Multiple sequence alignment - TraesCS6B01G379200

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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 TraesCS6B01G379200 chr6B 100.000 3113 0 0 1 3113 653857440 653854328 0.000000e+00 5749.0
1 TraesCS6B01G379200 chr6B 88.713 2658 221 30 2 2617 653716561 653713941 0.000000e+00 3173.0
2 TraesCS6B01G379200 chr6B 89.683 2210 165 23 2 2168 653195738 653193549 0.000000e+00 2760.0
3 TraesCS6B01G379200 chr6B 89.051 1580 153 8 801 2371 653872740 653871172 0.000000e+00 1941.0
4 TraesCS6B01G379200 chr6B 88.974 1170 112 10 1416 2574 653698578 653697415 0.000000e+00 1430.0
5 TraesCS6B01G379200 chr6B 95.289 467 16 4 2650 3113 653187029 653186566 0.000000e+00 736.0
6 TraesCS6B01G379200 chr6B 93.721 430 27 0 2165 2594 653187459 653187030 0.000000e+00 645.0
7 TraesCS6B01G379200 chr6B 78.896 308 31 16 2813 3111 653713931 653713649 8.870000e-41 178.0
8 TraesCS6B01G379200 chr6B 78.571 308 32 16 2813 3111 653787078 653786796 4.130000e-39 172.0
9 TraesCS6B01G379200 chr6B 94.828 58 3 0 2754 2811 141663660 141663717 1.190000e-14 91.6
10 TraesCS6B01G379200 chr6A 93.581 2633 123 19 3 2621 579125825 579123225 0.000000e+00 3884.0
11 TraesCS6B01G379200 chr6A 88.671 1580 158 9 801 2371 579143227 579141660 0.000000e+00 1906.0
12 TraesCS6B01G379200 chr6A 91.525 118 5 1 2863 2980 579122904 579122792 1.160000e-34 158.0
13 TraesCS6B01G379200 chr6A 96.610 59 2 0 2807 2865 579123233 579123175 7.100000e-17 99.0
14 TraesCS6B01G379200 chr6A 86.585 82 10 1 2978 3059 579052519 579052439 4.280000e-14 89.8
15 TraesCS6B01G379200 chr6D 93.187 2554 149 12 53 2593 432915301 432912760 0.000000e+00 3729.0
16 TraesCS6B01G379200 chr6D 89.161 2657 220 27 5 2616 433260039 433257406 0.000000e+00 3249.0
17 TraesCS6B01G379200 chr6D 88.067 1785 195 8 801 2575 433155432 433153656 0.000000e+00 2100.0
18 TraesCS6B01G379200 chr6D 89.008 1583 153 9 801 2374 433280766 433279196 0.000000e+00 1940.0
19 TraesCS6B01G379200 chr6D 84.144 555 80 7 2071 2621 433037324 433036774 5.910000e-147 531.0
20 TraesCS6B01G379200 chr6D 82.069 290 32 10 2828 3113 432928434 432928161 2.410000e-56 230.0
21 TraesCS6B01G379200 chr6D 82.270 282 29 10 2832 3111 433278125 433277863 1.120000e-54 224.0
22 TraesCS6B01G379200 chr7A 79.437 462 69 21 264 708 566561888 566562340 1.400000e-78 303.0
23 TraesCS6B01G379200 chr7A 91.045 67 3 3 2748 2811 721124252 721124318 1.540000e-13 87.9
24 TraesCS6B01G379200 chr7A 90.625 64 4 2 2754 2815 2825065 2825128 1.990000e-12 84.2
25 TraesCS6B01G379200 chr7D 73.625 618 99 33 19 624 500745076 500745641 2.470000e-41 180.0
26 TraesCS6B01G379200 chr7D 90.476 42 4 0 2719 2760 35796424 35796465 4.340000e-04 56.5
27 TraesCS6B01G379200 chr3B 94.915 59 2 1 2754 2811 769460124 769460066 1.190000e-14 91.6
28 TraesCS6B01G379200 chr5D 92.063 63 3 2 2754 2814 217748418 217748480 1.540000e-13 87.9
