Multiple sequence alignment - TraesCS3A01G480000

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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 TraesCS3A01G480000 chr3A 100.000 3053 0 0 1 3053 711216788 711219840 0.000000e+00 5638.0
1 TraesCS3A01G480000 chr3A 84.789 1420 156 36 783 2170 711202687 711204078 0.000000e+00 1371.0
2 TraesCS3A01G480000 chr3A 92.883 548 34 2 1511 2054 712571792 712571246 0.000000e+00 791.0
3 TraesCS3A01G480000 chr3A 83.553 608 44 27 1154 1724 712572380 712571792 4.510000e-143 518.0
4 TraesCS3A01G480000 chr3A 79.720 286 34 12 202 463 711202269 711202554 5.200000e-43 185.0
5 TraesCS3A01G480000 chr3A 89.286 56 5 1 2116 2170 712570922 712570867 5.460000e-08 69.4
6 TraesCS3A01G480000 chr3D 91.504 1636 64 33 641 2233 575725474 575727077 0.000000e+00 2182.0
7 TraesCS3A01G480000 chr3D 86.856 951 78 34 1133 2054 577255768 577254836 0.000000e+00 1020.0
8 TraesCS3A01G480000 chr3D 91.028 457 17 12 641 1096 577264842 577264409 2.030000e-166 595.0
9 TraesCS3A01G480000 chr3D 95.706 326 14 0 1519 1844 577264186 577263861 2.700000e-145 525.0
10 TraesCS3A01G480000 chr3D 93.269 104 7 0 490 593 36168900 36169003 1.470000e-33 154.0
11 TraesCS3A01G480000 chr3D 82.822 163 15 9 181 335 575725206 575725363 1.910000e-27 134.0
12 TraesCS3A01G480000 chr3D 86.441 118 2 6 2066 2171 577254316 577254201 1.920000e-22 117.0
13 TraesCS3A01G480000 chr3D 83.594 128 15 4 32 155 575725084 575725209 6.920000e-22 115.0
14 TraesCS3A01G480000 chr3D 97.059 34 1 0 2248 2281 575727065 575727098 1.180000e-04 58.4
15 TraesCS3A01G480000 chr3B 91.956 1268 60 11 895 2151 766631126 766632362 0.000000e+00 1738.0
16 TraesCS3A01G480000 chr3B 86.282 1232 117 16 898 2098 768904998 768903788 0.000000e+00 1291.0
17 TraesCS3A01G480000 chr3B 88.286 1050 79 21 1158 2173 769056273 769055234 0.000000e+00 1218.0
18 TraesCS3A01G480000 chr3B 85.324 988 86 11 898 1859 768929706 768928752 0.000000e+00 966.0
19 TraesCS3A01G480000 chr3B 85.977 435 26 14 93 493 766630466 766630899 1.680000e-117 433.0
20 TraesCS3A01G480000 chr3B 85.965 399 24 11 786 1182 769056575 769056207 6.130000e-107 398.0
21 TraesCS3A01G480000 chr3B 92.825 223 5 8 641 861 766630911 766631124 2.290000e-81 313.0
22 TraesCS3A01G480000 chr3B 85.965 228 13 4 671 898 768988478 768988270 3.060000e-55 226.0
23 TraesCS3A01G480000 chr3B 93.878 98 4 2 497 593 726477933 726477837 2.450000e-31 147.0
24 TraesCS3A01G480000 chr3B 88.462 78 4 4 2 74 766630396 766630473 4.190000e-14 89.8
25 TraesCS3A01G480000 chr3B 77.059 170 27 9 31 196 768988922 768988761 1.510000e-13 87.9
26 TraesCS3A01G480000 chr3B 76.744 172 24 9 31 196 769072435 769072274 7.020000e-12 82.4
27 TraesCS3A01G480000 chr3B 94.118 51 0 1 2248 2298 766632410 766632457 1.170000e-09 75.0
28 TraesCS3A01G480000 chr6B 85.075 1005 89 29 1208 2170 438386778 438385793 0.000000e+00 968.0
29 TraesCS3A01G480000 chr6B 91.667 108 8 1 490 597 516087997 516087891 6.820000e-32 148.0
30 TraesCS3A01G480000 chr6B 73.995 423 53 30 671 1081 438387213 438386836 5.350000e-23 119.0
31 TraesCS3A01G480000 chr1D 91.465 703 55 5 2353 3053 329506454 329507153 0.000000e+00 961.0
32 TraesCS3A01G480000 chr5D 91.429 700 57 3 2352 3050 464701900 464702597 0.000000e+00 957.0
33 TraesCS3A01G480000 chr5D 90.014 691 65 3 2365 3053 423231173 423231861 0.000000e+00 891.0
34 TraesCS3A01G480000 chr5D 91.589 107 7 2 497 602 262838791 262838686 2.450000e-31 147.0
35 TraesCS3A01G480000 chr6A 84.282 1037 94 34 1185 2179 399722103 399723112 0.000000e+00 948.0
36 TraesCS3A01G480000 chr7D 90.870 690 61 2 2365 3053 611665640 611664952 0.000000e+00 924.0
37 TraesCS3A01G480000 chr6D 85.606 924 77 26 1217 2095 276456740 276455828 0.000000e+00 918.0
38 TraesCS3A01G480000 chr6D 89.695 689 67 4 2366 3053 447067482 447066797 0.000000e+00 876.0
39 TraesCS3A01G480000 chr6D 93.814 97 6 0 497 593 428262137 428262041 2.450000e-31 147.0
40 TraesCS3A01G480000 chr6D 74.704 423 49 27 673 1081 276457191 276456813 5.310000e-28 135.0
41 TraesCS3A01G480000 chr2B 90.043 703 68 2 2352 3053 593663151 593662450 0.000000e+00 909.0
42 TraesCS3A01G480000 chr5B 89.616 703 70 3 2352 3053 617174753 617174053 0.000000e+00 891.0
43 TraesCS3A01G480000 chr1B 90.087 686 61 5 2370 3053 94009965 94009285 0.000000e+00 883.0
44 TraesCS3A01G480000 chr4B 89.489 704 63 8 2352 3053 666619931 666620625 0.000000e+00 880.0
