACAATCATTTTGGATGCACTT 59.002 39.130 0.00 0.00 0.00 3.16
2548 5262 3.007074 TGCACAATCATTTTGGATGCACT 59.993 39.130 0.00 0.00 0.00 4.40
2549 5263 3.327626 TGCACAATCATTTTGGATGCAC 58.672 40.909 0.00 0.00 0.00 4.57
2550 5264 3.679824 TGCACAATCATTTTGGATGCA 57.320 38.095 0.00 0.00 0.00 3.96
2551 5265 5.986741 TGATATGCACAATCATTTTGGATGC 59.013 36.000 9.04 0.00 0.00 3.91
2552 5266 7.402811 GTGATATGCACAATCATTTTGGATG 57.597 36.000 14.74 0.00 46.91 3.51
2593 5307 9.692325 AGAATGTTAGGAGAAATATTTGAAGCT 57.308 29.630 5.17 0.00 0.00 3.74
2594 5308 9.727627 CAGAATGTTAGGAGAAATATTTGAAGC 57.272 33.333 5.17 0.00 0.00 3.86
2600 5314 9.282569 GCATCTCAGAATGTTAGGAGAAATATT 57.717 33.333 0.00 0.00 39.60 1.28
2601 5315 8.435187 TGCATCTCAGAATGTTAGGAGAAATAT 58.565 33.333 0.00 0.00 39.60 1.28
2602 5316 7.795047 TGCATCTCAGAATGTTAGGAGAAATA 58.205 34.615 0.00 0.00 39.60 1.40
2603 5317 6.656902 TGCATCTCAGAATGTTAGGAGAAAT 58.343 36.000 0.00 0.00 39.60 2.17
2604 5318 6.053632 TGCATCTCAGAATGTTAGGAGAAA 57.946 37.500 0.00 0.00 39.60 2.52
2605 5319 5.682234 TGCATCTCAGAATGTTAGGAGAA 57.318 39.130 0.00 0.00 39.60 2.87
2606 5320 5.682234 TTGCATCTCAGAATGTTAGGAGA 57.318 39.130 0.00 0.00 40.37 3.71
2607 5321 6.748333 TTTTGCATCTCAGAATGTTAGGAG 57.252 37.500 0.00 0.00 37.40 3.69
2608 5322 6.885918 TGATTTTGCATCTCAGAATGTTAGGA 59.114 34.615 0.00 0.00 37.40 2.94
2609 5323 6.971184 GTGATTTTGCATCTCAGAATGTTAGG 59.029 38.462 0.00 0.00 37.40 2.69
2610 5324 7.759465 AGTGATTTTGCATCTCAGAATGTTAG 58.241 34.615 0.00 0.00 37.40 2.34
2611 5325 7.692460 AGTGATTTTGCATCTCAGAATGTTA 57.308 32.000 0.00 0.00 37.40 2.41
2612 5326 6.585695 AGTGATTTTGCATCTCAGAATGTT 57.414 33.333 0.00 0.00 37.40 2.71
2613 5327 6.183360 GCTAGTGATTTTGCATCTCAGAATGT 60.183 38.462 0.00 0.00 37.40 2.71
2614 5328 6.038382 AGCTAGTGATTTTGCATCTCAGAATG 59.962 38.462 0.00 0.00 30.57 2.67
2615 5329 6.120905 AGCTAGTGATTTTGCATCTCAGAAT 58.879 36.000 0.00 0.00 32.80 2.40
2616 5330 5.494724 AGCTAGTGATTTTGCATCTCAGAA 58.505 37.500 0.00 0.00 0.00 3.02
2617 5331 5.095145 AGCTAGTGATTTTGCATCTCAGA 57.905 39.130 0.00 0.00 0.00 3.27
2618 5332 5.502058 CGAAGCTAGTGATTTTGCATCTCAG 60.502 44.000 0.00 0.00 0.00 3.35
2619 5333 4.330894 CGAAGCTAGTGATTTTGCATCTCA 59.669 41.667 0.00 0.00 0.00 3.27
2620 5334 4.331168 ACGAAGCTAGTGATTTTGCATCTC 59.669 41.667 0.00 0.00 0.00 2.75
2621 5335 4.093998 CACGAAGCTAGTGATTTTGCATCT 59.906 41.667 14.92 0.00 41.83 2.90
2622 5336 4.337763 CACGAAGCTAGTGATTTTGCATC 58.662 43.478 14.92 0.00 41.83 3.91
2623 5337 3.426695 GCACGAAGCTAGTGATTTTGCAT 60.427 43.478 21.88 0.00 41.83 3.96
2624 5338 2.095768 GCACGAAGCTAGTGATTTTGCA 60.096 45.455 21.88 0.00 41.83 4.08
2625 5339 2.509870 GCACGAAGCTAGTGATTTTGC 58.490 47.619 21.88 5.65 41.83 3.68
2637 5351 1.789506 AGACTGAAAGAGCACGAAGC 58.210 50.000 0.00 0.00 40.26 3.86
