Multiple sequence alignment - TraesCS4D01G214600

Loading Multiple Alignment...

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 TraesCS4D01G214600 chr4D 100.000 3497 0 0 1 3497 368003991 368007487 0.000000e+00 6458.0
1 TraesCS4D01G214600 chr4D 94.937 79 4 0 3228 3306 368006989 368007067 1.320000e-24 124.0
2 TraesCS4D01G214600 chr4D 94.937 79 4 0 2999 3077 368007218 368007296 1.320000e-24 124.0
3 TraesCS4D01G214600 chr4D 100.000 39 0 0 3166 3204 368007120 368007158 4.840000e-09 73.1
4 TraesCS4D01G214600 chr4D 93.478 46 2 1 3366 3410 473810279 473810234 2.250000e-07 67.6
5 TraesCS4D01G214600 chr4A 92.572 2329 97 19 799 3080 97262413 97260114 0.000000e+00 3273.0
6 TraesCS4D01G214600 chr4A 94.539 293 11 4 3207 3497 97260118 97259829 6.890000e-122 448.0
7 TraesCS4D01G214600 chr4A 90.306 196 15 3 3231 3425 97260192 97260000 1.610000e-63 254.0
8 TraesCS4D01G214600 chr4A 93.277 119 8 0 3207 3325 97260020 97259902 3.590000e-40 176.0
9 TraesCS4D01G214600 chr4A 98.734 79 1 0 3002 3080 97260094 97260016 1.310000e-29 141.0
10 TraesCS4D01G214600 chr4A 94.805 77 4 0 3002 3078 97259996 97259920 1.700000e-23 121.0
11 TraesCS4D01G214600 chr4B 90.262 1068 56 18 813 1858 453245210 453246251 0.000000e+00 1352.0
12 TraesCS4D01G214600 chr4B 94.663 787 34 5 1858 2640 453246331 453247113 0.000000e+00 1214.0
13 TraesCS4D01G214600 chr4B 96.629 89 3 0 3409 3497 453247666 453247754 7.820000e-32 148.0
14 TraesCS4D01G214600 chr4B 90.217 92 9 0 3077 3168 295045662 295045571 1.700000e-23 121.0
15 TraesCS4D01G214600 chr4B 89.474 57 2 4 3366 3421 596373382 596373329 6.260000e-08 69.4
16 TraesCS4D01G214600 chr2D 92.568 740 48 4 1 736 608739289 608738553 0.000000e+00 1055.0
17 TraesCS4D01G214600 chr2D 91.845 748 51 7 1 742 384614680 384613937 0.000000e+00 1035.0
18 TraesCS4D01G214600 chr2D 92.391 92 7 0 3077 3168 263505150 263505059 7.880000e-27 132.0
19 TraesCS4D01G214600 chr2D 94.118 51 2 1 3162 3211 52060270 52060320 3.740000e-10 76.8
20 TraesCS4D01G214600 chr2D 97.436 39 1 0 3040 3078 588232351 588232389 2.250000e-07 67.6
21 TraesCS4D01G214600 chr2D 91.304 46 3 1 3269 3313 588232351 588232396 1.050000e-05 62.1
22 TraesCS4D01G214600 chr5D 92.985 727 44 4 1 723 98248814 98248091 0.000000e+00 1053.0
23 TraesCS4D01G214600 chr5D 93.750 48 2 1 3171 3217 380498543 380498590 1.740000e-08 71.3
24 TraesCS4D01G214600 chr3A 92.162 740 48 7 1 735 746391259 746390525 0.000000e+00 1037.0
25 TraesCS4D01G214600 chr3A 91.746 739 54 4 1 735 740055945 740056680 0.000000e+00 1020.0
26 TraesCS4D01G214600 chr1A 91.892 740 50 7 1 735 507910084 507910818 0.000000e+00 1026.0
27 TraesCS4D01G214600 chr1A 91.859 737 53 4 1 733 507943338 507944071 0.000000e+00 1022.0
28 TraesCS4D01G214600 chr1A 91.304 92 8 0 3077 3168 20031496 20031587 3.660000e-25 126.0
29 TraesCS4D01G214600 chr1A 90.000 50 5 0 3039 3088 80190788 80190739 8.100000e-07 65.8
30 TraesCS4D01G214600 chrUn 91.892 740 49 8 1 735 45478698 45479431 0.000000e+00 1024.0
31 TraesCS4D01G214600 chr7A 91.768 741 51 7 1 736 681490668 681489933 0.000000e+00 1022.0
32 TraesCS4D01G214600 chr2A 93.478 92 6 0 3077 3168 281749765 281749674 1.690000e-28 137.0
33 TraesCS4D01G214600 chr5B 92.473 93 7 0 3076 3168 693877680 693877772 2.190000e-27 134.0
34 TraesCS4D01G214600 chr5B 90.196 51 5 0 3166 3216 449613228 449613178 2.250000e-07 67.6
35 TraesCS4D01G214600 chr1B 91.304 92 8 0 3077 3168 606612826 606612917 3.660000e-25 126.0
36 TraesCS4D01G214600 chr1B 89.247 93 10 0 3075 3167 640621480 640621572 2.210000e-22 117.0
37 TraesCS4D01G214600 chr1B 91.525 59 3 2 3165 3223 606612878 606612934 2.890000e-11 80.5
38 TraesCS4D01G214600 chr1B 100.000 40 0 0 3171 3210 117471036 117470997 1.350000e-09 75.0
39 TraesCS4D01G214600 chr1B 91.667 48 4 0 3165 3212 640621534 640621581 2.250000e-07 67.6
40 TraesCS4D01G214600 chr1B 90.000 50 5 0 3039 3088 138037443 138037394 8.100000e-07 65.8
41 TraesCS4D01G214600 chr6D 90.217 92 9 0 3077 3168 388727554 388727645 1.700000e-23 121.0
42 TraesCS4D01G214600 chr6D 95.556 45 2 0 3171 3215 470635952 470635908 4.840000e-09 73.1
43 TraesCS4D01G214600 chr6D 86.441 59 3 4 3038 3091 389333709 389333767 3.770000e-05 60.2
44 TraesCS4D01G214600 chr6B 87.037 108 12 2 3062 3168 165433786 165433892 1.700000e-23 121.0