45 TraesCS3A01G480000 chr4D 94.000 100 6 0 494 593 440044303 440044402 5.270000e-33 152.0
46 TraesCS3A01G480000 chr7B 93.814 97 6 0 497 593 244219307 244219403 2.450000e-31 147.0
47 TraesCS3A01G480000 chr2D 91.509 106 8 1 497 602 488233728 488233624 8.820000e-31 145.0
48 TraesCS3A01G480000 chr1A 89.908 109 11 0 485 593 586379334 586379226 1.140000e-29 141.0


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 TraesCS3A01G480000 chr3A 711216788 711219840 3052 False 5638.000000 5638 100.00000 1 3053 1 chr3A.!!$F1 3052
1 TraesCS3A01G480000 chr3A 711202269 711204078 1809 False 778.000000 1371 82.25450 202 2170 2 chr3A.!!$F2 1968
2 TraesCS3A01G480000 chr3A 712570867 712572380 1513 True 459.466667 791 88.57400 1154 2170 3 chr3A.!!$R1 1016
3 TraesCS3A01G480000 chr3D 575725084 575727098 2014 False 622.350000 2182 88.74475 32 2281 4 chr3D.!!$F2 2249
4 TraesCS3A01G480000 chr3D 577254201 577255768 1567 True 568.500000 1020 86.64850 1133 2171 2 chr3D.!!$R1 1038
5 TraesCS3A01G480000 chr3D 577263861 577264842 981 True 560.000000 595 93.36700 641 1844 2 chr3D.!!$R2 1203
6 TraesCS3A01G480000 chr3B 768903788 768904998 1210 True 1291.000000 1291 86.28200 898 2098 1 chr3B.!!$R2 1200
7 TraesCS3A01G480000 chr3B 768928752 768929706 954 True 966.000000 966 85.32400 898 1859 1 chr3B.!!$R3 961
8 TraesCS3A01G480000 chr3B 769055234 769056575 1341 True 808.000000 1218 87.12550 786 2173 2 chr3B.!!$R6 1387
9 TraesCS3A01G480000 chr3B 766630396 766632457 2061 False 529.760000 1738 90.66760 2 2298 5 chr3B.!!$F1 2296
10 TraesCS3A01G480000 chr6B 438385793 438387213 1420 True 543.500000 968 79.53500 671 2170 2 chr6B.!!$R2 1499
11 TraesCS3A01G480000 chr1D 329506454 329507153 699 False 961.000000 961 91.46500 2353 3053 1 chr1D.!!$F1 700
12 TraesCS3A01G480000 chr5D 464701900 464702597 697 False 957.000000 957 91.42900 2352 3050 1 chr5D.!!$F2 698
13 TraesCS3A01G480000 chr5D 423231173 423231861 688 False 891.000000 891 90.01400 2365 3053 1 chr5D.!!$F1 688
14 TraesCS3A01G480000 chr6A 399722103 399723112 1009 False 948.000000 948 84.28200 1185 2179 1 chr6A.!!$F1 994
15 TraesCS3A01G480000 chr7D 611664952 611665640 688 True 924.000000 924 90.87000 2365 3053 1 chr7D.!!$R1 688
16 TraesCS3A01G480000 chr6D 447066797 447067482 685 True 876.000000 876 89.69500 2366 3053 1 chr6D.!!$R2 687
17 TraesCS3A01G480000 chr6D 276455828 276457191 1363 True 526.500000 918 80.15500 673 2095 2 chr6D.!!$R3 1422
18 TraesCS3A01G480000 chr2B 593662450 593663151 701 True 909.000000 909 90.04300 2352 3053 1 chr2B.!!$R1 701
19 TraesCS3A01G480000 chr5B 617174053 617174753 700 True 891.000000 891 89.61600 2352 3053 1 chr5B.!!$R1 701
20 TraesCS3A01G480000 chr1B 94009285 94009965 680 True 883.000000 883 90.08700 2370 3053 1 chr1B.!!$R1 683
21 TraesCS3A01G480000 chr4B 666619931 666620625 694 False 880.000000 880 89.48900 2352 3053 1 chr4B.!!$F1 701

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
89 95 0.109086 CATTGACTCTCGACTGCCGT 60.109 55.0 0.0 0.0 39.75 5.68 F
1118 1335 0.245539 CCCACACCTACACCTACACG 59.754 60.0 0.0 0.0 0.00 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 1623 0.865111 CGTTCTTGAATCCACACGCA 59.135 50.0 0.00 0.0 0.00 5.24 R
2235 3609 0.040246 TGTCACGTGTATCGACGCAA 60.040 50.0 16.51 0.0 43.33 4.85 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
69 75 3.871594 GTGCCGTGTGATCTTTAGCTAAT 59.128 43.478 7.08 0.00 0.00 1.73
70 76 4.025647 GTGCCGTGTGATCTTTAGCTAATC 60.026 45.833 7.08 2.76 0.00 1.75
71 77 4.119862 GCCGTGTGATCTTTAGCTAATCA 58.880 43.478 7.08 5.58 0.00 2.57
72 78 4.752101 GCCGTGTGATCTTTAGCTAATCAT 59.248 41.667 7.08 2.18 32.45 2.45
73 79 5.237344 GCCGTGTGATCTTTAGCTAATCATT 59.763 40.000 7.08 0.00 32.45 2.57
74 80 6.653183 CCGTGTGATCTTTAGCTAATCATTG 58.347 40.000 7.08 3.11 32.45 2.82
75 81 6.479990 CCGTGTGATCTTTAGCTAATCATTGA 59.520 38.462 7.08 2.11 32.45 2.57
76 82 7.340699 CGTGTGATCTTTAGCTAATCATTGAC 58.659 38.462 7.08 6.24 32.45 3.18
77 83 7.223582 CGTGTGATCTTTAGCTAATCATTGACT 59.776 37.037 7.08 0.00 32.45 3.41
78 84 8.547069 GTGTGATCTTTAGCTAATCATTGACTC 58.453 37.037 7.08 0.00 32.45 3.36
79 85 8.481314 TGTGATCTTTAGCTAATCATTGACTCT 58.519 33.333 7.08 0.00 32.45 3.24
80 86 8.977505 GTGATCTTTAGCTAATCATTGACTCTC 58.022 37.037 7.08 0.00 32.45 3.20