29 TraesCS6B01G379200 chr3D 90.625 64 4 2 2754 2815 536919319 536919382 1.990000e-12 84.2
30 TraesCS6B01G379200 chr3D 92.857 42 3 0 2719 2760 216471992 216472033 9.320000e-06 62.1
31 TraesCS6B01G379200 chr5A 89.552 67 4 3 2754 2817 400672192 400672126 7.160000e-12 82.4
32 TraesCS6B01G379200 chrUn 91.525 59 4 1 2754 2811 17019480 17019538 2.570000e-11 80.5


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 TraesCS6B01G379200 chr6B 653854328 653857440 3112 True 5749.000000 5749 100.000000 1 3113 1 chr6B.!!$R4 3112
1 TraesCS6B01G379200 chr6B 653193549 653195738 2189 True 2760.000000 2760 89.683000 2 2168 1 chr6B.!!$R1 2166
2 TraesCS6B01G379200 chr6B 653871172 653872740 1568 True 1941.000000 1941 89.051000 801 2371 1 chr6B.!!$R5 1570
3 TraesCS6B01G379200 chr6B 653713649 653716561 2912 True 1675.500000 3173 83.804500 2 3111 2 chr6B.!!$R7 3109
4 TraesCS6B01G379200 chr6B 653697415 653698578 1163 True 1430.000000 1430 88.974000 1416 2574 1 chr6B.!!$R2 1158
5 TraesCS6B01G379200 chr6B 653186566 653187459 893 True 690.500000 736 94.505000 2165 3113 2 chr6B.!!$R6 948
6 TraesCS6B01G379200 chr6A 579141660 579143227 1567 True 1906.000000 1906 88.671000 801 2371 1 chr6A.!!$R2 1570
7 TraesCS6B01G379200 chr6A 579122792 579125825 3033 True 1380.333333 3884 93.905333 3 2980 3 chr6A.!!$R3 2977
8 TraesCS6B01G379200 chr6D 432912760 432915301 2541 True 3729.000000 3729 93.187000 53 2593 1 chr6D.!!$R1 2540
9 TraesCS6B01G379200 chr6D 433257406 433260039 2633 True 3249.000000 3249 89.161000 5 2616 1 chr6D.!!$R5 2611
10 TraesCS6B01G379200 chr6D 433153656 433155432 1776 True 2100.000000 2100 88.067000 801 2575 1 chr6D.!!$R4 1774
11 TraesCS6B01G379200 chr6D 433277863 433280766 2903 True 1082.000000 1940 85.639000 801 3111 2 chr6D.!!$R6 2310
12 TraesCS6B01G379200 chr6D 433036774 433037324 550 True 531.000000 531 84.144000 2071 2621 1 chr6D.!!$R3 550

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
120 122 0.038310 TGTGTTGGTTGGGTGTGTGA 59.962 50.000 0.0 0.0 0.0 3.58 F
212 214 1.404449 CGCACAACCCATCAATTGCAT 60.404 47.619 0.0 0.0 0.0 3.96 F
1204 1247 0.679640 GGCCAATGTCGGGTTCATCA 60.680 55.000 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1103 1146 1.419012 CCATCCAGCTCTCATGCCTTA 59.581 52.381 0.00 0.00 0.00 2.69 R
1284 1327 2.767644 ACCCCTTGTTAGCCTTTGTT 57.232 45.000 0.00 0.00 0.00 2.83 R
2782 3801 0.035056 CCTAGCTCAACTGGTTGGGG 60.035 60.000 14.16 8.58 41.25 4.96 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
48 49 5.390673 CGTGTGTACTCTACTCGATTCTTGT 60.391 44.000 0.00 0.00 37.25 3.16
64 65 7.279981 TCGATTCTTGTGTATGATTTTGGTAGG 59.720 37.037 0.00 0.00 0.00 3.18
77 78 5.975693 TTTTGGTAGGCCTACAAATCAAG 57.024 39.130 37.40 0.00 37.78 3.02
112 114 2.031120 AGTGTTGGATGTGTTGGTTGG 58.969 47.619 0.00 0.00 0.00 3.77
119 121 1.066908 GATGTGTTGGTTGGGTGTGTG 59.933 52.381 0.00 0.00 0.00 3.82
120 122 0.038310 TGTGTTGGTTGGGTGTGTGA 59.962 50.000 0.00 0.00 0.00 3.58