45 TraesCS4D01G214600 chr6B 96.875 32 1 0 3279 3310 332412898 332412867 2.000000e-03 54.7
46 TraesCS4D01G214600 chr3B 93.617 47 1 2 3168 3213 18873070 18873115 6.260000e-08 69.4
47 TraesCS4D01G214600 chr2B 95.122 41 2 0 3036 3076 775170241 775170281 8.100000e-07 65.8


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 TraesCS4D01G214600 chr4D 368003991 368007487 3496 False 1694.775000 6458 97.468500 1 3497 4 chr4D.!!$F1 3496
1 TraesCS4D01G214600 chr4A 97259829 97262413 2584 True 735.500000 3273 94.038833 799 3497 6 chr4A.!!$R1 2698
2 TraesCS4D01G214600 chr4B 453245210 453247754 2544 False 904.666667 1352 93.851333 813 3497 3 chr4B.!!$F1 2684
3 TraesCS4D01G214600 chr2D 608738553 608739289 736 True 1055.000000 1055 92.568000 1 736 1 chr2D.!!$R3 735
4 TraesCS4D01G214600 chr2D 384613937 384614680 743 True 1035.000000 1035 91.845000 1 742 1 chr2D.!!$R2 741
5 TraesCS4D01G214600 chr5D 98248091 98248814 723 True 1053.000000 1053 92.985000 1 723 1 chr5D.!!$R1 722
6 TraesCS4D01G214600 chr3A 746390525 746391259 734 True 1037.000000 1037 92.162000 1 735 1 chr3A.!!$R1 734
7 TraesCS4D01G214600 chr3A 740055945 740056680 735 False 1020.000000 1020 91.746000 1 735 1 chr3A.!!$F1 734
8 TraesCS4D01G214600 chr1A 507910084 507910818 734 False 1026.000000 1026 91.892000 1 735 1 chr1A.!!$F2 734
9 TraesCS4D01G214600 chr1A 507943338 507944071 733 False 1022.000000 1022 91.859000 1 733 1 chr1A.!!$F3 732
10 TraesCS4D01G214600 chrUn 45478698 45479431 733 False 1024.000000 1024 91.892000 1 735 1 chrUn.!!$F1 734
11 TraesCS4D01G214600 chr7A 681489933 681490668 735 True 1022.000000 1022 91.768000 1 736 1 chr7A.!!$R1 735

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
754 761 0.657840 GCTATAACAAGGCAGTGGCG 59.342 55.000 11.51 0.11 42.47 5.69 F
1171 1186 0.526524 CCTCTCTTGCTTAGTCGCGG 60.527 60.000 6.13 0.00 0.00 6.46 F
1344 1378 1.334243 AGTAGTCAGATTACTCCGCGC 59.666 52.381 0.00 0.00 0.00 6.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1972 2096 0.110644 CGTCAGAGCAAAGAAACCGC 60.111 55.0 0.00 0.00 0.00 5.68 R
2380 2504 0.526524 GACGGAAGATCGCTGTCCAG 60.527 60.0 15.62 7.99 35.99 3.86 R
3158 3366 0.682852 CTTTGTACCACCTCCGTCCA 59.317 55.0 0.00 0.00 0.00 4.02 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
237 239 9.511272 TTCATGGAATTGGTATGAGATATTCTG 57.489 33.333 0.00 0.00 32.92 3.02
257 259 2.306847 GGAGGTTTGCAAAGTTCAGGA 58.693 47.619 13.26 0.00 0.00 3.86
266 268 4.985538 TGCAAAGTTCAGGAGGAGTAAAT 58.014 39.130 0.00 0.00 0.00 1.40
444 451 4.278919 CCGCTGGGTTTTAAAGGAGTTTTA 59.721 41.667 0.00 0.00 0.00 1.52
611 618 3.287222 CCTTCCAAAAGGTGTCTGTTGA 58.713 45.455 0.00 0.00 46.10 3.18
613 620 4.159506 CCTTCCAAAAGGTGTCTGTTGAAA 59.840 41.667 0.00 0.00 46.10 2.69
627 634 4.991056 TCTGTTGAAAAAGAGATGTCTCCG 59.009 41.667 6.41 0.00 43.88 4.63
643 650 1.826054 CCGCAACACACCCCTTCAA 60.826 57.895 0.00 0.00 0.00 2.69
658 665 7.092623 ACACCCCTTCAACATGTATATAAGTGA 60.093 37.037 15.38 5.22 0.00 3.41
668 675 6.016192 ACATGTATATAAGTGAGTCTCCCACG 60.016 42.308 0.00 0.00 39.38 4.94
690 697 7.225538 CCACGTTGCAATAGATCTAAGAGAATT 59.774 37.037 6.52 0.00 0.00 2.17
736 743 5.989777 TCCTTTACTTTCACTCTACAACAGC 59.010 40.000 0.00 0.00 0.00 4.40
737 744 5.992217 CCTTTACTTTCACTCTACAACAGCT 59.008 40.000 0.00 0.00 0.00 4.24
738 745 7.014905 TCCTTTACTTTCACTCTACAACAGCTA 59.985 37.037 0.00 0.00 0.00 3.32
742 749 9.635520 TTACTTTCACTCTACAACAGCTATAAC 57.364 33.333 0.00 0.00 0.00 1.89
743 750 7.667557 ACTTTCACTCTACAACAGCTATAACA 58.332 34.615 0.00 0.00 0.00 2.41
744 751 8.148351 ACTTTCACTCTACAACAGCTATAACAA 58.852 33.333 0.00 0.00 0.00 2.83
745 752 8.534333 TTTCACTCTACAACAGCTATAACAAG 57.466 34.615 0.00 0.00 0.00 3.16
746 753 6.631016 TCACTCTACAACAGCTATAACAAGG 58.369 40.000 0.00 0.00 0.00 3.61
747 754 5.292101 CACTCTACAACAGCTATAACAAGGC 59.708 44.000 0.00 0.00 0.00 4.35
748 755 5.046591 ACTCTACAACAGCTATAACAAGGCA 60.047 40.000 0.00 0.00 0.00 4.75
749 756 5.419542 TCTACAACAGCTATAACAAGGCAG 58.580 41.667 0.00 0.00 0.00 4.85
750 757 4.021102 ACAACAGCTATAACAAGGCAGT 57.979 40.909 0.00 0.00 0.00 4.40
751 758 3.753272 ACAACAGCTATAACAAGGCAGTG 59.247 43.478 0.00 0.00 0.00 3.66
752 759 2.991250 ACAGCTATAACAAGGCAGTGG 58.009 47.619 0.00 0.00 0.00 4.00
753 760 1.672881 CAGCTATAACAAGGCAGTGGC 59.327 52.381 9.02 9.02 40.13 5.01