81 87 7.864882 TGATCTTTAGCTAATCATTGACTCTCG 59.135 37.037 7.08 0.00 0.00 4.04
82 88 7.334844 TCTTTAGCTAATCATTGACTCTCGA 57.665 36.000 7.08 0.00 0.00 4.04
83 89 7.197017 TCTTTAGCTAATCATTGACTCTCGAC 58.803 38.462 7.08 0.00 0.00 4.20
84 90 6.701145 TTAGCTAATCATTGACTCTCGACT 57.299 37.500 0.86 0.00 0.00 4.18
85 91 4.930963 AGCTAATCATTGACTCTCGACTG 58.069 43.478 0.00 0.00 0.00 3.51
86 92 3.489047 GCTAATCATTGACTCTCGACTGC 59.511 47.826 0.00 0.00 0.00 4.40
87 93 2.593346 ATCATTGACTCTCGACTGCC 57.407 50.000 0.00 0.00 0.00 4.85
88 94 0.171231 TCATTGACTCTCGACTGCCG 59.829 55.000 0.00 0.00 40.25 5.69
89 95 0.109086 CATTGACTCTCGACTGCCGT 60.109 55.000 0.00 0.00 39.75 5.68
90 96 0.109086 ATTGACTCTCGACTGCCGTG 60.109 55.000 0.00 0.00 39.75 4.94
91 97 1.170290 TTGACTCTCGACTGCCGTGA 61.170 55.000 0.00 0.00 38.30 4.35
92 98 0.960861 TGACTCTCGACTGCCGTGAT 60.961 55.000 0.00 0.00 39.61 3.06
93 99 1.015109 GACTCTCGACTGCCGTGATA 58.985 55.000 0.00 0.00 39.61 2.15
94 100 0.733729 ACTCTCGACTGCCGTGATAC 59.266 55.000 0.00 0.00 39.61 2.24
167 202 1.449601 CCGTTCTACGCAATGGGCT 60.450 57.895 0.00 0.00 40.91 5.19
242 293 8.623903 TCGTTATTATGTCACCGGATATATACC 58.376 37.037 9.46 0.00 28.78 2.73
247 302 4.732065 TGTCACCGGATATATACCTGTCA 58.268 43.478 9.46 0.00 0.00 3.58
287 355 1.183549 CTCAGGGGTAGCGTGTAACT 58.816 55.000 0.00 0.00 31.75 2.24
337 405 1.428448 GTCTGCTGATGCACACGTAA 58.572 50.000 0.00 0.00 45.31 3.18
350 418 3.723835 GCACACGTAACTTAAGATTGGCG 60.724 47.826 10.09 8.49 0.00 5.69
356 426 6.527722 CACGTAACTTAAGATTGGCGTACTAA 59.472 38.462 10.09 0.00 0.00 2.24
379 449 9.730420 CTAATTTGGTATTTTGGCAGTACATAC 57.270 33.333 0.00 4.74 0.00 2.39
449 533 5.295292 GGCAATCTGCGTGATGCTATATATT 59.705 40.000 0.00 0.00 46.21 1.28
483 567 5.163343 GGCATAGGTACATGAAGGAAGTACA 60.163 44.000 0.00 0.00 39.78 2.90
507 591 9.710818 ACATGTAATATATATTACTCCCTCCGT 57.289 33.333 31.46 19.98 45.10 4.69
513 597 9.543231 AATATATATTACTCCCTCCGTTTCAGA 57.457 33.333 6.16 0.00 0.00 3.27
514 598 7.850935 ATATATTACTCCCTCCGTTTCAGAA 57.149 36.000 0.00 0.00 0.00 3.02
515 599 6.749036 ATATTACTCCCTCCGTTTCAGAAT 57.251 37.500 0.00 0.00 0.00 2.40
516 600 7.850935 ATATTACTCCCTCCGTTTCAGAATA 57.149 36.000 0.00 0.00 0.00 1.75
517 601 5.593679 TTACTCCCTCCGTTTCAGAATAG 57.406 43.478 0.00 0.00 0.00 1.73
518 602 3.709587 ACTCCCTCCGTTTCAGAATAGA 58.290 45.455 0.00 0.00 0.00 1.98
519 603 4.290942 ACTCCCTCCGTTTCAGAATAGAT 58.709 43.478 0.00 0.00 0.00 1.98
520 604 4.100189 ACTCCCTCCGTTTCAGAATAGATG 59.900 45.833 0.00 0.00 0.00 2.90
521 605 4.286707 TCCCTCCGTTTCAGAATAGATGA 58.713 43.478 0.00 0.00 0.00 2.92
522 606 4.099573 TCCCTCCGTTTCAGAATAGATGAC 59.900 45.833 0.00 0.00 0.00 3.06
523 607 4.100189 CCCTCCGTTTCAGAATAGATGACT 59.900 45.833 0.00 0.00 0.00 3.41
524 608 5.285651 CCTCCGTTTCAGAATAGATGACTC 58.714 45.833 0.00 0.00 0.00 3.36
525 609 5.163509 CCTCCGTTTCAGAATAGATGACTCA 60.164 44.000 0.00 0.00 0.00 3.41
526 610 6.280855 TCCGTTTCAGAATAGATGACTCAA 57.719 37.500 0.00 0.00 0.00 3.02
527 611 6.878317 TCCGTTTCAGAATAGATGACTCAAT 58.122 36.000 0.00 0.00 0.00 2.57
528 612 7.331026 TCCGTTTCAGAATAGATGACTCAATT 58.669 34.615 0.00 0.00 0.00 2.32
529 613 7.824289 TCCGTTTCAGAATAGATGACTCAATTT 59.176 33.333 0.00 0.00 0.00 1.82
530 614 8.454106 CCGTTTCAGAATAGATGACTCAATTTT 58.546 33.333 0.00 0.00 0.00 1.82
531 615 9.270576 CGTTTCAGAATAGATGACTCAATTTTG 57.729 33.333 0.00 0.00 0.00 2.44
586 670 9.804758 AGTTAAGTCATCTATTTTAGAACGGAG 57.195 33.333 0.00 0.00 38.50 4.63
587 671 9.032420 GTTAAGTCATCTATTTTAGAACGGAGG 57.968 37.037 0.00 0.00 38.50 4.30
588 672 6.163135 AGTCATCTATTTTAGAACGGAGGG 57.837 41.667 0.00 0.00 38.50 4.30
589 673 5.897824 AGTCATCTATTTTAGAACGGAGGGA 59.102 40.000 0.00 0.00 38.50 4.20
590 674 6.041069 AGTCATCTATTTTAGAACGGAGGGAG 59.959 42.308 0.00 0.00 38.50 4.30
591 675 5.897824 TCATCTATTTTAGAACGGAGGGAGT 59.102 40.000 0.00 0.00 38.50 3.85
592 676 7.014038 GTCATCTATTTTAGAACGGAGGGAGTA 59.986 40.741 0.00 0.00 38.50 2.59
593 677 7.562454 TCATCTATTTTAGAACGGAGGGAGTAA 59.438 37.037 0.00 0.00 38.50 2.24
594 678 7.909485 TCTATTTTAGAACGGAGGGAGTAAT 57.091 36.000 0.00 0.00 0.00 1.89
595 679 9.597681 ATCTATTTTAGAACGGAGGGAGTAATA 57.402 33.333 0.00 0.00 38.50 0.98
596 680 9.075678 TCTATTTTAGAACGGAGGGAGTAATAG 57.924 37.037 0.00 0.00 0.00 1.73
597 681 7.909485 ATTTTAGAACGGAGGGAGTAATAGA 57.091 36.000 0.00 0.00 0.00 1.98