148 150 3.006859 TGCTGTGCACAGTGTATCTACTT 59.993 43.478 39.30 0.00 45.45 2.24
169 171 5.012768 ACTTTGCAGGGTGTTACATACTACT 59.987 40.000 0.00 0.00 0.00 2.57
203 205 3.669344 CAACGCCGCACAACCCAT 61.669 61.111 0.00 0.00 0.00 4.00
207 209 2.699768 CGCCGCACAACCCATCAAT 61.700 57.895 0.00 0.00 0.00 2.57
212 214 1.404449 CGCACAACCCATCAATTGCAT 60.404 47.619 0.00 0.00 0.00 3.96
282 284 8.540507 ACTGTTGTGAGATATGGTACTTCTAT 57.459 34.615 0.00 0.00 0.00 1.98
303 305 5.712152 ATGAAGTTGTGAATGGAAAGGAC 57.288 39.130 0.00 0.00 0.00 3.85
357 359 7.081349 CGGTATTAAAATTCTTGCACTTGACA 58.919 34.615 0.00 0.00 0.00 3.58
422 427 4.406456 AGATGAGTGCCAACCATGTTTTA 58.594 39.130 0.00 0.00 0.00 1.52
424 429 2.890311 TGAGTGCCAACCATGTTTTAGG 59.110 45.455 0.00 0.00 0.00 2.69
771 798 7.580523 CGCTAAAGAAATCTGTCAATATCAACG 59.419 37.037 0.00 0.00 0.00 4.10
796 839 4.439700 GCAAGCACATTCAGCATAACATCT 60.440 41.667 0.00 0.00 0.00 2.90
856 899 2.165167 CCCACTAGACGTACTTCACCA 58.835 52.381 0.00 0.00 0.00 4.17
904 947 8.080417 TCTCCTATACTTAAATACATGCGTCAC 58.920 37.037 0.00 0.00 0.00 3.67
989 1032 4.978083 AGTAGCAAGCAATCCATCAAAG 57.022 40.909 0.00 0.00 0.00 2.77
990 1033 2.667473 AGCAAGCAATCCATCAAAGC 57.333 45.000 0.00 0.00 0.00 3.51
991 1034 1.897133 AGCAAGCAATCCATCAAAGCA 59.103 42.857 0.00 0.00 0.00 3.91
992 1035 2.094182 AGCAAGCAATCCATCAAAGCAG 60.094 45.455 0.00 0.00 0.00 4.24
993 1036 2.094390 GCAAGCAATCCATCAAAGCAGA 60.094 45.455 0.00 0.00 0.00 4.26
994 1037 3.770666 CAAGCAATCCATCAAAGCAGAG 58.229 45.455 0.00 0.00 0.00 3.35
995 1038 1.749634 AGCAATCCATCAAAGCAGAGC 59.250 47.619 0.00 0.00 0.00 4.09
996 1039 1.475280 GCAATCCATCAAAGCAGAGCA 59.525 47.619 0.00 0.00 0.00 4.26
997 1040 2.734492 GCAATCCATCAAAGCAGAGCAC 60.734 50.000 0.00 0.00 0.00 4.40
998 1041 2.490509 CAATCCATCAAAGCAGAGCACA 59.509 45.455 0.00 0.00 0.00 4.57
999 1042 2.502142 TCCATCAAAGCAGAGCACAT 57.498 45.000 0.00 0.00 0.00 3.21
1000 1043 3.632643 TCCATCAAAGCAGAGCACATA 57.367 42.857 0.00 0.00 0.00 2.29
1001 1044 4.160642 TCCATCAAAGCAGAGCACATAT 57.839 40.909 0.00 0.00 0.00 1.78
1002 1045 3.881089 TCCATCAAAGCAGAGCACATATG 59.119 43.478 0.00 0.00 0.00 1.78
1003 1046 3.881089 CCATCAAAGCAGAGCACATATGA 59.119 43.478 10.38 0.00 0.00 2.15
1103 1146 3.476552 ACGATGACTTGTCAATGGTTGT 58.523 40.909 7.57 0.00 0.00 3.32
1204 1247 0.679640 GGCCAATGTCGGGTTCATCA 60.680 55.000 0.00 0.00 0.00 3.07
1284 1327 0.250295 CCAACGAGGAGTTCAAGGCA 60.250 55.000 0.00 0.00 42.02 4.75
1344 1387 1.692519 GTGCCTACCGGATTCAGGTAT 59.307 52.381 9.46 0.00 42.68 2.73
1578 1624 1.154205 CGGAGGGCATCGTTAAGCTG 61.154 60.000 0.00 0.00 0.00 4.24
1788 1834 0.031994 GTGCCGCAACCATCAAAAGT 59.968 50.000 0.00 0.00 0.00 2.66
1976 2022 3.611674 TGGCAAGACCAGCGACGA 61.612 61.111 0.00 0.00 46.36 4.20
2066 2112 4.322499 GGAGAAGGACATTACCGACAAGAA 60.322 45.833 0.00 0.00 34.73 2.52
2182 2228 4.535526 AATTGCCCACATCCACTTTAAC 57.464 40.909 0.00 0.00 0.00 2.01