754 761 0.657840 GCTATAACAAGGCAGTGGCG 59.342 55.000 11.51 0.11 42.47 5.69
755 762 0.657840 CTATAACAAGGCAGTGGCGC 59.342 55.000 11.51 0.00 42.47 6.53
775 782 4.796495 GGCGGTGCGAATCCCCTT 62.796 66.667 0.00 0.00 0.00 3.95
776 783 2.750237 GCGGTGCGAATCCCCTTT 60.750 61.111 0.00 0.00 0.00 3.11
777 784 3.051392 GCGGTGCGAATCCCCTTTG 62.051 63.158 0.00 0.00 0.00 2.77
778 785 1.674322 CGGTGCGAATCCCCTTTGT 60.674 57.895 0.00 0.00 0.00 2.83
779 786 1.883021 GGTGCGAATCCCCTTTGTG 59.117 57.895 0.00 0.00 0.00 3.33
780 787 0.893727 GGTGCGAATCCCCTTTGTGT 60.894 55.000 0.00 0.00 0.00 3.72
781 788 0.958822 GTGCGAATCCCCTTTGTGTT 59.041 50.000 0.00 0.00 0.00 3.32
782 789 1.068541 GTGCGAATCCCCTTTGTGTTC 60.069 52.381 0.00 0.00 0.00 3.18
783 790 1.202879 TGCGAATCCCCTTTGTGTTCT 60.203 47.619 0.00 0.00 0.00 3.01
784 791 1.886542 GCGAATCCCCTTTGTGTTCTT 59.113 47.619 0.00 0.00 0.00 2.52
785 792 2.296190 GCGAATCCCCTTTGTGTTCTTT 59.704 45.455 0.00 0.00 0.00 2.52
786 793 3.243737 GCGAATCCCCTTTGTGTTCTTTT 60.244 43.478 0.00 0.00 0.00 2.27
787 794 4.739436 GCGAATCCCCTTTGTGTTCTTTTT 60.739 41.667 0.00 0.00 0.00 1.94
825 832 2.922335 GCAAATCTCCTTTGTGTTCGGC 60.922 50.000 0.29 0.00 45.05 5.54
955 962 2.105528 CGGTCCGTAATCCGTGGG 59.894 66.667 2.08 0.00 41.58 4.61
1171 1186 0.526524 CCTCTCTTGCTTAGTCGCGG 60.527 60.000 6.13 0.00 0.00 6.46
1189 1209 2.538449 GCGGTACTATGTTCATGGTTCG 59.462 50.000 7.07 11.65 0.00 3.95
1190 1210 3.735820 GCGGTACTATGTTCATGGTTCGA 60.736 47.826 19.23 0.00 0.00 3.71
1194 1216 6.567050 GGTACTATGTTCATGGTTCGAGTAA 58.433 40.000 7.07 0.00 0.00 2.24
1199 1221 1.990799 TCATGGTTCGAGTAACTGCG 58.009 50.000 0.00 0.00 38.23 5.18
1332 1366 3.093057 AGTCAGCACCCTAAGTAGTCAG 58.907 50.000 0.00 0.00 0.00 3.51
1340 1374 5.221283 GCACCCTAAGTAGTCAGATTACTCC 60.221 48.000 6.09 0.00 31.22 3.85
1344 1378 1.334243 AGTAGTCAGATTACTCCGCGC 59.666 52.381 0.00 0.00 0.00 6.86
1389 1423 3.731136 GCGTTGTGCTCTTGGTGA 58.269 55.556 0.00 0.00 41.73 4.02
1420 1458 7.401484 TTTTTATGCGATTGTTTCCAACTTC 57.599 32.000 0.00 0.00 32.26 3.01
1458 1496 5.104151 TGTGGTGAAAGATCAGGGCATATTA 60.104 40.000 0.00 0.00 35.88 0.98
1493 1536 4.647399 AGATCTTCCTTCTCGGTAGAAAGG 59.353 45.833 0.00 0.00 41.77 3.11
1563 1606 5.577164 GCACTGTTCGTCATTAGTTATGTCT 59.423 40.000 0.00 0.00 35.64 3.41
1677 1720 5.233083 TGAATTGGTAGCTGATAGGGATG 57.767 43.478 0.00 0.00 0.00 3.51
2029 2153 3.427503 CGGGCTTACCATGATTGTGTTTC 60.428 47.826 0.00 0.00 40.22 2.78
2304 2428 4.327982 AGGTCTGATGATCAATGTACCG 57.672 45.455 0.00 0.00 0.00 4.02
2322 2446 2.671682 GTCAGGAGGTTGAGGGGC 59.328 66.667 0.00 0.00 0.00 5.80
2380 2504 4.986659 GCATTGATGGCATCTGGTTTAATC 59.013 41.667 26.49 8.61 0.00 1.75
2466 2590 1.738099 CGTTCTCAGTCAAGGCGGG 60.738 63.158 0.00 0.00 0.00 6.13
2469 2593 1.544825 TTCTCAGTCAAGGCGGGGAG 61.545 60.000 0.00 0.00 0.00 4.30
2516 2640 1.718396 TTGCACTGCTTCAGATCTCG 58.282 50.000 1.98 0.00 35.18 4.04
2518 2642 1.135170 TGCACTGCTTCAGATCTCGAG 60.135 52.381 5.93 5.93 35.18 4.04
2525 2649 2.226437 GCTTCAGATCTCGAGAGGCTAG 59.774 54.545 21.52 15.07 32.39 3.42
2552 2679 1.906574 TGGCTTCTCCGTGATTTACCT 59.093 47.619 0.00 0.00 37.80 3.08
2574 2701 5.127519 CCTGTTGCCCATATTTCTGAATTGA 59.872 40.000 0.00 0.00 0.00 2.57
2659 2787 1.338200 GGTGTGCCTGTAGGAGTTCAG 60.338 57.143 1.17 0.00 37.39 3.02
2660 2788 1.618837 GTGTGCCTGTAGGAGTTCAGA 59.381 52.381 1.17 0.00 37.39 3.27
2663 2791 3.447586 TGTGCCTGTAGGAGTTCAGATAC 59.552 47.826 1.17 0.00 37.39 2.24
2664 2792 3.447586 GTGCCTGTAGGAGTTCAGATACA 59.552 47.826 1.17 0.00 37.39 2.29
2670 2798 6.410942 TGTAGGAGTTCAGATACATGGATG 57.589 41.667 0.00 0.00 0.00 3.51
2676 2804 3.428413 TCAGATACATGGATGCATGGG 57.572 47.619 28.08 13.49 36.91 4.00
2692 2820 4.889409 TGCATGGGATGATAGAAGTTTTCC 59.111 41.667 0.00 0.00 0.00 3.13
2693 2821 4.279420 GCATGGGATGATAGAAGTTTTCCC 59.721 45.833 0.00 0.00 42.64 3.97
2804 2998 5.105554 TGCTGTGTGGAAAACTATTTTGTGT 60.106 36.000 0.00 0.00 31.94 3.72
2918 3120 1.095600 CGACAGTGGTAGAGCTGCTA 58.904 55.000 0.15 0.00 36.26 3.49
2986 3192 6.879458 AGGCAGTTTCGAAATCTATAACTTGT 59.121 34.615 14.69 0.00 0.00 3.16
3024 3232 1.566231 CATTGGGAGTTTAGAGGGCCT 59.434 52.381 5.25 5.25 0.00 5.19
3030 3238 2.621668 GGAGTTTAGAGGGCCTTTGCAT 60.622 50.000 7.89 0.00 40.13 3.96
3038 3246 1.077005 AGGGCCTTTGCATCAACCTTA 59.923 47.619 0.00 0.00 40.13 2.69