598 682 7.909485 TTTTAGAACGGAGGGAGTAATAGAT 57.091 36.000 0.00 0.00 0.00 1.98
599 683 7.909485 TTTAGAACGGAGGGAGTAATAGATT 57.091 36.000 0.00 0.00 0.00 2.40
600 684 9.425248 TTTTAGAACGGAGGGAGTAATAGATTA 57.575 33.333 0.00 0.00 0.00 1.75
601 685 8.632906 TTAGAACGGAGGGAGTAATAGATTAG 57.367 38.462 0.00 0.00 0.00 1.73
602 686 6.612741 AGAACGGAGGGAGTAATAGATTAGT 58.387 40.000 0.00 0.00 0.00 2.24
603 687 7.753630 AGAACGGAGGGAGTAATAGATTAGTA 58.246 38.462 0.00 0.00 0.00 1.82
604 688 8.392479 AGAACGGAGGGAGTAATAGATTAGTAT 58.608 37.037 0.00 0.00 0.00 2.12
605 689 9.678260 GAACGGAGGGAGTAATAGATTAGTATA 57.322 37.037 0.00 0.00 0.00 1.47
736 834 1.302192 GGTGTAAGCAGCCGGTTGA 60.302 57.895 23.83 0.00 37.15 3.18
737 835 1.298859 GGTGTAAGCAGCCGGTTGAG 61.299 60.000 23.83 0.00 37.15 3.02
738 836 0.602905 GTGTAAGCAGCCGGTTGAGT 60.603 55.000 23.83 10.86 34.01 3.41
833 934 1.364171 CACCCGTCGATCATCTCCC 59.636 63.158 0.00 0.00 0.00 4.30
838 942 1.615883 CCGTCGATCATCTCCCTTCAT 59.384 52.381 0.00 0.00 0.00 2.57
839 943 2.036475 CCGTCGATCATCTCCCTTCATT 59.964 50.000 0.00 0.00 0.00 2.57
840 944 3.312828 CGTCGATCATCTCCCTTCATTC 58.687 50.000 0.00 0.00 0.00 2.67
942 1085 0.322997 CTCCCCAACGGCATTAACCA 60.323 55.000 0.00 0.00 0.00 3.67
943 1086 0.609681 TCCCCAACGGCATTAACCAC 60.610 55.000 0.00 0.00 0.00 4.16
944 1087 1.600511 CCCCAACGGCATTAACCACC 61.601 60.000 0.00 0.00 0.00 4.61
945 1088 0.896019 CCCAACGGCATTAACCACCA 60.896 55.000 0.00 0.00 0.00 4.17
946 1089 0.525761 CCAACGGCATTAACCACCAG 59.474 55.000 0.00 0.00 0.00 4.00
978 1132 1.134670 GCCTTCGATCAGTAACCAGCT 60.135 52.381 0.00 0.00 0.00 4.24
1024 1181 2.517402 CGACCTCCTCCTCCTCCG 60.517 72.222 0.00 0.00 0.00 4.63
1047 1204 2.737376 GTCGCGGTCGCTTTCCTT 60.737 61.111 6.13 0.00 39.32 3.36
1108 1325 2.933287 CACCTGCCCCCACACCTA 60.933 66.667 0.00 0.00 0.00 3.08
1109 1326 2.933834 ACCTGCCCCCACACCTAC 60.934 66.667 0.00 0.00 0.00 3.18
1110 1327 2.933287 CCTGCCCCCACACCTACA 60.933 66.667 0.00 0.00 0.00 2.74
1111 1328 2.351276 CTGCCCCCACACCTACAC 59.649 66.667 0.00 0.00 0.00 2.90
1112 1329 3.253838 TGCCCCCACACCTACACC 61.254 66.667 0.00 0.00 0.00 4.16
1113 1330 2.933834 GCCCCCACACCTACACCT 60.934 66.667 0.00 0.00 0.00 4.00
1114 1331 1.614226 GCCCCCACACCTACACCTA 60.614 63.158 0.00 0.00 0.00 3.08
1115 1332 1.907222 GCCCCCACACCTACACCTAC 61.907 65.000 0.00 0.00 0.00 3.18
1116 1333 0.545787 CCCCCACACCTACACCTACA 60.546 60.000 0.00 0.00 0.00 2.74
1117 1334 0.611714 CCCCACACCTACACCTACAC 59.388 60.000 0.00 0.00 0.00 2.90
1118 1335 0.245539 CCCACACCTACACCTACACG 59.754 60.000 0.00 0.00 0.00 4.49
1119 1336 0.963962 CCACACCTACACCTACACGT 59.036 55.000 0.00 0.00 0.00 4.49
1120 1337 1.336517 CCACACCTACACCTACACGTG 60.337 57.143 15.48 15.48 39.75 4.49
1121 1338 0.316204 ACACCTACACCTACACGTGC 59.684 55.000 17.22 0.00 37.25 5.34
1122 1339 0.389426 CACCTACACCTACACGTGCC 60.389 60.000 17.22 0.00 37.25 5.01
1123 1340 1.217244 CCTACACCTACACGTGCCC 59.783 63.158 17.22 0.00 37.25 5.36
1124 1341 1.217244 CTACACCTACACGTGCCCC 59.783 63.158 17.22 0.00 37.25 5.80
1125 1342 2.234913 CTACACCTACACGTGCCCCC 62.235 65.000 17.22 0.00 37.25 5.40
1126 1343 4.752879 CACCTACACGTGCCCCCG 62.753 72.222 17.22 1.11 0.00 5.73
1129 1346 3.454573 CTACACGTGCCCCCGCTA 61.455 66.667 17.22 0.00 35.36 4.26
1130 1347 3.711541 CTACACGTGCCCCCGCTAC 62.712 68.421 17.22 0.00 35.36 3.58
1156 1374 2.575461 CCGTCCCCGTTACACCTC 59.425 66.667 0.00 0.00 0.00 3.85
1215 1482 3.706373 CCACCTGTGCCCGCTACT 61.706 66.667 0.00 0.00 0.00 2.57
1335 1623 2.345991 CCGGACGACAATGGTGGT 59.654 61.111 0.00 0.00 38.79 4.16
1344 1632 1.896183 CAATGGTGGTGCGTGTGGA 60.896 57.895 0.00 0.00 0.00 4.02
1647 2206 2.263741 CCTCAGCGGCACTGCTTTT 61.264 57.895 0.00 0.00 44.46 2.27
1808 2375 1.065928 CGATCCTGGTGGAGTACGC 59.934 63.158 0.00 0.00 46.91 4.42
2111 3223 2.418197 GCATGCATGGATTTCTTGTGCT 60.418 45.455 27.34 0.00 36.78 4.40
2211 3585 8.701908 TTTATCGTGTCCTACTATCCTTGTAT 57.298 34.615 0.00 0.00 0.00 2.29
2213 3587 7.684937 ATCGTGTCCTACTATCCTTGTATAC 57.315 40.000 0.00 0.00 0.00 1.47
2217 3591 9.175312 CGTGTCCTACTATCCTTGTATACATAT 57.825 37.037 6.36 4.02 0.00 1.78
2225 3599 9.511272 ACTATCCTTGTATACATATACACGTGA 57.489 33.333 25.01 6.34 45.78 4.35
2226 3600 9.770503 CTATCCTTGTATACATATACACGTGAC 57.229 37.037 25.01 6.93 45.78 3.67
2227 3601 7.571080 TCCTTGTATACATATACACGTGACA 57.429 36.000 25.01 9.77 45.78 3.58