2339 2398 4.859304 AGAGAAATTGAATTGTGCTGCA 57.141 36.364 0.00 0.00 0.00 4.41
2453 2682 8.985315 TGATGGAGCTGATCTGTAAATAAAAT 57.015 30.769 0.00 0.00 0.00 1.82
2471 2700 4.388577 AAATTTGAAGCCTAGAGGTGGT 57.611 40.909 0.00 0.00 37.57 4.16
2475 2704 2.457598 TGAAGCCTAGAGGTGGTACAG 58.542 52.381 0.00 0.00 41.80 2.74
2481 2710 4.168283 AGCCTAGAGGTGGTACAGATAGAA 59.832 45.833 0.00 0.00 41.80 2.10
2529 2758 8.066612 AGAAAATGAATTATGACGGACCATTT 57.933 30.769 0.00 0.00 35.18 2.32
2552 2782 0.616371 CCCCAATCACCGTTGTCCTA 59.384 55.000 0.00 0.00 0.00 2.94
2621 3640 1.526917 GCCGCATGCCTCCTACATT 60.527 57.895 13.15 0.00 0.00 2.71
2622 3641 1.103398 GCCGCATGCCTCCTACATTT 61.103 55.000 13.15 0.00 0.00 2.32
2623 3642 1.392589 CCGCATGCCTCCTACATTTT 58.607 50.000 13.15 0.00 0.00 1.82
2624 3643 1.750778 CCGCATGCCTCCTACATTTTT 59.249 47.619 13.15 0.00 0.00 1.94
2647 3666 6.840780 TTCTTTTGAAAAGGAGGATGATCC 57.159 37.500 16.79 2.46 36.12 3.36
2648 3667 5.264395 TCTTTTGAAAAGGAGGATGATCCC 58.736 41.667 16.79 0.00 40.53 3.85
2649 3668 3.669939 TTGAAAAGGAGGATGATCCCC 57.330 47.619 8.08 9.26 40.53 4.81
2650 3669 2.863884 TGAAAAGGAGGATGATCCCCT 58.136 47.619 8.08 11.47 40.53 4.79
2651 3670 2.511218 TGAAAAGGAGGATGATCCCCTG 59.489 50.000 18.40 0.00 40.53 4.45
2652 3671 0.849417 AAAGGAGGATGATCCCCTGC 59.151 55.000 18.40 12.81 40.53 4.85
2653 3672 0.327867 AAGGAGGATGATCCCCTGCA 60.328 55.000 18.40 0.00 43.59 4.41
2654 3673 0.104037 AGGAGGATGATCCCCTGCAT 60.104 55.000 17.37 7.03 43.59 3.96
2655 3674 0.327591 GGAGGATGATCCCCTGCATC 59.672 60.000 8.08 0.00 41.19 3.91
2656 3675 1.062364 GAGGATGATCCCCTGCATCA 58.938 55.000 8.08 0.00 42.00 3.07
2657 3676 1.422781 GAGGATGATCCCCTGCATCAA 59.577 52.381 8.08 0.00 42.00 2.57
2658 3677 2.041350 GAGGATGATCCCCTGCATCAAT 59.959 50.000 8.08 0.00 42.00 2.57
2659 3678 2.449730 AGGATGATCCCCTGCATCAATT 59.550 45.455 8.08 0.00 42.00 2.32
2660 3679 2.561419 GGATGATCCCCTGCATCAATTG 59.439 50.000 0.00 0.00 42.00 2.32
2661 3680 2.076207 TGATCCCCTGCATCAATTGG 57.924 50.000 5.42 0.00 0.00 3.16
2662 3681 1.288633 TGATCCCCTGCATCAATTGGT 59.711 47.619 5.42 0.00 0.00 3.67
2663 3682 1.684983 GATCCCCTGCATCAATTGGTG 59.315 52.381 14.63 14.63 0.00 4.17
2664 3683 0.971959 TCCCCTGCATCAATTGGTGC 60.972 55.000 32.28 32.28 41.61 5.01
2668 3687 3.444751 TGCATCAATTGGTGCATGC 57.555 47.368 36.43 26.63 45.60 4.06
2669 3688 0.608640 TGCATCAATTGGTGCATGCA 59.391 45.000 36.43 28.57 45.60 3.96
2670 3689 1.286501 GCATCAATTGGTGCATGCAG 58.713 50.000 33.52 8.47 40.94 4.41
2671 3690 1.286501 CATCAATTGGTGCATGCAGC 58.713 50.000 36.58 36.58 43.90 5.25
2672 3691 0.177141 ATCAATTGGTGCATGCAGCC 59.823 50.000 38.63 30.85 44.83 4.85
2673 3692 1.186267 TCAATTGGTGCATGCAGCCA 61.186 50.000 38.63 32.66 44.83 4.75
2674 3693 0.107897 CAATTGGTGCATGCAGCCAT 60.108 50.000 38.63 32.26 44.83 4.40
2675 3694 1.137282 CAATTGGTGCATGCAGCCATA 59.863 47.619 38.63 26.73 44.83 2.74