3052 3260 6.202570 GCATCAACCTTATTGAACTGCAAAAA 59.797 34.615 9.32 0.00 40.48 1.94
3076 3284 9.939802 AAACGTCTTATATTTAAGAACAGAGGT 57.060 29.630 7.14 0.00 44.12 3.85
3082 3290 9.984190 CTTATATTTAAGAACAGAGGTACTCCC 57.016 37.037 0.00 0.00 46.12 4.30
3090 3298 3.516780 AGGTACTCCCTCCGTCCA 58.483 61.111 0.00 0.00 40.71 4.02
3091 3299 1.778981 AGGTACTCCCTCCGTCCAA 59.221 57.895 0.00 0.00 40.71 3.53
3092 3300 0.115745 AGGTACTCCCTCCGTCCAAA 59.884 55.000 0.00 0.00 40.71 3.28
3093 3301 0.978907 GGTACTCCCTCCGTCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
3094 3302 1.348696 GGTACTCCCTCCGTCCAAAAA 59.651 52.381 0.00 0.00 0.00 1.94
3095 3303 2.026542 GGTACTCCCTCCGTCCAAAAAT 60.027 50.000 0.00 0.00 0.00 1.82
3096 3304 3.198417 GGTACTCCCTCCGTCCAAAAATA 59.802 47.826 0.00 0.00 0.00 1.40
3097 3305 4.323715 GGTACTCCCTCCGTCCAAAAATAA 60.324 45.833 0.00 0.00 0.00 1.40
3098 3306 3.951663 ACTCCCTCCGTCCAAAAATAAG 58.048 45.455 0.00 0.00 0.00 1.73
3099 3307 3.329814 ACTCCCTCCGTCCAAAAATAAGT 59.670 43.478 0.00 0.00 0.00 2.24
3100 3308 3.681593 TCCCTCCGTCCAAAAATAAGTG 58.318 45.455 0.00 0.00 0.00 3.16
3101 3309 3.073356 TCCCTCCGTCCAAAAATAAGTGT 59.927 43.478 0.00 0.00 0.00 3.55
3102 3310 3.439129 CCCTCCGTCCAAAAATAAGTGTC 59.561 47.826 0.00 0.00 0.00 3.67
3103 3311 4.324267 CCTCCGTCCAAAAATAAGTGTCT 58.676 43.478 0.00 0.00 0.00 3.41
3104 3312 4.760204 CCTCCGTCCAAAAATAAGTGTCTT 59.240 41.667 0.00 0.00 0.00 3.01
3105 3313 5.935789 CCTCCGTCCAAAAATAAGTGTCTTA 59.064 40.000 0.00 0.00 0.00 2.10
3106 3314 6.428771 CCTCCGTCCAAAAATAAGTGTCTTAA 59.571 38.462 0.00 0.00 0.00 1.85
3107 3315 7.360946 CCTCCGTCCAAAAATAAGTGTCTTAAG 60.361 40.741 0.00 0.00 0.00 1.85
3108 3316 6.072893 TCCGTCCAAAAATAAGTGTCTTAAGC 60.073 38.462 0.00 0.00 0.00 3.09
3109 3317 6.072673 CCGTCCAAAAATAAGTGTCTTAAGCT 60.073 38.462 0.00 0.00 0.00 3.74
3110 3318 7.360361 CGTCCAAAAATAAGTGTCTTAAGCTT 58.640 34.615 3.48 3.48 0.00 3.74
3111 3319 8.500773 CGTCCAAAAATAAGTGTCTTAAGCTTA 58.499 33.333 0.86 0.86 0.00 3.09
3112 3320 9.827411 GTCCAAAAATAAGTGTCTTAAGCTTAG 57.173 33.333 6.24 1.77 0.00 2.18
3113 3321 9.569122 TCCAAAAATAAGTGTCTTAAGCTTAGT 57.431 29.630 6.24 0.00 0.00 2.24
3144 3352 9.804758 TTTTATACAAAAGGTGGTACAAAGTTG 57.195 29.630 0.00 0.00 44.16 3.16
3145 3353 8.749026 TTATACAAAAGGTGGTACAAAGTTGA 57.251 30.769 0.00 0.00 44.16 3.18
3146 3354 5.576447 ACAAAAGGTGGTACAAAGTTGAG 57.424 39.130 0.00 0.00 44.16 3.02
3147 3355 5.258051 ACAAAAGGTGGTACAAAGTTGAGA 58.742 37.500 0.00 0.00 44.16 3.27
3148 3356 5.124936 ACAAAAGGTGGTACAAAGTTGAGAC 59.875 40.000 0.00 0.00 44.16 3.36
3149 3357 4.497291 AAGGTGGTACAAAGTTGAGACA 57.503 40.909 0.00 0.00 44.16 3.41
3150 3358 3.805207 AGGTGGTACAAAGTTGAGACAC 58.195 45.455 0.00 3.70 44.16 3.67
3151 3359 3.454812 AGGTGGTACAAAGTTGAGACACT 59.545 43.478 0.00 0.00 44.16 3.55
3152 3360 4.080526 AGGTGGTACAAAGTTGAGACACTT 60.081 41.667 0.00 0.00 44.16 3.16
3153 3361 5.129815 AGGTGGTACAAAGTTGAGACACTTA 59.870 40.000 0.00 0.00 44.16 2.24
3154 3362 5.995897 GGTGGTACAAAGTTGAGACACTTAT 59.004 40.000 0.00 0.00 44.16 1.73
3155 3363 6.485648 GGTGGTACAAAGTTGAGACACTTATT 59.514 38.462 0.00 0.00 44.16 1.40
3156 3364 7.012989 GGTGGTACAAAGTTGAGACACTTATTT 59.987 37.037 0.00 0.00 44.16 1.40
3157 3365 8.403236 GTGGTACAAAGTTGAGACACTTATTTT 58.597 33.333 0.00 0.00 44.16 1.82
3158 3366 8.962679 TGGTACAAAGTTGAGACACTTATTTTT 58.037 29.630 0.00 0.00 35.87 1.94
3159 3367 9.233232 GGTACAAAGTTGAGACACTTATTTTTG 57.767 33.333 0.00 0.00 35.87 2.44
3160 3368 9.233232 GTACAAAGTTGAGACACTTATTTTTGG 57.767 33.333 0.00 0.00 35.87 3.28
3161 3369 8.062065 ACAAAGTTGAGACACTTATTTTTGGA 57.938 30.769 0.00 0.00 35.87 3.53
3162 3370 7.973944 ACAAAGTTGAGACACTTATTTTTGGAC 59.026 33.333 0.00 0.00 35.87 4.02
3163 3371 6.300354 AGTTGAGACACTTATTTTTGGACG 57.700 37.500 0.00 0.00 0.00 4.79
3164 3372 5.238650 AGTTGAGACACTTATTTTTGGACGG 59.761 40.000 0.00 0.00 0.00 4.79
3165 3373 4.963373 TGAGACACTTATTTTTGGACGGA 58.037 39.130 0.00 0.00 0.00 4.69
3166 3374 4.994852 TGAGACACTTATTTTTGGACGGAG 59.005 41.667 0.00 0.00 0.00 4.63
3167 3375 4.324267 AGACACTTATTTTTGGACGGAGG 58.676 43.478 0.00 0.00 0.00 4.30
3168 3376 4.070009 GACACTTATTTTTGGACGGAGGT 58.930 43.478 0.00 0.00 0.00 3.85
3169 3377 3.818773 ACACTTATTTTTGGACGGAGGTG 59.181 43.478 0.00 0.00 0.00 4.00