2228 3602 7.998580 TCCTTGTATACATATACACGTGACAA 58.001 34.615 25.01 16.74 45.78 3.18
2229 3603 8.635328 TCCTTGTATACATATACACGTGACAAT 58.365 33.333 25.01 14.47 45.78 2.71
2230 3604 9.256477 CCTTGTATACATATACACGTGACAATT 57.744 33.333 25.01 0.85 45.78 2.32
2281 3655 2.716424 AGTTTGTGGGATTTGGAGGAGA 59.284 45.455 0.00 0.00 0.00 3.71
2282 3656 3.140144 AGTTTGTGGGATTTGGAGGAGAA 59.860 43.478 0.00 0.00 0.00 2.87
2283 3657 3.439857 TTGTGGGATTTGGAGGAGAAG 57.560 47.619 0.00 0.00 0.00 2.85
2298 3672 6.010650 TGGAGGAGAAGGCTGGTATATATACT 60.011 42.308 19.78 1.88 33.81 2.12
2299 3673 6.322712 GGAGGAGAAGGCTGGTATATATACTG 59.677 46.154 19.78 14.45 33.81 2.74
2300 3674 6.806217 AGGAGAAGGCTGGTATATATACTGT 58.194 40.000 19.78 0.75 33.81 3.55
2301 3675 7.940878 AGGAGAAGGCTGGTATATATACTGTA 58.059 38.462 19.78 8.29 33.81 2.74
2302 3676 7.835181 AGGAGAAGGCTGGTATATATACTGTAC 59.165 40.741 19.78 10.17 33.81 2.90
2303 3677 7.201714 GGAGAAGGCTGGTATATATACTGTACG 60.202 44.444 19.78 7.58 33.81 3.67
2304 3678 7.173722 AGAAGGCTGGTATATATACTGTACGT 58.826 38.462 19.78 8.79 33.81 3.57
2305 3679 8.324306 AGAAGGCTGGTATATATACTGTACGTA 58.676 37.037 19.78 0.00 33.81 3.57
2306 3680 9.118300 GAAGGCTGGTATATATACTGTACGTAT 57.882 37.037 19.78 12.68 41.57 3.06
2308 3682 9.775854 AGGCTGGTATATATACTGTACGTATAG 57.224 37.037 19.78 16.81 42.63 1.31
2309 3683 8.502387 GGCTGGTATATATACTGTACGTATAGC 58.498 40.741 18.13 16.03 42.63 2.97
2310 3684 9.270640 GCTGGTATATATACTGTACGTATAGCT 57.729 37.037 18.13 9.25 42.63 3.32
2320 3694 7.424227 ACTGTACGTATAGCTATTCTGTCTC 57.576 40.000 18.13 6.29 0.00 3.36
2321 3695 6.145858 ACTGTACGTATAGCTATTCTGTCTCG 59.854 42.308 18.13 8.24 0.00 4.04
2322 3696 5.987953 TGTACGTATAGCTATTCTGTCTCGT 59.012 40.000 12.39 12.80 33.86 4.18
2323 3697 7.147976 TGTACGTATAGCTATTCTGTCTCGTA 58.852 38.462 12.39 11.97 32.58 3.43
2324 3698 6.464895 ACGTATAGCTATTCTGTCTCGTAC 57.535 41.667 12.39 0.00 30.23 3.67
2325 3699 5.407995 ACGTATAGCTATTCTGTCTCGTACC 59.592 44.000 12.39 0.00 30.23 3.34
2326 3700 5.638657 CGTATAGCTATTCTGTCTCGTACCT 59.361 44.000 12.39 0.00 0.00 3.08
2327 3701 5.950758 ATAGCTATTCTGTCTCGTACCTG 57.049 43.478 0.00 0.00 0.00 4.00
2328 3702 2.359531 AGCTATTCTGTCTCGTACCTGC 59.640 50.000 0.00 0.00 0.00 4.85
2329 3703 2.099263 GCTATTCTGTCTCGTACCTGCA 59.901 50.000 0.00 0.00 0.00 4.41
2330 3704 2.949451 ATTCTGTCTCGTACCTGCAG 57.051 50.000 6.78 6.78 0.00 4.41
2331 3705 0.243907 TTCTGTCTCGTACCTGCAGC 59.756 55.000 8.66 0.00 0.00 5.25
2332 3706 0.609406 TCTGTCTCGTACCTGCAGCT 60.609 55.000 8.66 0.00 0.00 4.24
2333 3707 1.095600 CTGTCTCGTACCTGCAGCTA 58.904 55.000 8.66 0.00 0.00 3.32
2334 3708 1.678627 CTGTCTCGTACCTGCAGCTAT 59.321 52.381 8.66 0.00 0.00 2.97
2335 3709 2.879026 CTGTCTCGTACCTGCAGCTATA 59.121 50.000 8.66 0.00 0.00 1.31
2336 3710 3.284617 TGTCTCGTACCTGCAGCTATAA 58.715 45.455 8.66 0.00 0.00 0.98
2337 3711 3.697542 TGTCTCGTACCTGCAGCTATAAA 59.302 43.478 8.66 0.00 0.00 1.40
2338 3712 4.341235 TGTCTCGTACCTGCAGCTATAAAT 59.659 41.667 8.66 0.00 0.00 1.40
2339 3713 5.163447 TGTCTCGTACCTGCAGCTATAAATT 60.163 40.000 8.66 0.00 0.00 1.82
2340 3714 5.753921 GTCTCGTACCTGCAGCTATAAATTT 59.246 40.000 8.66 0.00 0.00 1.82
2341 3715 6.921857 GTCTCGTACCTGCAGCTATAAATTTA 59.078 38.462 8.66 0.00 0.00 1.40
2342 3716 7.599245 GTCTCGTACCTGCAGCTATAAATTTAT 59.401 37.037 14.86 14.86 0.00 1.40
2343 3717 7.598869 TCTCGTACCTGCAGCTATAAATTTATG 59.401 37.037 18.98 10.84 0.00 1.90
2344 3718 7.214381 TCGTACCTGCAGCTATAAATTTATGT 58.786 34.615 18.98 9.18 0.00 2.29
2345 3719 7.713507 TCGTACCTGCAGCTATAAATTTATGTT 59.286 33.333 18.98 6.18 0.00 2.71
2346 3720 8.984764 CGTACCTGCAGCTATAAATTTATGTTA 58.015 33.333 18.98 0.58 0.00 2.41
2349 3723 9.627123 ACCTGCAGCTATAAATTTATGTTAGAA 57.373 29.630 18.98 2.92 0.00 2.10
2368 3742 2.124693 GTCTCTCCTCCCTGCTCCG 61.125 68.421 0.00 0.00 0.00 4.63
2417 3791 0.543749 AGAGGCCATCTTTTAGCGCT 59.456 50.000 17.26 17.26 32.99 5.92
2455 3829 2.664851 CGCTGGCGACCTTTGTCA 60.665 61.111 9.51 0.00 41.85 3.58
2456 3830 2.946762 GCTGGCGACCTTTGTCAC 59.053 61.111 0.00 0.00 41.85 3.67
2462 3836 1.068417 CGACCTTTGTCACCGGTGA 59.932 57.895 33.23 33.23 41.85 4.02
2468 3842 1.001974 CTTTGTCACCGGTGATGAGGA 59.998 52.381 38.11 21.10 42.18 3.71
2478 3852 1.378646 TGATGAGGAGAGTCGCCGT 60.379 57.895 7.32 0.00 0.00 5.68