2676 3695 1.487300 ATTGGTGCATGCAGCCATAA 58.513 45.000 38.63 28.83 44.83 1.90
2677 3696 1.264295 TTGGTGCATGCAGCCATAAA 58.736 45.000 38.63 26.49 44.83 1.40
2678 3697 1.264295 TGGTGCATGCAGCCATAAAA 58.736 45.000 38.63 21.67 44.83 1.52
2679 3698 1.622312 TGGTGCATGCAGCCATAAAAA 59.378 42.857 38.63 20.99 44.83 1.94
2702 3721 4.954092 AATTGCGAGAGAATTTCACTCC 57.046 40.909 15.41 10.22 31.63 3.85
2703 3722 2.386661 TGCGAGAGAATTTCACTCCC 57.613 50.000 15.41 9.16 31.63 4.30
2704 3723 1.066143 TGCGAGAGAATTTCACTCCCC 60.066 52.381 15.41 9.17 31.63 4.81
2705 3724 1.744114 GCGAGAGAATTTCACTCCCCC 60.744 57.143 15.41 4.09 31.63 5.40
2706 3725 1.471676 CGAGAGAATTTCACTCCCCCG 60.472 57.143 15.41 4.00 31.63 5.73
2707 3726 0.912486 AGAGAATTTCACTCCCCCGG 59.088 55.000 0.00 0.00 35.27 5.73
2708 3727 0.748367 GAGAATTTCACTCCCCCGGC 60.748 60.000 0.00 0.00 0.00 6.13
2709 3728 1.208165 AGAATTTCACTCCCCCGGCT 61.208 55.000 0.00 0.00 0.00 5.52
2710 3729 0.748367 GAATTTCACTCCCCCGGCTC 60.748 60.000 0.00 0.00 0.00 4.70
2711 3730 1.208165 AATTTCACTCCCCCGGCTCT 61.208 55.000 0.00 0.00 0.00 4.09
2712 3731 1.915078 ATTTCACTCCCCCGGCTCTG 61.915 60.000 0.00 0.00 0.00 3.35
2720 3739 4.335647 CCCGGCTCTGCACCAAGT 62.336 66.667 0.00 0.00 0.00 3.16
2721 3740 2.662596 CCGGCTCTGCACCAAGTA 59.337 61.111 0.00 0.00 0.00 2.24
2722 3741 1.221840 CCGGCTCTGCACCAAGTAT 59.778 57.895 0.00 0.00 0.00 2.12
2723 3742 0.811616 CCGGCTCTGCACCAAGTATC 60.812 60.000 0.00 0.00 0.00 2.24
2724 3743 0.108186 CGGCTCTGCACCAAGTATCA 60.108 55.000 0.00 0.00 0.00 2.15
2725 3744 1.661341 GGCTCTGCACCAAGTATCAG 58.339 55.000 0.00 0.00 0.00 2.90
2726 3745 1.661341 GCTCTGCACCAAGTATCAGG 58.339 55.000 0.00 0.00 0.00 3.86
2727 3746 1.208052 GCTCTGCACCAAGTATCAGGA 59.792 52.381 0.00 0.00 0.00 3.86
2728 3747 2.355108 GCTCTGCACCAAGTATCAGGAA 60.355 50.000 0.00 0.00 0.00 3.36
2729 3748 3.869912 GCTCTGCACCAAGTATCAGGAAA 60.870 47.826 0.00 0.00 0.00 3.13
2730 3749 3.937706 CTCTGCACCAAGTATCAGGAAAG 59.062 47.826 0.00 0.00 0.00 2.62
2731 3750 3.582647 TCTGCACCAAGTATCAGGAAAGA 59.417 43.478 0.00 0.00 0.00 2.52
2732 3751 3.674997 TGCACCAAGTATCAGGAAAGAC 58.325 45.455 0.00 0.00 0.00 3.01
2733 3752 3.327757 TGCACCAAGTATCAGGAAAGACT 59.672 43.478 0.00 0.00 0.00 3.24
2734 3753 3.686726 GCACCAAGTATCAGGAAAGACTG 59.313 47.826 0.00 0.00 39.84 3.51
2735 3754 4.256920 CACCAAGTATCAGGAAAGACTGG 58.743 47.826 0.00 0.00 38.98 4.00
2736 3755 3.910627 ACCAAGTATCAGGAAAGACTGGT 59.089 43.478 0.00 0.00 38.98 4.00
2737 3756 4.020128 ACCAAGTATCAGGAAAGACTGGTC 60.020 45.833 0.00 0.00 38.98 4.02
2738 3757 4.508662 CAAGTATCAGGAAAGACTGGTCC 58.491 47.826 0.00 0.00 38.98 4.46
2739 3758 4.067944 AGTATCAGGAAAGACTGGTCCT 57.932 45.455 2.65 2.65 45.51 3.85
2740 3759 4.027437 AGTATCAGGAAAGACTGGTCCTC 58.973 47.826 5.19 0.00 42.61 3.71
2741 3760 2.398754 TCAGGAAAGACTGGTCCTCA 57.601 50.000 5.19 0.00 42.61 3.86
2742 3761 2.689658 TCAGGAAAGACTGGTCCTCAA 58.310 47.619 5.19 0.00 42.61 3.02