3170 3378 3.190535 CACTTATTTTTGGACGGAGGTGG 59.809 47.826 0.00 0.00 0.00 4.61
3171 3379 3.181437 ACTTATTTTTGGACGGAGGTGGT 60.181 43.478 0.00 0.00 0.00 4.16
3172 3380 4.041938 ACTTATTTTTGGACGGAGGTGGTA 59.958 41.667 0.00 0.00 0.00 3.25
3173 3381 2.259266 TTTTTGGACGGAGGTGGTAC 57.741 50.000 0.00 0.00 0.00 3.34
3174 3382 1.129917 TTTTGGACGGAGGTGGTACA 58.870 50.000 0.00 0.00 0.00 2.90
3175 3383 1.129917 TTTGGACGGAGGTGGTACAA 58.870 50.000 0.00 0.00 44.16 2.41
3176 3384 1.129917 TTGGACGGAGGTGGTACAAA 58.870 50.000 0.00 0.00 44.16 2.83
3177 3385 0.682852 TGGACGGAGGTGGTACAAAG 59.317 55.000 0.00 0.00 44.16 2.77
3178 3386 0.683412 GGACGGAGGTGGTACAAAGT 59.317 55.000 0.00 0.00 44.16 2.66
3179 3387 1.071228 GGACGGAGGTGGTACAAAGTT 59.929 52.381 0.00 0.00 44.16 2.66
3180 3388 2.140717 GACGGAGGTGGTACAAAGTTG 58.859 52.381 0.00 0.00 44.16 3.16
3181 3389 1.764134 ACGGAGGTGGTACAAAGTTGA 59.236 47.619 0.00 0.00 44.16 3.18
3182 3390 2.224209 ACGGAGGTGGTACAAAGTTGAG 60.224 50.000 0.00 0.00 44.16 3.02
3183 3391 2.036733 CGGAGGTGGTACAAAGTTGAGA 59.963 50.000 0.00 0.00 44.16 3.27
3184 3392 3.400255 GGAGGTGGTACAAAGTTGAGAC 58.600 50.000 0.00 0.00 44.16 3.36
3185 3393 3.181458 GGAGGTGGTACAAAGTTGAGACA 60.181 47.826 0.00 0.00 44.16 3.41
3186 3394 3.805207 AGGTGGTACAAAGTTGAGACAC 58.195 45.455 0.00 3.70 44.16 3.67
3187 3395 3.454812 AGGTGGTACAAAGTTGAGACACT 59.545 43.478 0.00 0.00 44.16 3.55
3188 3396 4.080526 AGGTGGTACAAAGTTGAGACACTT 60.081 41.667 0.00 0.00 44.16 3.16
3189 3397 5.129815 AGGTGGTACAAAGTTGAGACACTTA 59.870 40.000 0.00 0.00 44.16 2.24
3190 3398 5.995897 GGTGGTACAAAGTTGAGACACTTAT 59.004 40.000 0.00 0.00 44.16 1.73
3191 3399 6.485648 GGTGGTACAAAGTTGAGACACTTATT 59.514 38.462 0.00 0.00 44.16 1.40
3192 3400 7.012989 GGTGGTACAAAGTTGAGACACTTATTT 59.987 37.037 0.00 0.00 44.16 1.40
3193 3401 8.403236 GTGGTACAAAGTTGAGACACTTATTTT 58.597 33.333 0.00 0.00 44.16 1.82
3194 3402 8.962679 TGGTACAAAGTTGAGACACTTATTTTT 58.037 29.630 0.00 0.00 35.87 1.94
3195 3403 9.233232 GGTACAAAGTTGAGACACTTATTTTTG 57.767 33.333 0.00 0.00 35.87 2.44
3196 3404 9.233232 GTACAAAGTTGAGACACTTATTTTTGG 57.767 33.333 0.00 0.00 35.87 3.28
3197 3405 8.062065 ACAAAGTTGAGACACTTATTTTTGGA 57.938 30.769 0.00 0.00 35.87 3.53
3198 3406 7.973944 ACAAAGTTGAGACACTTATTTTTGGAC 59.026 33.333 0.00 0.00 35.87 4.02
3199 3407 6.300354 AGTTGAGACACTTATTTTTGGACG 57.700 37.500 0.00 0.00 0.00 4.79
3200 3408 5.238650 AGTTGAGACACTTATTTTTGGACGG 59.761 40.000 0.00 0.00 0.00 4.79
3201 3409 4.963373 TGAGACACTTATTTTTGGACGGA 58.037 39.130 0.00 0.00 0.00 4.69
3202 3410 4.994852 TGAGACACTTATTTTTGGACGGAG 59.005 41.667 0.00 0.00 0.00 4.63
3203 3411 4.324267 AGACACTTATTTTTGGACGGAGG 58.676 43.478 0.00 0.00 0.00 4.30
3204 3412 3.418047 ACACTTATTTTTGGACGGAGGG 58.582 45.455 0.00 0.00 0.00 4.30
3205 3413 3.073356 ACACTTATTTTTGGACGGAGGGA 59.927 43.478 0.00 0.00 0.00 4.20
3246 3454 5.716228 ACAGATTGATGCATTGGGAGTTTAA 59.284 36.000 0.00 0.00 0.00 1.52
3306 3514 8.928270 ACGTCTTATATTTAAGAACAGAGGTG 57.072 34.615 7.14 0.00 44.12 4.00
3307 3515 7.980099 ACGTCTTATATTTAAGAACAGAGGTGG 59.020 37.037 7.14 0.00 44.12 4.61
3386 3595 7.040686 ACCTTATTGAACTGCAAAACGTCTTAT 60.041 33.333 0.00 0.00 40.48 1.73
3393 3602 8.447833 TGAACTGCAAAACGTCTTATATTTAGG 58.552 33.333 0.00 0.00 0.00 2.69
3398 3607 8.784994 TGCAAAACGTCTTATATTTAGGAACAA 58.215 29.630 0.00 0.00 0.00 2.83
3438 3647 3.440872 AGAAACAGACTAGCAGTAGGACG 59.559 47.826 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
237 239 2.294512 CTCCTGAACTTTGCAAACCTCC 59.705 50.000 8.05 0.00 0.00 4.30
257 259 5.222086 ACGGGTTATAGGGAATTTACTCCT 58.778 41.667 0.00 0.00 35.63 3.69
422 429 4.316205 AAAACTCCTTTAAAACCCAGCG 57.684 40.909 0.00 0.00 0.00 5.18
423 430 6.644248 TCTAAAACTCCTTTAAAACCCAGC 57.356 37.500 0.00 0.00 0.00 4.85
611 618 3.251004 GTGTTGCGGAGACATCTCTTTTT 59.749 43.478 8.74 0.00 42.48 1.94
613 620 2.224281 TGTGTTGCGGAGACATCTCTTT 60.224 45.455 8.74 0.00 42.48 2.52
627 634 1.039856 ATGTTGAAGGGGTGTGTTGC 58.960 50.000 0.00 0.00 0.00 4.17
643 650 6.016192 CGTGGGAGACTCACTTATATACATGT 60.016 42.308 6.23 2.69 33.31 3.21
658 665 1.899814 TCTATTGCAACGTGGGAGACT 59.100 47.619 0.00 0.00 0.00 3.24
690 697 6.043243 AGGAGACAAAGGAGAGACACAAAATA 59.957 38.462 0.00 0.00 0.00 1.40
736 743 0.657840 GCGCCACTGCCTTGTTATAG 59.342 55.000 0.00 0.00 0.00 1.31