2484 3858 0.178987 AGGAGAGTCGCCGTATCCAT 60.179 55.000 7.32 0.00 32.21 3.41
2560 3935 3.341043 CTTCGGCGGCGATGATGG 61.341 66.667 34.18 19.00 0.00 3.51
2593 3968 6.755542 ATAAAGATTCTTCGGATCCTTCCT 57.244 37.500 10.75 0.00 40.17 3.36
2597 3972 4.657969 AGATTCTTCGGATCCTTCCTTGAT 59.342 41.667 10.75 0.00 40.17 2.57
2625 4000 1.221007 TCGGTCCTATGGTTGGGGATA 59.779 52.381 0.00 0.00 0.00 2.59
2631 4006 5.550403 GGTCCTATGGTTGGGGATAGATTTA 59.450 44.000 0.00 0.00 0.00 1.40
2632 4007 6.045106 GGTCCTATGGTTGGGGATAGATTTAA 59.955 42.308 0.00 0.00 0.00 1.52
2790 4166 2.558378 CAGATTGTGGTCTGCATCGAT 58.442 47.619 0.00 0.00 39.19 3.59
2879 4255 1.595357 GTCTTAGTCGTGGTGGGGG 59.405 63.158 0.00 0.00 0.00 5.40
2970 4346 3.149196 TCACTTTTGATGAGCCACCTTC 58.851 45.455 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 45 0.108585 ATCACACGGCACAGGAAGTT 59.891 50.000 0.00 0.00 0.00 2.66
44 50 2.002586 CTAAAGATCACACGGCACAGG 58.997 52.381 0.00 0.00 0.00 4.00
69 75 0.171231 CGGCAGTCGAGAGTCAATGA 59.829 55.000 0.00 0.00 42.43 2.57
70 76 0.109086 ACGGCAGTCGAGAGTCAATG 60.109 55.000 0.00 0.00 42.43 2.82
71 77 0.109086 CACGGCAGTCGAGAGTCAAT 60.109 55.000 0.00 0.00 42.43 2.57
72 78 1.170290 TCACGGCAGTCGAGAGTCAA 61.170 55.000 0.00 0.00 42.43 3.18
73 79 0.960861 ATCACGGCAGTCGAGAGTCA 60.961 55.000 0.00 0.00 41.35 3.41
74 80 1.015109 TATCACGGCAGTCGAGAGTC 58.985 55.000 0.00 0.00 41.35 3.36
75 81 0.733729 GTATCACGGCAGTCGAGAGT 59.266 55.000 0.00 0.00 41.35 3.24
76 82 1.003331 GAGTATCACGGCAGTCGAGAG 60.003 57.143 0.00 0.00 41.35 3.20
77 83 1.015109 GAGTATCACGGCAGTCGAGA 58.985 55.000 0.00 0.00 42.17 4.04
78 84 0.733150 TGAGTATCACGGCAGTCGAG 59.267 55.000 0.00 0.00 42.56 4.04
79 85 2.862738 TGAGTATCACGGCAGTCGA 58.137 52.632 0.00 0.00 42.56 4.20
90 96 4.688879 TCGGTGTTGTGTGAAATGAGTATC 59.311 41.667 0.00 0.00 0.00 2.24
91 97 4.637276 TCGGTGTTGTGTGAAATGAGTAT 58.363 39.130 0.00 0.00 0.00 2.12
92 98 4.055360 CTCGGTGTTGTGTGAAATGAGTA 58.945 43.478 0.00 0.00 0.00 2.59
93 99 2.872245 CTCGGTGTTGTGTGAAATGAGT 59.128 45.455 0.00 0.00 0.00 3.41
94 100 2.224079 CCTCGGTGTTGTGTGAAATGAG 59.776 50.000 0.00 0.00 0.00 2.90
167 202 3.220940 TGTTGGAACATCTGCACAATCA 58.779 40.909 0.00 0.00 39.30 2.57
242 293 0.603707 ACACGGCATGAACCTGACAG 60.604 55.000 0.00 0.00 0.00 3.51
247 302 1.667830 CGTGACACGGCATGAACCT 60.668 57.895 20.26 0.00 38.08 3.50
267 327 0.175073 GTTACACGCTACCCCTGAGG 59.825 60.000 0.00 0.00 43.78 3.86
272 332 2.740447 CAAAGAAGTTACACGCTACCCC 59.260 50.000 0.00 0.00 0.00 4.95
287 355 6.127647 GGACATGCCAAGATAATCACAAAGAA 60.128 38.462 0.00 0.00 36.34 2.52
337 405 6.882678 ACCAAATTAGTACGCCAATCTTAAGT 59.117 34.615 1.63 0.00 0.00 2.24
350 418 8.732531 TGTACTGCCAAAATACCAAATTAGTAC 58.267 33.333 0.00 0.00 38.02 2.73
356 426 7.177568 TGTGTATGTACTGCCAAAATACCAAAT 59.822 33.333 0.00 0.00 0.00 2.32
419 503 2.031919 ACGCAGATTGCCGACCAA 59.968 55.556 0.00 0.00 41.12 3.67
498 582 4.342378 TCATCTATTCTGAAACGGAGGGAG 59.658 45.833 0.00 0.00 0.00 4.30
501 585 5.163509 TGAGTCATCTATTCTGAAACGGAGG 60.164 44.000 0.00 0.00 0.00 4.30
502 586 5.895928 TGAGTCATCTATTCTGAAACGGAG 58.104 41.667 0.00 0.00 0.00 4.63
503 587 5.914898 TGAGTCATCTATTCTGAAACGGA 57.085 39.130 0.00 0.00 0.00 4.69
504 588 7.545362 AATTGAGTCATCTATTCTGAAACGG 57.455 36.000 0.00 0.00 0.00 4.44
505 589 9.270576 CAAAATTGAGTCATCTATTCTGAAACG 57.729 33.333 0.00 0.00 30.92 3.60
560 644 9.804758 CTCCGTTCTAAAATAGATGACTTAACT 57.195 33.333 0.00 0.00 34.22 2.24
561 645 9.032420 CCTCCGTTCTAAAATAGATGACTTAAC 57.968 37.037 0.00 0.00 34.22 2.01
562 646 8.202137 CCCTCCGTTCTAAAATAGATGACTTAA 58.798 37.037 0.00 0.00 34.22 1.85
563 647 7.562454 TCCCTCCGTTCTAAAATAGATGACTTA 59.438 37.037 0.00 0.00 34.22 2.24
564 648 6.383147 TCCCTCCGTTCTAAAATAGATGACTT 59.617 38.462 0.00 0.00 34.22 3.01
565 649 5.897824 TCCCTCCGTTCTAAAATAGATGACT 59.102 40.000 0.00 0.00 34.22 3.41
566 650 6.158023 TCCCTCCGTTCTAAAATAGATGAC 57.842 41.667 0.00 0.00 34.22 3.06
567 651 5.897824 ACTCCCTCCGTTCTAAAATAGATGA 59.102 40.000 0.00 0.00 34.22 2.92
568 652 6.163135 ACTCCCTCCGTTCTAAAATAGATG 57.837 41.667 0.00 0.00 34.22 2.90
569 653 7.909485 TTACTCCCTCCGTTCTAAAATAGAT 57.091 36.000 0.00 0.00 34.22 1.98
570 654 7.909485 ATTACTCCCTCCGTTCTAAAATAGA 57.091 36.000 0.00 0.00 0.00 1.98
571 655 9.075678 TCTATTACTCCCTCCGTTCTAAAATAG 57.924 37.037 0.00 0.00 0.00 1.73