2743 3762 2.634940 TCAGGAAAGACTGGTCCTCAAG 59.365 50.000 5.19 0.00 42.61 3.02
2744 3763 2.634940 CAGGAAAGACTGGTCCTCAAGA 59.365 50.000 5.19 0.00 42.61 3.02
2745 3764 3.071602 CAGGAAAGACTGGTCCTCAAGAA 59.928 47.826 5.19 0.00 42.61 2.52
2746 3765 3.913163 AGGAAAGACTGGTCCTCAAGAAT 59.087 43.478 2.65 0.00 40.38 2.40
2747 3766 5.046304 CAGGAAAGACTGGTCCTCAAGAATA 60.046 44.000 5.19 0.00 42.61 1.75
2748 3767 5.548056 AGGAAAGACTGGTCCTCAAGAATAA 59.452 40.000 2.65 0.00 40.38 1.40
2749 3768 6.044404 AGGAAAGACTGGTCCTCAAGAATAAA 59.956 38.462 2.65 0.00 40.38 1.40
2750 3769 6.887002 GGAAAGACTGGTCCTCAAGAATAAAT 59.113 38.462 0.00 0.00 0.00 1.40
2751 3770 8.047310 GGAAAGACTGGTCCTCAAGAATAAATA 58.953 37.037 0.00 0.00 0.00 1.40
2752 3771 9.449719 GAAAGACTGGTCCTCAAGAATAAATAA 57.550 33.333 0.00 0.00 0.00 1.40
2753 3772 9.454859 AAAGACTGGTCCTCAAGAATAAATAAG 57.545 33.333 0.00 0.00 0.00 1.73
2754 3773 8.380742 AGACTGGTCCTCAAGAATAAATAAGA 57.619 34.615 0.00 0.00 0.00 2.10
2755 3774 8.826765 AGACTGGTCCTCAAGAATAAATAAGAA 58.173 33.333 0.00 0.00 0.00 2.52
2756 3775 8.794335 ACTGGTCCTCAAGAATAAATAAGAAC 57.206 34.615 0.00 0.00 0.00 3.01
2757 3776 7.829706 ACTGGTCCTCAAGAATAAATAAGAACC 59.170 37.037 0.00 0.00 0.00 3.62
2758 3777 7.928873 TGGTCCTCAAGAATAAATAAGAACCT 58.071 34.615 0.00 0.00 0.00 3.50
2759 3778 9.053472 TGGTCCTCAAGAATAAATAAGAACCTA 57.947 33.333 0.00 0.00 0.00 3.08
2760 3779 9.549078 GGTCCTCAAGAATAAATAAGAACCTAG 57.451 37.037 0.00 0.00 0.00 3.02
2761 3780 9.549078 GTCCTCAAGAATAAATAAGAACCTAGG 57.451 37.037 7.41 7.41 0.00 3.02
2762 3781 9.280456 TCCTCAAGAATAAATAAGAACCTAGGT 57.720 33.333 9.21 9.21 0.00 3.08
2763 3782 9.331282 CCTCAAGAATAAATAAGAACCTAGGTG 57.669 37.037 17.14 0.00 0.00 4.00
2764 3783 9.892130 CTCAAGAATAAATAAGAACCTAGGTGT 57.108 33.333 17.14 6.72 0.00 4.16
2775 3794 9.802039 ATAAGAACCTAGGTGTTGATTTTTACA 57.198 29.630 17.14 0.00 0.00 2.41
2776 3795 8.706322 AAGAACCTAGGTGTTGATTTTTACAT 57.294 30.769 17.14 0.00 0.00 2.29
2777 3796 8.336801 AGAACCTAGGTGTTGATTTTTACATC 57.663 34.615 17.14 3.67 0.00 3.06
2778 3797 7.393515 AGAACCTAGGTGTTGATTTTTACATCC 59.606 37.037 17.14 0.00 0.00 3.51
2779 3798 6.548321 ACCTAGGTGTTGATTTTTACATCCA 58.452 36.000 15.42 0.00 0.00 3.41
2780 3799 6.433093 ACCTAGGTGTTGATTTTTACATCCAC 59.567 38.462 15.42 0.00 0.00 4.02
2781 3800 6.659242 CCTAGGTGTTGATTTTTACATCCACT 59.341 38.462 0.00 0.00 0.00 4.00
2782 3801 6.575162 AGGTGTTGATTTTTACATCCACTC 57.425 37.500 0.00 0.00 0.00 3.51
2783 3802 5.476945 AGGTGTTGATTTTTACATCCACTCC 59.523 40.000 0.00 0.00 34.72 3.85
2784 3803 5.336451 GGTGTTGATTTTTACATCCACTCCC 60.336 44.000 0.00 0.00 31.08 4.30
2785 3804 4.770010 TGTTGATTTTTACATCCACTCCCC 59.230 41.667 0.00 0.00 0.00 4.81
2786 3805 4.666412 TGATTTTTACATCCACTCCCCA 57.334 40.909 0.00 0.00 0.00 4.96
2787 3806 5.004361 TGATTTTTACATCCACTCCCCAA 57.996 39.130 0.00 0.00 0.00 4.12
2788 3807 4.770010 TGATTTTTACATCCACTCCCCAAC 59.230 41.667 0.00 0.00 0.00 3.77