737 744 2.775351 GCGCCACTGCCTTGTTATA 58.225 52.632 0.00 0.00 0.00 0.98
738 745 3.590824 GCGCCACTGCCTTGTTAT 58.409 55.556 0.00 0.00 0.00 1.89
761 768 0.893727 ACACAAAGGGGATTCGCACC 60.894 55.000 2.94 0.00 41.99 5.01
762 769 0.958822 AACACAAAGGGGATTCGCAC 59.041 50.000 2.94 0.00 0.00 5.34
763 770 1.202879 AGAACACAAAGGGGATTCGCA 60.203 47.619 2.94 0.00 0.00 5.10
764 771 1.534729 AGAACACAAAGGGGATTCGC 58.465 50.000 0.00 0.00 0.00 4.70
765 772 4.584327 AAAAGAACACAAAGGGGATTCG 57.416 40.909 0.00 0.00 0.00 3.34
787 794 7.388500 GGAGATTTGCATTCAATCAAGGAAAAA 59.612 33.333 11.24 0.00 26.97 1.94
788 795 6.875195 GGAGATTTGCATTCAATCAAGGAAAA 59.125 34.615 11.24 0.00 27.71 2.29
789 796 6.211986 AGGAGATTTGCATTCAATCAAGGAAA 59.788 34.615 11.24 0.00 31.33 3.13
790 797 5.718130 AGGAGATTTGCATTCAATCAAGGAA 59.282 36.000 11.24 0.00 31.33 3.36
791 798 5.266788 AGGAGATTTGCATTCAATCAAGGA 58.733 37.500 11.24 0.00 31.33 3.36
792 799 5.593679 AGGAGATTTGCATTCAATCAAGG 57.406 39.130 11.24 0.00 31.33 3.61
793 800 7.290857 CAAAGGAGATTTGCATTCAATCAAG 57.709 36.000 11.24 0.00 41.77 3.02
811 818 1.757682 AAACAGCCGAACACAAAGGA 58.242 45.000 0.00 0.00 0.00 3.36
825 832 1.070843 CGTGGACGCAACAGTAAACAG 60.071 52.381 0.00 0.00 0.00 3.16
911 918 2.224548 CGGTGGATTCCTTCCCTTATCC 60.225 54.545 3.95 0.00 44.77 2.59
955 962 1.699730 CGGGGGATTGGGTTTTATCC 58.300 55.000 0.00 0.00 39.70 2.59
1171 1186 7.220300 CAGTTACTCGAACCATGAACATAGTAC 59.780 40.741 0.00 0.00 39.02 2.73
1189 1209 2.678324 AGTTCTCAAGCGCAGTTACTC 58.322 47.619 11.47 0.00 0.00 2.59
1190 1210 2.821991 AGTTCTCAAGCGCAGTTACT 57.178 45.000 11.47 1.85 0.00 2.24
1194 1216 0.308993 GCAAAGTTCTCAAGCGCAGT 59.691 50.000 11.47 0.00 0.00 4.40
1199 1221 3.437049 AGGATTACGCAAAGTTCTCAAGC 59.563 43.478 0.00 0.00 0.00 4.01
1332 1366 0.317603 TAGCTTCGCGCGGAGTAATC 60.318 55.000 36.40 21.28 45.59 1.75
1340 1374 1.270968 CAATCTGTAGCTTCGCGCG 59.729 57.895 26.76 26.76 45.59 6.86
1344 1378 7.591795 CCACTACTATAACAATCTGTAGCTTCG 59.408 40.741 0.00 0.00 35.38 3.79
1361 1395 2.295253 GCACAACGCTCCACTACTAT 57.705 50.000 0.00 0.00 37.77 2.12
1458 1496 7.012894 CGAGAAGGAAGATCTGTACATACTCTT 59.987 40.741 12.11 12.11 0.00 2.85
1493 1536 2.079925 GAGTGACCTCAATTGCTGTCC 58.920 52.381 18.58 12.53 37.67 4.02
1563 1606 2.175931 ACACCCACCCATAAACTTGTCA 59.824 45.455 0.00 0.00 0.00 3.58
1677 1720 8.655651 TGACAAAGACCAAAATATTTGTTTCC 57.344 30.769 0.39 0.00 42.49 3.13
1911 2035 3.316029 TGTTGATGAGTGAAAGTGCCAAG 59.684 43.478 0.00 0.00 0.00 3.61
1972 2096 0.110644 CGTCAGAGCAAAGAAACCGC 60.111 55.000 0.00 0.00 0.00 5.68
1977 2101 0.884704 GGTGGCGTCAGAGCAAAGAA 60.885 55.000 0.00 0.00 39.27 2.52
2029 2153 4.537015 GATTCTTTTTCCTGAACCACACG 58.463 43.478 0.00 0.00 0.00 4.49
2304 2428 2.972819 GCCCCTCAACCTCCTGACC 61.973 68.421 0.00 0.00 0.00 4.02
2380 2504 0.526524 GACGGAAGATCGCTGTCCAG 60.527 60.000 15.62 7.99 35.99 3.86
2466 2590 2.897780 GAGCACGATCATGAGCTCC 58.102 57.895 19.10 4.33 43.88 4.70
2469 2593 0.935898 CTTGGAGCACGATCATGAGC 59.064 55.000 0.00 0.00 0.00 4.26
2472 2596 0.926155 CGTCTTGGAGCACGATCATG 59.074 55.000 0.00 0.00 38.32 3.07
2516 2640 1.592064 GCCAATTGCTCTAGCCTCTC 58.408 55.000 0.00 0.00 41.18 3.20
2552 2679 5.479724 TGTCAATTCAGAAATATGGGCAACA 59.520 36.000 0.00 0.00 39.74 3.33
2574 2701 1.552337 AGACGCAGGTGATCTCATTGT 59.448 47.619 0.00 0.00 0.00 2.71
2659 2787 3.959293 TCATCCCATGCATCCATGTATC 58.041 45.455 0.00 0.00 45.90 2.24
2660 2788 4.603094 ATCATCCCATGCATCCATGTAT 57.397 40.909 0.00 0.00 45.90 2.29
2663 2791 4.230745 TCTATCATCCCATGCATCCATG 57.769 45.455 0.00 0.00 46.70 3.66
2664 2792 4.291513 ACTTCTATCATCCCATGCATCCAT 59.708 41.667 0.00 0.00 0.00 3.41
2670 2798 4.279420 GGGAAAACTTCTATCATCCCATGC 59.721 45.833 3.81 0.00 44.81 4.06
2676 2804 8.567285 TCAGAAAAGGGAAAACTTCTATCATC 57.433 34.615 0.00 0.00 0.00 2.92
2692 2820 5.645067 TCTGCATACACAATCTCAGAAAAGG 59.355 40.000 0.00 0.00 0.00 3.11
2693 2821 6.675002 GCTCTGCATACACAATCTCAGAAAAG 60.675 42.308 0.00 0.00 31.24 2.27
2784 2978 5.105752 TGCACACAAAATAGTTTTCCACAC 58.894 37.500 0.00 0.00 0.00 3.82
2804 2998 3.938334 AGATGTAATGTACACGCAATGCA 59.062 39.130 5.91 0.00 42.23 3.96
2872 3074 6.658816 TCATTTTAGCAGTACATGACCAACAT 59.341 34.615 0.00 0.00 40.17 2.71
2889 3091 5.460419 GCTCTACCACTGTCGATCATTTTAG 59.540 44.000 0.00 0.00 0.00 1.85