2638 5352 3.804325 TGAAAGACTGAAAGAGCACGAAG 59.196 43.478 0.00 0.00 37.43 3.79
2639 5353 3.792401 TGAAAGACTGAAAGAGCACGAA 58.208 40.909 0.00 0.00 37.43 3.85
2640 5354 3.452755 TGAAAGACTGAAAGAGCACGA 57.547 42.857 0.00 0.00 37.43 4.35
2641 5355 4.739046 AATGAAAGACTGAAAGAGCACG 57.261 40.909 0.00 0.00 37.43 5.34
2642 5356 9.713740 CATATTAATGAAAGACTGAAAGAGCAC 57.286 33.333 0.00 0.00 34.35 4.40
2643 5357 8.400947 GCATATTAATGAAAGACTGAAAGAGCA 58.599 33.333 0.00 0.00 34.35 4.26
2644 5358 7.859875 GGCATATTAATGAAAGACTGAAAGAGC 59.140 37.037 0.00 0.00 34.35 4.09
2645 5359 9.118300 AGGCATATTAATGAAAGACTGAAAGAG 57.882 33.333 0.00 0.00 34.35 2.85
2646 5360 9.113838 GAGGCATATTAATGAAAGACTGAAAGA 57.886 33.333 0.00 0.00 34.35 2.52
2647 5361 8.348507 GGAGGCATATTAATGAAAGACTGAAAG 58.651 37.037 0.00 0.00 35.86 2.62
2648 5362 7.833682 TGGAGGCATATTAATGAAAGACTGAAA 59.166 33.333 0.00 0.00 34.84 2.69
2649 5363 7.283127 GTGGAGGCATATTAATGAAAGACTGAA 59.717 37.037 0.00 0.00 34.84 3.02
2650 5364 6.767902 GTGGAGGCATATTAATGAAAGACTGA 59.232 38.462 0.00 0.00 34.84 3.41
2651 5365 6.769822 AGTGGAGGCATATTAATGAAAGACTG 59.230 38.462 0.00 0.00 34.84 3.51
2652 5366 6.904626 AGTGGAGGCATATTAATGAAAGACT 58.095 36.000 0.00 0.00 34.84 3.24
2653 5367 6.767902 TGAGTGGAGGCATATTAATGAAAGAC 59.232 38.462 0.00 0.00 34.84 3.01
2654 5368 6.767902 GTGAGTGGAGGCATATTAATGAAAGA 59.232 38.462 0.00 0.00 34.84 2.52
2655 5369 6.543465 TGTGAGTGGAGGCATATTAATGAAAG 59.457 38.462 0.00 0.00 34.84 2.62
2656 5370 6.422333 TGTGAGTGGAGGCATATTAATGAAA 58.578 36.000 0.00 0.00 34.84 2.69
2657 5371 6.000246 TGTGAGTGGAGGCATATTAATGAA 58.000 37.500 0.00 0.00 34.84 2.57
2658 5372 5.628797 TGTGAGTGGAGGCATATTAATGA 57.371 39.130 0.00 0.00 34.84 2.57
2659 5373 6.698008 TTTGTGAGTGGAGGCATATTAATG 57.302 37.500 0.00 0.00 36.09 1.90
2660 5374 6.096846 GGTTTTGTGAGTGGAGGCATATTAAT 59.903 38.462 0.00 0.00 0.00 1.40
2661 5375 5.417580 GGTTTTGTGAGTGGAGGCATATTAA 59.582 40.000 0.00 0.00 0.00 1.40
2662 5376 4.947388 GGTTTTGTGAGTGGAGGCATATTA 59.053 41.667 0.00 0.00 0.00 0.98
2663 5377 3.763897 GGTTTTGTGAGTGGAGGCATATT 59.236 43.478 0.00 0.00 0.00 1.28
2664 5378 3.356290 GGTTTTGTGAGTGGAGGCATAT 58.644 45.455 0.00 0.00 0.00 1.78
2665 5379 2.554344 GGGTTTTGTGAGTGGAGGCATA 60.554 50.000 0.00 0.00 0.00 3.14
2666 5380 1.620822 GGTTTTGTGAGTGGAGGCAT 58.379 50.000 0.00 0.00 0.00 4.40
2667 5381 0.467290 GGGTTTTGTGAGTGGAGGCA 60.467 55.000 0.00 0.00 0.00 4.75
2668 5382 0.467290 TGGGTTTTGTGAGTGGAGGC 60.467 55.000 0.00 0.00 0.00 4.70
2669 5383 2.162681 GATGGGTTTTGTGAGTGGAGG 58.837 52.381 0.00 0.00 0.00 4.30
2670 5384 2.862541 TGATGGGTTTTGTGAGTGGAG 58.137 47.619 0.00 0.00 0.00 3.86
2671 5385 3.524095 ATGATGGGTTTTGTGAGTGGA 57.476 42.857 0.00 0.00 0.00 4.02
2672 5386 3.056607 GGAATGATGGGTTTTGTGAGTGG 60.057 47.826 0.00 0.00 0.00 4.00