572 656 9.597681 ATCTATTACTCCCTCCGTTCTAAAATA 57.402 33.333 0.00 0.00 0.00 1.40
573 657 7.909485 TCTATTACTCCCTCCGTTCTAAAAT 57.091 36.000 0.00 0.00 0.00 1.82
574 658 7.909485 ATCTATTACTCCCTCCGTTCTAAAA 57.091 36.000 0.00 0.00 0.00 1.52
575 659 7.909485 AATCTATTACTCCCTCCGTTCTAAA 57.091 36.000 0.00 0.00 0.00 1.85
576 660 8.223330 ACTAATCTATTACTCCCTCCGTTCTAA 58.777 37.037 0.00 0.00 0.00 2.10
577 661 7.753630 ACTAATCTATTACTCCCTCCGTTCTA 58.246 38.462 0.00 0.00 0.00 2.10
578 662 6.612741 ACTAATCTATTACTCCCTCCGTTCT 58.387 40.000 0.00 0.00 0.00 3.01
579 663 6.897706 ACTAATCTATTACTCCCTCCGTTC 57.102 41.667 0.00 0.00 0.00 3.95
736 834 0.399233 GGATGGAGGGAGCCACTACT 60.399 60.000 0.00 0.00 41.56 2.57
737 835 0.691078 TGGATGGAGGGAGCCACTAC 60.691 60.000 0.00 0.00 41.56 2.73
738 836 0.691078 GTGGATGGAGGGAGCCACTA 60.691 60.000 0.00 0.00 46.88 2.74
833 934 3.618690 AGGAAGGACGGAAGAATGAAG 57.381 47.619 0.00 0.00 0.00 3.02
838 942 3.849563 TCAAAAGGAAGGACGGAAGAA 57.150 42.857 0.00 0.00 0.00 2.52
839 943 3.583086 AGATCAAAAGGAAGGACGGAAGA 59.417 43.478 0.00 0.00 0.00 2.87
840 944 3.935828 GAGATCAAAAGGAAGGACGGAAG 59.064 47.826 0.00 0.00 0.00 3.46
942 1085 1.306226 GGCCCTACTCTGGTCTGGT 60.306 63.158 0.00 0.00 0.00 4.00
943 1086 0.618968 AAGGCCCTACTCTGGTCTGG 60.619 60.000 0.00 0.00 36.63 3.86
944 1087 0.827368 GAAGGCCCTACTCTGGTCTG 59.173 60.000 0.00 0.00 36.63 3.51
945 1088 0.684805 CGAAGGCCCTACTCTGGTCT 60.685 60.000 0.00 0.00 40.28 3.85
946 1089 0.683504 TCGAAGGCCCTACTCTGGTC 60.684 60.000 0.00 0.00 0.00 4.02
978 1132 0.390340 CTCGCTTGCTTGCTGGTCTA 60.390 55.000 0.00 0.00 0.00 2.59
1042 1199 2.672996 GGCGAGCAGGCAAAGGAA 60.673 61.111 0.00 0.00 45.92 3.36
1107 1324 2.285024 GGGGGCACGTGTAGGTGTA 61.285 63.158 18.38 0.00 40.08 2.90
1108 1325 3.633116 GGGGGCACGTGTAGGTGT 61.633 66.667 18.38 0.00 40.08 4.16
1109 1326 4.752879 CGGGGGCACGTGTAGGTG 62.753 72.222 18.38 1.02 40.89 4.00
1112 1329 3.454573 TAGCGGGGGCACGTGTAG 61.455 66.667 18.38 5.54 35.98 2.74
1113 1330 3.762247 GTAGCGGGGGCACGTGTA 61.762 66.667 18.38 0.00 35.98 2.90
1141 1358 1.294459 GTGGAGGTGTAACGGGGAC 59.706 63.158 0.00 0.00 38.12 4.46
1142 1359 1.914764 GGTGGAGGTGTAACGGGGA 60.915 63.158 0.00 0.00 38.12 4.81
1147 1364 2.033194 GCGCAGGTGGAGGTGTAAC 61.033 63.158 0.30 0.00 0.00 2.50
1149 1366 3.702048 GGCGCAGGTGGAGGTGTA 61.702 66.667 10.83 0.00 0.00 2.90
1335 1623 0.865111 CGTTCTTGAATCCACACGCA 59.135 50.000 0.00 0.00 0.00 5.24
1344 1632 1.880027 GGCAGGTTCACGTTCTTGAAT 59.120 47.619 0.00 0.00 37.80 2.57
1447 1735 2.146073 GAAGCAACTGCAATGCCGGT 62.146 55.000 17.83 0.00 44.91 5.28
2232 3606 2.097299 GTCACGTGTATCGACGCAAAAA 60.097 45.455 16.51 0.00 43.33 1.94
2233 3607 1.452773 GTCACGTGTATCGACGCAAAA 59.547 47.619 16.51 0.00 43.33 2.44
2234 3608 1.054574 GTCACGTGTATCGACGCAAA 58.945 50.000 16.51 0.00 43.33 3.68
2235 3609 0.040246 TGTCACGTGTATCGACGCAA 60.040 50.000 16.51 0.00 43.33 4.85
2236 3610 0.040246 TTGTCACGTGTATCGACGCA 60.040 50.000 16.51 0.77 43.33 5.24
2237 3611 0.361184 GTTGTCACGTGTATCGACGC 59.639 55.000 16.51 0.00 43.33 5.19
2238 3612 1.959747 AGTTGTCACGTGTATCGACG 58.040 50.000 16.51 0.00 45.09 5.12
2239 3613 4.913924 ACTAAAGTTGTCACGTGTATCGAC 59.086 41.667 16.51 15.70 42.86 4.20
2240 3614 5.112220 ACTAAAGTTGTCACGTGTATCGA 57.888 39.130 16.51 4.85 42.86 3.59
2241 3615 5.817616 AACTAAAGTTGTCACGTGTATCG 57.182 39.130 16.51 0.00 40.17 2.92
2242 3616 6.844279 CACAAACTAAAGTTGTCACGTGTATC 59.156 38.462 16.51 8.18 38.44 2.24
2243 3617 6.238266 CCACAAACTAAAGTTGTCACGTGTAT 60.238 38.462 16.51 0.00 38.44 2.29
2244 3618 5.063691 CCACAAACTAAAGTTGTCACGTGTA 59.936 40.000 16.51 3.12 38.44 2.90
2245 3619 4.142773 CCACAAACTAAAGTTGTCACGTGT 60.143 41.667 16.51 0.00 38.44 4.49
2246 3620 4.339429 CCACAAACTAAAGTTGTCACGTG 58.661 43.478 9.94 9.94 38.44 4.49
2282 3656 9.775854 CTATACGTACAGTATATATACCAGCCT 57.224 37.037 17.52 0.00 44.62 4.58
2283 3657 8.502387 GCTATACGTACAGTATATATACCAGCC 58.498 40.741 17.52 5.10 44.62 4.85
2298 3672 5.987953 ACGAGACAGAATAGCTATACGTACA 59.012 40.000 6.68 0.00 0.00 2.90
2299 3673 6.464895 ACGAGACAGAATAGCTATACGTAC 57.535 41.667 6.68 0.00 0.00 3.67
2300 3674 6.587990 GGTACGAGACAGAATAGCTATACGTA 59.412 42.308 6.68 11.05 0.00 3.57
2301 3675 5.407995 GGTACGAGACAGAATAGCTATACGT 59.592 44.000 6.68 11.88 0.00 3.57
2302 3676 5.638657 AGGTACGAGACAGAATAGCTATACG 59.361 44.000 6.68 7.19 0.00 3.06