2918 3120 4.625607 AGAGGCGCTAATAGGCTTAAAT 57.374 40.909 7.64 0.00 44.86 1.40
2934 3136 1.882623 CAAGTTCCAACCAGAAGAGGC 59.117 52.381 0.00 0.00 0.00 4.70
2986 3192 5.010516 CCCAATGCATTAACCCATTCGATTA 59.989 40.000 12.53 0.00 29.71 1.75
3024 3232 5.221402 TGCAGTTCAATAAGGTTGATGCAAA 60.221 36.000 13.54 0.00 39.80 3.68
3030 3238 5.746245 CGTTTTTGCAGTTCAATAAGGTTGA 59.254 36.000 0.00 0.00 34.12 3.18
3038 3246 9.691362 AAATATAAGACGTTTTTGCAGTTCAAT 57.309 25.926 0.00 0.00 34.12 2.57
3075 3283 2.845363 TTTTTGGACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
3076 3284 4.533311 ACTTATTTTTGGACGGAGGGAGTA 59.467 41.667 0.00 0.00 0.00 2.59
3077 3285 3.329814 ACTTATTTTTGGACGGAGGGAGT 59.670 43.478 0.00 0.00 0.00 3.85
3078 3286 3.689649 CACTTATTTTTGGACGGAGGGAG 59.310 47.826 0.00 0.00 0.00 4.30
3079 3287 3.073356 ACACTTATTTTTGGACGGAGGGA 59.927 43.478 0.00 0.00 0.00 4.20
3080 3288 3.418047 ACACTTATTTTTGGACGGAGGG 58.582 45.455 0.00 0.00 0.00 4.30
3081 3289 4.324267 AGACACTTATTTTTGGACGGAGG 58.676 43.478 0.00 0.00 0.00 4.30
3082 3290 5.941948 AAGACACTTATTTTTGGACGGAG 57.058 39.130 0.00 0.00 0.00 4.63
3083 3291 6.072893 GCTTAAGACACTTATTTTTGGACGGA 60.073 38.462 6.67 0.00 0.00 4.69
3084 3292 6.072673 AGCTTAAGACACTTATTTTTGGACGG 60.073 38.462 6.67 0.00 0.00 4.79
3085 3293 6.899114 AGCTTAAGACACTTATTTTTGGACG 58.101 36.000 6.67 0.00 0.00 4.79
3086 3294 9.827411 CTAAGCTTAAGACACTTATTTTTGGAC 57.173 33.333 6.67 0.00 0.00 4.02
3087 3295 9.569122 ACTAAGCTTAAGACACTTATTTTTGGA 57.431 29.630 6.67 0.00 0.00 3.53
3118 3326 9.804758 CAACTTTGTACCACCTTTTGTATAAAA 57.195 29.630 0.00 0.00 30.87 1.52
3119 3327 9.186837 TCAACTTTGTACCACCTTTTGTATAAA 57.813 29.630 0.00 0.00 30.60 1.40
3120 3328 8.749026 TCAACTTTGTACCACCTTTTGTATAA 57.251 30.769 0.00 0.00 0.00 0.98
3121 3329 8.212312 TCTCAACTTTGTACCACCTTTTGTATA 58.788 33.333 0.00 0.00 0.00 1.47
3122 3330 7.012989 GTCTCAACTTTGTACCACCTTTTGTAT 59.987 37.037 0.00 0.00 0.00 2.29
3123 3331 6.316890 GTCTCAACTTTGTACCACCTTTTGTA 59.683 38.462 0.00 0.00 0.00 2.41
3124 3332 5.124936 GTCTCAACTTTGTACCACCTTTTGT 59.875 40.000 0.00 0.00 0.00 2.83
3125 3333 5.124776 TGTCTCAACTTTGTACCACCTTTTG 59.875 40.000 0.00 0.00 0.00 2.44
3126 3334 5.124936 GTGTCTCAACTTTGTACCACCTTTT 59.875 40.000 0.00 0.00 0.00 2.27
3127 3335 4.638865 GTGTCTCAACTTTGTACCACCTTT 59.361 41.667 0.00 0.00 0.00 3.11
3128 3336 4.080526 AGTGTCTCAACTTTGTACCACCTT 60.081 41.667 0.00 0.00 0.00 3.50
3129 3337 3.454812 AGTGTCTCAACTTTGTACCACCT 59.545 43.478 0.00 0.00 0.00 4.00
3130 3338 3.805207 AGTGTCTCAACTTTGTACCACC 58.195 45.455 0.00 0.00 0.00 4.61
3131 3339 7.492352 AATAAGTGTCTCAACTTTGTACCAC 57.508 36.000 0.00 0.00 40.77 4.16
3132 3340 8.514330 AAAATAAGTGTCTCAACTTTGTACCA 57.486 30.769 0.00 0.00 40.77 3.25
3133 3341 9.233232 CAAAAATAAGTGTCTCAACTTTGTACC 57.767 33.333 0.00 0.00 40.77 3.34
3134 3342 9.233232 CCAAAAATAAGTGTCTCAACTTTGTAC 57.767 33.333 0.00 0.00 40.77 2.90
3135 3343 9.179909 TCCAAAAATAAGTGTCTCAACTTTGTA 57.820 29.630 0.00 0.00 40.77 2.41
3136 3344 7.973944 GTCCAAAAATAAGTGTCTCAACTTTGT 59.026 33.333 0.00 0.00 40.77 2.83
3137 3345 7.165812 CGTCCAAAAATAAGTGTCTCAACTTTG 59.834 37.037 0.00 0.00 40.77 2.77
3138 3346 7.193595 CGTCCAAAAATAAGTGTCTCAACTTT 58.806 34.615 0.00 0.00 40.77 2.66
3139 3347 6.238648 CCGTCCAAAAATAAGTGTCTCAACTT 60.239 38.462 0.00 0.00 42.89 2.66
3140 3348 5.238650 CCGTCCAAAAATAAGTGTCTCAACT 59.761 40.000 0.00 0.00 0.00 3.16
3141 3349 5.237779 TCCGTCCAAAAATAAGTGTCTCAAC 59.762 40.000 0.00 0.00 0.00 3.18
3142 3350 5.369833 TCCGTCCAAAAATAAGTGTCTCAA 58.630 37.500 0.00 0.00 0.00 3.02
3143 3351 4.963373 TCCGTCCAAAAATAAGTGTCTCA 58.037 39.130 0.00 0.00 0.00 3.27
3144 3352 4.392138 CCTCCGTCCAAAAATAAGTGTCTC 59.608 45.833 0.00 0.00 0.00 3.36
3145 3353 4.202430 ACCTCCGTCCAAAAATAAGTGTCT 60.202 41.667 0.00 0.00 0.00 3.41
3146 3354 4.070009 ACCTCCGTCCAAAAATAAGTGTC 58.930 43.478 0.00 0.00 0.00 3.67
3147 3355 3.818773 CACCTCCGTCCAAAAATAAGTGT 59.181 43.478 0.00 0.00 0.00 3.55
3148 3356 3.190535 CCACCTCCGTCCAAAAATAAGTG 59.809 47.826 0.00 0.00 0.00 3.16
3149 3357 3.181437 ACCACCTCCGTCCAAAAATAAGT 60.181 43.478 0.00 0.00 0.00 2.24
3150 3358 3.418047 ACCACCTCCGTCCAAAAATAAG 58.582 45.455 0.00 0.00 0.00 1.73
3151 3359 3.512219 ACCACCTCCGTCCAAAAATAA 57.488 42.857 0.00 0.00 0.00 1.40
3152 3360 3.327172 TGTACCACCTCCGTCCAAAAATA 59.673 43.478 0.00 0.00 0.00 1.40