2789 3808 2.891191 TTTACATCCACTCCCCAACC 57.109 50.000 0.00 0.00 0.00 3.77
2790 3809 1.748732 TTACATCCACTCCCCAACCA 58.251 50.000 0.00 0.00 0.00 3.67
2791 3810 1.285280 TACATCCACTCCCCAACCAG 58.715 55.000 0.00 0.00 0.00 4.00
2792 3811 0.772124 ACATCCACTCCCCAACCAGT 60.772 55.000 0.00 0.00 0.00 4.00
2793 3812 0.405585 CATCCACTCCCCAACCAGTT 59.594 55.000 0.00 0.00 0.00 3.16
2794 3813 0.405585 ATCCACTCCCCAACCAGTTG 59.594 55.000 3.47 3.47 40.13 3.16
2795 3814 0.696143 TCCACTCCCCAACCAGTTGA 60.696 55.000 12.06 0.00 42.93 3.18
2796 3815 0.250901 CCACTCCCCAACCAGTTGAG 60.251 60.000 12.06 4.39 42.93 3.02
2797 3816 0.890996 CACTCCCCAACCAGTTGAGC 60.891 60.000 12.06 0.00 42.93 4.26
2798 3817 1.062488 ACTCCCCAACCAGTTGAGCT 61.062 55.000 12.06 0.00 42.93 4.09
2799 3818 0.984230 CTCCCCAACCAGTTGAGCTA 59.016 55.000 12.06 0.00 42.93 3.32
2800 3819 0.984230 TCCCCAACCAGTTGAGCTAG 59.016 55.000 12.06 0.00 42.93 3.42
2801 3820 0.035056 CCCCAACCAGTTGAGCTAGG 60.035 60.000 12.06 4.24 42.93 3.02
2802 3821 0.678048 CCCAACCAGTTGAGCTAGGC 60.678 60.000 12.06 0.00 42.93 3.93
2803 3822 0.326264 CCAACCAGTTGAGCTAGGCT 59.674 55.000 12.06 0.00 42.93 4.58
2938 4227 4.439305 AATGTTATGTTTGTGCTGCGAT 57.561 36.364 0.00 0.00 0.00 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.696314 ATAGGTGGGTCGGGGCAAT 60.696 57.895 0.00 0.00 0.00 3.56
48 49 5.702065 TGTAGGCCTACCAAAATCATACA 57.298 39.130 34.76 15.62 39.06 2.29
64 65 1.564348 TCCTCCCCTTGATTTGTAGGC 59.436 52.381 0.00 0.00 0.00 3.93
77 78 1.954035 ACACTTTACTCCTCCTCCCC 58.046 55.000 0.00 0.00 0.00 4.81
112 114 0.748005 ACAGCACCAAGTCACACACC 60.748 55.000 0.00 0.00 0.00 4.16
141 143 4.634012 TGTAACACCCTGCAAAGTAGAT 57.366 40.909 0.00 0.00 0.00 1.98
148 150 4.285003 ACAGTAGTATGTAACACCCTGCAA 59.715 41.667 0.00 0.00 0.00 4.08
203 205 4.187694 TGTATAGCGTGTGATGCAATTGA 58.812 39.130 10.34 0.00 31.07 2.57
207 209 2.549926 CCTGTATAGCGTGTGATGCAA 58.450 47.619 0.00 0.00 31.07 4.08
212 214 1.475280 GACACCCTGTATAGCGTGTGA 59.525 52.381 13.86 0.00 43.90 3.58
282 284 3.888930 GGTCCTTTCCATTCACAACTTCA 59.111 43.478 0.00 0.00 0.00 3.02
303 305 0.107312 CTTCCCTGCCACTCAGATGG 60.107 60.000 0.00 0.00 45.72 3.51
422 427 6.884836 ACTGTTCTTAATTTAATTCGGAGCCT 59.115 34.615 0.00 0.00 0.00 4.58
443 451 9.715121 TTCGTTGGAATAAGATTAGTTAACTGT 57.285 29.630 18.56 6.71 0.00 3.55
511 528 5.872963 TGTAGAGACTAGGAGTGTAACACA 58.127 41.667 0.00 0.00 41.43 3.72
725 752 9.967346 TTTAGCGATGCTATTCCTATGTATATC 57.033 33.333 0.00 0.00 41.01 1.63
747 774 9.694520 CACGTTGATATTGACAGATTTCTTTAG 57.305 33.333 0.00 0.00 0.00 1.85
771 798 2.919229 GTTATGCTGAATGTGCTTGCAC 59.081 45.455 17.73 17.73 36.44 4.57
796 839 0.963225 TACTTAGCGTCTGGTGCACA 59.037 50.000 20.43 3.92 33.85 4.57
856 899 1.064314 AGAGATGGACTCCAGCGTAGT 60.064 52.381 7.69 0.00 45.56 2.73
913 956 7.816640 GTTTCTGCAAATGAAACTAGGTATCA 58.183 34.615 18.03 0.00 45.59 2.15