2303 3677 6.621164 GCAGGTACGAGACAGAATAGCTATAC 60.621 46.154 6.68 0.00 0.00 1.47
2304 3678 5.411977 GCAGGTACGAGACAGAATAGCTATA 59.588 44.000 6.68 0.00 0.00 1.31
2305 3679 4.216687 GCAGGTACGAGACAGAATAGCTAT 59.783 45.833 0.00 0.00 0.00 2.97
2306 3680 3.564644 GCAGGTACGAGACAGAATAGCTA 59.435 47.826 0.00 0.00 0.00 3.32
2307 3681 2.359531 GCAGGTACGAGACAGAATAGCT 59.640 50.000 0.00 0.00 0.00 3.32
2308 3682 2.099263 TGCAGGTACGAGACAGAATAGC 59.901 50.000 0.00 0.00 0.00 2.97
2309 3683 3.793801 GCTGCAGGTACGAGACAGAATAG 60.794 52.174 17.12 0.00 0.00 1.73
2310 3684 2.099263 GCTGCAGGTACGAGACAGAATA 59.901 50.000 17.12 0.00 0.00 1.75
2311 3685 1.134965 GCTGCAGGTACGAGACAGAAT 60.135 52.381 17.12 0.00 0.00 2.40
2312 3686 0.243907 GCTGCAGGTACGAGACAGAA 59.756 55.000 17.12 0.00 0.00 3.02
2313 3687 0.609406 AGCTGCAGGTACGAGACAGA 60.609 55.000 18.63 0.00 0.00 3.41
2314 3688 1.095600 TAGCTGCAGGTACGAGACAG 58.904 55.000 21.35 0.00 0.00 3.51
2315 3689 1.763968 ATAGCTGCAGGTACGAGACA 58.236 50.000 26.87 6.25 0.00 3.41
2316 3690 3.984508 TTATAGCTGCAGGTACGAGAC 57.015 47.619 26.87 1.45 0.00 3.36
2317 3691 5.531122 AATTTATAGCTGCAGGTACGAGA 57.469 39.130 26.87 13.85 0.00 4.04
2318 3692 7.385205 ACATAAATTTATAGCTGCAGGTACGAG 59.615 37.037 26.87 11.83 0.00 4.18
2319 3693 7.214381 ACATAAATTTATAGCTGCAGGTACGA 58.786 34.615 26.87 15.50 0.00 3.43
2320 3694 7.421530 ACATAAATTTATAGCTGCAGGTACG 57.578 36.000 26.87 9.81 0.00 3.67
2323 3697 9.627123 TTCTAACATAAATTTATAGCTGCAGGT 57.373 29.630 23.72 23.72 0.00 4.00
2335 3709 8.268605 GGGAGGAGAGACTTCTAACATAAATTT 58.731 37.037 0.00 0.00 32.53 1.82
2336 3710 7.625682 AGGGAGGAGAGACTTCTAACATAAATT 59.374 37.037 0.00 0.00 32.53 1.82
2337 3711 7.070571 CAGGGAGGAGAGACTTCTAACATAAAT 59.929 40.741 0.00 0.00 32.53 1.40
2338 3712 6.381420 CAGGGAGGAGAGACTTCTAACATAAA 59.619 42.308 0.00 0.00 32.53 1.40
2339 3713 5.894393 CAGGGAGGAGAGACTTCTAACATAA 59.106 44.000 0.00 0.00 32.53 1.90
2340 3714 5.450453 CAGGGAGGAGAGACTTCTAACATA 58.550 45.833 0.00 0.00 32.53 2.29
2341 3715 4.285863 CAGGGAGGAGAGACTTCTAACAT 58.714 47.826 0.00 0.00 32.53 2.71
2342 3716 3.702792 CAGGGAGGAGAGACTTCTAACA 58.297 50.000 0.00 0.00 32.53 2.41
2343 3717 2.429250 GCAGGGAGGAGAGACTTCTAAC 59.571 54.545 0.00 0.00 32.53 2.34
2344 3718 2.313342 AGCAGGGAGGAGAGACTTCTAA 59.687 50.000 0.00 0.00 32.53 2.10
2345 3719 1.926665 AGCAGGGAGGAGAGACTTCTA 59.073 52.381 0.00 0.00 32.53 2.10
2346 3720 0.709992 AGCAGGGAGGAGAGACTTCT 59.290 55.000 0.00 0.00 36.01 2.85
2347 3721 1.111277 GAGCAGGGAGGAGAGACTTC 58.889 60.000 0.00 0.00 0.00 3.01
2348 3722 0.325203 GGAGCAGGGAGGAGAGACTT 60.325 60.000 0.00 0.00 0.00 3.01
2349 3723 1.309688 GGAGCAGGGAGGAGAGACT 59.690 63.158 0.00 0.00 0.00 3.24
2350 3724 2.124693 CGGAGCAGGGAGGAGAGAC 61.125 68.421 0.00 0.00 0.00 3.36
2368 3742 3.682292 CTAGGGTTCCAGCCGCCAC 62.682 68.421 0.00 0.00 41.56 5.01
2450 3824 0.608130 CTCCTCATCACCGGTGACAA 59.392 55.000 38.46 26.65 43.11 3.18
2451 3825 0.251608 TCTCCTCATCACCGGTGACA 60.252 55.000 38.46 25.93 43.11 3.58
2455 3829 1.032657 CGACTCTCCTCATCACCGGT 61.033 60.000 0.00 0.00 0.00 5.28
2456 3830 1.730487 CGACTCTCCTCATCACCGG 59.270 63.158 0.00 0.00 0.00 5.28
2462 3836 1.240256 GATACGGCGACTCTCCTCAT 58.760 55.000 16.62 0.00 0.00 2.90
2468 3842 1.364171 GCATGGATACGGCGACTCT 59.636 57.895 16.62 0.00 42.51 3.24
2484 3858 0.164217 GTAAAAACGATCCACGCGCA 59.836 50.000 5.73 0.00 46.94 6.09
2519 3894 4.831779 CGAAGACGATGAACAACGTAAAAC 59.168 41.667 9.77 0.00 42.74 2.43
2525 3900 1.060713 AGCGAAGACGATGAACAACG 58.939 50.000 3.18 3.18 42.66 4.10
2560 3935 1.599542 AGAATCTTTATTCAGCGCCGC 59.400 47.619 2.29 0.00 43.44 6.53
2597 3972 1.121407 CCATAGGACCGATGGCCTCA 61.121 60.000 19.40 0.00 37.64 3.86
2625 4000 8.293699 ACTTGAACAGACTGGTTTTTAAATCT 57.706 30.769 7.51 0.00 0.00 2.40
2631 4006 6.184789 TCCTTACTTGAACAGACTGGTTTTT 58.815 36.000 7.51 0.00 0.00 1.94
2632 4007 5.751586 TCCTTACTTGAACAGACTGGTTTT 58.248 37.500 7.51 0.00 0.00 2.43
2749 4125 0.757188 ATCCGCTCCTGGACTACCTG 60.757 60.000 0.00 0.00 41.85 4.00
2790 4166 3.985279 CACGTTCCGTTTTCTAGATGTCA 59.015 43.478 0.00 0.00 38.32 3.58
2912 4288 0.965363 GAATCACACCGGGGCAACAT 60.965 55.000 1.73 0.00 39.74 2.71
2970 4346 4.112341 GCAGCTTTGCAGGCCTCG 62.112 66.667 0.00 0.00 34.41 4.63


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

AutoCloner maintained by Alex Coulton.