3153 3361 2.106857 TGTACCACCTCCGTCCAAAAAT 59.893 45.455 0.00 0.00 0.00 1.82
3154 3362 1.489649 TGTACCACCTCCGTCCAAAAA 59.510 47.619 0.00 0.00 0.00 1.94
3155 3363 1.129917 TGTACCACCTCCGTCCAAAA 58.870 50.000 0.00 0.00 0.00 2.44
3156 3364 1.129917 TTGTACCACCTCCGTCCAAA 58.870 50.000 0.00 0.00 0.00 3.28
3157 3365 1.071071 CTTTGTACCACCTCCGTCCAA 59.929 52.381 0.00 0.00 0.00 3.53
3158 3366 0.682852 CTTTGTACCACCTCCGTCCA 59.317 55.000 0.00 0.00 0.00 4.02
3159 3367 0.683412 ACTTTGTACCACCTCCGTCC 59.317 55.000 0.00 0.00 0.00 4.79
3160 3368 2.140717 CAACTTTGTACCACCTCCGTC 58.859 52.381 0.00 0.00 0.00 4.79
3161 3369 1.764134 TCAACTTTGTACCACCTCCGT 59.236 47.619 0.00 0.00 0.00 4.69
3162 3370 2.036733 TCTCAACTTTGTACCACCTCCG 59.963 50.000 0.00 0.00 0.00 4.63
3163 3371 3.181458 TGTCTCAACTTTGTACCACCTCC 60.181 47.826 0.00 0.00 0.00 4.30
3164 3372 3.808174 GTGTCTCAACTTTGTACCACCTC 59.192 47.826 0.00 0.00 0.00 3.85
3165 3373 3.454812 AGTGTCTCAACTTTGTACCACCT 59.545 43.478 0.00 0.00 0.00 4.00
3166 3374 3.805207 AGTGTCTCAACTTTGTACCACC 58.195 45.455 0.00 0.00 0.00 4.61
3167 3375 7.492352 AATAAGTGTCTCAACTTTGTACCAC 57.508 36.000 0.00 0.00 40.77 4.16
3168 3376 8.514330 AAAATAAGTGTCTCAACTTTGTACCA 57.486 30.769 0.00 0.00 40.77 3.25
3169 3377 9.233232 CAAAAATAAGTGTCTCAACTTTGTACC 57.767 33.333 0.00 0.00 40.77 3.34
3170 3378 9.233232 CCAAAAATAAGTGTCTCAACTTTGTAC 57.767 33.333 0.00 0.00 40.77 2.90
3171 3379 9.179909 TCCAAAAATAAGTGTCTCAACTTTGTA 57.820 29.630 0.00 0.00 40.77 2.41
3172 3380 7.973944 GTCCAAAAATAAGTGTCTCAACTTTGT 59.026 33.333 0.00 0.00 40.77 2.83
3173 3381 7.165812 CGTCCAAAAATAAGTGTCTCAACTTTG 59.834 37.037 0.00 0.00 40.77 2.77
3174 3382 7.193595 CGTCCAAAAATAAGTGTCTCAACTTT 58.806 34.615 0.00 0.00 40.77 2.66
3175 3383 6.238648 CCGTCCAAAAATAAGTGTCTCAACTT 60.239 38.462 0.00 0.00 42.89 2.66
3176 3384 5.238650 CCGTCCAAAAATAAGTGTCTCAACT 59.761 40.000 0.00 0.00 0.00 3.16
3177 3385 5.237779 TCCGTCCAAAAATAAGTGTCTCAAC 59.762 40.000 0.00 0.00 0.00 3.18
3178 3386 5.369833 TCCGTCCAAAAATAAGTGTCTCAA 58.630 37.500 0.00 0.00 0.00 3.02
3179 3387 4.963373 TCCGTCCAAAAATAAGTGTCTCA 58.037 39.130 0.00 0.00 0.00 3.27
3180 3388 4.392138 CCTCCGTCCAAAAATAAGTGTCTC 59.608 45.833 0.00 0.00 0.00 3.36
3181 3389 4.324267 CCTCCGTCCAAAAATAAGTGTCT 58.676 43.478 0.00 0.00 0.00 3.41
3182 3390 3.439129 CCCTCCGTCCAAAAATAAGTGTC 59.561 47.826 0.00 0.00 0.00 3.67
3183 3391 3.073356 TCCCTCCGTCCAAAAATAAGTGT 59.927 43.478 0.00 0.00 0.00 3.55
3184 3392 3.681593 TCCCTCCGTCCAAAAATAAGTG 58.318 45.455 0.00 0.00 0.00 3.16
3185 3393 3.329814 ACTCCCTCCGTCCAAAAATAAGT 59.670 43.478 0.00 0.00 0.00 2.24
3186 3394 3.951663 ACTCCCTCCGTCCAAAAATAAG 58.048 45.455 0.00 0.00 0.00 1.73
3187 3395 4.533311 AGTACTCCCTCCGTCCAAAAATAA 59.467 41.667 0.00 0.00 0.00 1.40
3188 3396 4.098894 AGTACTCCCTCCGTCCAAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
3189 3397 2.910977 AGTACTCCCTCCGTCCAAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
3190 3398 2.332117 AGTACTCCCTCCGTCCAAAAA 58.668 47.619 0.00 0.00 0.00 1.94
3191 3399 2.019807 AGTACTCCCTCCGTCCAAAA 57.980 50.000 0.00 0.00 0.00 2.44
3192 3400 2.905415 TAGTACTCCCTCCGTCCAAA 57.095 50.000 0.00 0.00 0.00 3.28
3193 3401 2.905415 TTAGTACTCCCTCCGTCCAA 57.095 50.000 0.00 0.00 0.00 3.53
3194 3402 3.393426 AATTAGTACTCCCTCCGTCCA 57.607 47.619 0.00 0.00 0.00 4.02
3195 3403 4.468713 ACTAATTAGTACTCCCTCCGTCC 58.531 47.826 16.60 0.00 34.13 4.79
3196 3404 6.529220 TCTACTAATTAGTACTCCCTCCGTC 58.471 44.000 19.30 0.00 37.73 4.79
3197 3405 6.506538 TCTACTAATTAGTACTCCCTCCGT 57.493 41.667 19.30 0.00 37.73 4.69
3198 3406 7.284034 TGTTTCTACTAATTAGTACTCCCTCCG 59.716 40.741 19.30 8.98 37.73 4.63
3199 3407 8.530804 TGTTTCTACTAATTAGTACTCCCTCC 57.469 38.462 19.30 6.59 37.73 4.30
3200 3408 9.406113 TCTGTTTCTACTAATTAGTACTCCCTC 57.594 37.037 19.30 9.75 37.73 4.30
3201 3409 9.939424 ATCTGTTTCTACTAATTAGTACTCCCT 57.061 33.333 19.30 0.00 37.73 4.20
3246 3454 1.610379 GGTTGATGCAAGGGCCCTT 60.610 57.895 32.48 32.48 40.13 3.95
3306 3514 7.715249 TGCATCCATCTGTTTCTACTTATTACC 59.285 37.037 0.00 0.00 0.00 2.85
3307 3515 8.662781 TGCATCCATCTGTTTCTACTTATTAC 57.337 34.615 0.00 0.00 0.00 1.89
3406 3615 9.245481 ACTGCTAGTCTGTTTCTACTAATTACT 57.755 33.333 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.