2673 5387 3.056607 GGGAATGATGGGTTTTGTGAGTG 60.057 47.826 0.00 0.00 0.00 3.51
2674 5388 3.165071 GGGAATGATGGGTTTTGTGAGT 58.835 45.455 0.00 0.00 0.00 3.41
2675 5389 2.497273 GGGGAATGATGGGTTTTGTGAG 59.503 50.000 0.00 0.00 0.00 3.51
2676 5390 2.158249 TGGGGAATGATGGGTTTTGTGA 60.158 45.455 0.00 0.00 0.00 3.58
2677 5391 2.255406 TGGGGAATGATGGGTTTTGTG 58.745 47.619 0.00 0.00 0.00 3.33
2678 5392 2.711895 TGGGGAATGATGGGTTTTGT 57.288 45.000 0.00 0.00 0.00 2.83
2679 5393 3.876341 CAATGGGGAATGATGGGTTTTG 58.124 45.455 0.00 0.00 0.00 2.44
2680 5394 2.239402 GCAATGGGGAATGATGGGTTTT 59.761 45.455 0.00 0.00 0.00 2.43
2681 5395 1.839354 GCAATGGGGAATGATGGGTTT 59.161 47.619 0.00 0.00 0.00 3.27
2682 5396 1.273724 TGCAATGGGGAATGATGGGTT 60.274 47.619 0.00 0.00 0.00 4.11
2683 5397 0.339162 TGCAATGGGGAATGATGGGT 59.661 50.000 0.00 0.00 0.00 4.51
2684 5398 0.754472 GTGCAATGGGGAATGATGGG 59.246 55.000 0.00 0.00 0.00 4.00
2685 5399 1.684983 GAGTGCAATGGGGAATGATGG 59.315 52.381 0.00 0.00 0.00 3.51
2686 5400 2.662866 AGAGTGCAATGGGGAATGATG 58.337 47.619 0.00 0.00 0.00 3.07
2687 5401 3.028850 CAAGAGTGCAATGGGGAATGAT 58.971 45.455 0.00 0.00 0.00 2.45
2688 5402 2.449464 CAAGAGTGCAATGGGGAATGA 58.551 47.619 0.00 0.00 0.00 2.57
2689 5403 2.953466 CAAGAGTGCAATGGGGAATG 57.047 50.000 0.00 0.00 0.00 2.67
2701 5415 7.092137 TCCAATTCTGATAAATGCAAGAGTG 57.908 36.000 0.00 0.00 0.00 3.51
2702 5416 7.707624 TTCCAATTCTGATAAATGCAAGAGT 57.292 32.000 0.00 0.00 0.00 3.24
2703 5417 7.222224 GCTTTCCAATTCTGATAAATGCAAGAG 59.778 37.037 0.00 0.00 0.00 2.85
2704 5418 7.037438 GCTTTCCAATTCTGATAAATGCAAGA 58.963 34.615 0.00 0.00 0.00 3.02
2705 5419 7.039882 AGCTTTCCAATTCTGATAAATGCAAG 58.960 34.615 0.00 0.00 0.00 4.01
2706 5420 6.938507 AGCTTTCCAATTCTGATAAATGCAA 58.061 32.000 0.00 0.00 0.00 4.08
2707 5421 6.534475 AGCTTTCCAATTCTGATAAATGCA 57.466 33.333 0.00 0.00 0.00 3.96
2708 5422 7.975616 TGTAAGCTTTCCAATTCTGATAAATGC 59.024 33.333 3.20 0.00 0.00 3.56
2709 5423 9.512435 CTGTAAGCTTTCCAATTCTGATAAATG 57.488 33.333 3.20 0.00 0.00 2.32
2729 5443 4.191662 AGTGTTTCGTTTTCGCTGTAAG 57.808 40.909 0.00 0.00 43.73 2.34
2730 5444 4.603231 AAGTGTTTCGTTTTCGCTGTAA 57.397 36.364 0.00 0.00 43.73 2.41
2731 5445 4.330620 AGAAAGTGTTTCGTTTTCGCTGTA 59.669 37.500 0.00 0.00 44.29 2.74
2732 5446 3.126343 AGAAAGTGTTTCGTTTTCGCTGT 59.874 39.130 0.00 0.00 44.29 4.40
2733 5447 3.680789 AGAAAGTGTTTCGTTTTCGCTG 58.319 40.909 0.00 0.00 44.29 5.18
2734 5448 4.351131 AAGAAAGTGTTTCGTTTTCGCT 57.649 36.364 0.00 0.00 44.29 4.93
2735 5449 4.322539 ACAAAGAAAGTGTTTCGTTTTCGC 59.677 37.500 0.00 0.00 44.29 4.70
2736 5450 5.760814 CACAAAGAAAGTGTTTCGTTTTCG 58.239 37.500 0.00 0.00 44.29 3.46


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

AutoCloner maintained by Alex Coulton.