989 1032 3.065655 GAGATGGTCATATGTGCTCTGC 58.934 50.000 1.90 0.00 0.00 4.26
990 1033 4.332428 TGAGATGGTCATATGTGCTCTG 57.668 45.455 1.90 0.00 0.00 3.35
991 1034 5.363562 TTTGAGATGGTCATATGTGCTCT 57.636 39.130 1.90 1.59 34.17 4.09
992 1035 5.505324 GCTTTTGAGATGGTCATATGTGCTC 60.505 44.000 1.90 4.75 34.17 4.26
993 1036 4.337555 GCTTTTGAGATGGTCATATGTGCT 59.662 41.667 1.90 0.00 34.17 4.40
994 1037 4.337555 AGCTTTTGAGATGGTCATATGTGC 59.662 41.667 1.90 0.00 34.17 4.57
995 1038 6.446781 AAGCTTTTGAGATGGTCATATGTG 57.553 37.500 1.90 0.00 34.17 3.21
996 1039 6.660521 TCAAAGCTTTTGAGATGGTCATATGT 59.339 34.615 9.53 0.00 34.17 2.29
997 1040 7.092137 TCAAAGCTTTTGAGATGGTCATATG 57.908 36.000 9.53 0.00 34.17 1.78
998 1041 7.014038 GGATCAAAGCTTTTGAGATGGTCATAT 59.986 37.037 9.53 0.00 34.17 1.78
999 1042 6.319658 GGATCAAAGCTTTTGAGATGGTCATA 59.680 38.462 9.53 0.00 34.17 2.15
1000 1043 5.126707 GGATCAAAGCTTTTGAGATGGTCAT 59.873 40.000 9.53 0.00 34.17 3.06
1001 1044 4.460382 GGATCAAAGCTTTTGAGATGGTCA 59.540 41.667 9.53 0.00 0.00 4.02
1002 1045 4.704057 AGGATCAAAGCTTTTGAGATGGTC 59.296 41.667 9.53 3.50 0.00 4.02
1003 1046 4.670765 AGGATCAAAGCTTTTGAGATGGT 58.329 39.130 9.53 0.00 0.00 3.55
1103 1146 1.419012 CCATCCAGCTCTCATGCCTTA 59.581 52.381 0.00 0.00 0.00 2.69
1204 1247 4.569564 GCGGTTCTCGGTATTAAATGACTT 59.430 41.667 0.00 0.00 39.69 3.01
1284 1327 2.767644 ACCCCTTGTTAGCCTTTGTT 57.232 45.000 0.00 0.00 0.00 2.83
1344 1387 4.158579 AGTGCATCGAGACTTACATTCTCA 59.841 41.667 0.00 0.00 39.71 3.27
1578 1624 4.457257 AGTGAGATTAGCTTGCCAGTTTTC 59.543 41.667 0.00 0.00 0.00 2.29
1788 1834 3.010027 TGTTGGCTGGAACATCCTCATAA 59.990 43.478 0.00 0.00 46.24 1.90
1976 2022 6.767524 TCTTCAACAACCAATACTTTGTGT 57.232 33.333 0.00 0.00 36.08 3.72
2339 2398 3.633525 ACACACACATGAAAGCACAAGAT 59.366 39.130 0.00 0.00 0.00 2.40
2421 2648 4.141459 ACAGATCAGCTCCATCATTGTCAT 60.141 41.667 0.00 0.00 0.00 3.06
2425 2652 6.879276 ATTTACAGATCAGCTCCATCATTG 57.121 37.500 0.00 0.00 0.00 2.82
2453 2682 3.244582 TGTACCACCTCTAGGCTTCAAA 58.755 45.455 0.00 0.00 39.32 2.69
2463 2692 6.198639 ACATTCTTCTATCTGTACCACCTCT 58.801 40.000 0.00 0.00 0.00 3.69
2506 2735 8.531146 AGAAAATGGTCCGTCATAATTCATTTT 58.469 29.630 9.82 9.82 42.35 1.82
2529 2758 0.768622 ACAACGGTGATTGGGGAGAA 59.231 50.000 7.88 0.00 33.63 2.87
2552 2782 1.474498 GGTGTTGAGGGTTGAACGACT 60.474 52.381 0.00 0.00 0.00 4.18
2621 3640 8.150296 GGATCATCCTCCTTTTCAAAAGAAAAA 58.850 33.333 11.73 0.00 32.23 1.94
2622 3641 7.256296 GGGATCATCCTCCTTTTCAAAAGAAAA 60.256 37.037 11.73 3.79 36.57 2.29
2623 3642 6.211384 GGGATCATCCTCCTTTTCAAAAGAAA 59.789 38.462 11.73 0.00 36.57 2.52
2624 3643 5.716703 GGGATCATCCTCCTTTTCAAAAGAA 59.283 40.000 11.73 0.00 36.57 2.52
2625 3644 5.264395 GGGATCATCCTCCTTTTCAAAAGA 58.736 41.667 11.73 0.00 36.57 2.52
2626 3645 4.403752 GGGGATCATCCTCCTTTTCAAAAG 59.596 45.833 2.93 2.55 36.57 2.27
2627 3646 4.045846 AGGGGATCATCCTCCTTTTCAAAA 59.954 41.667 0.00 0.00 37.93 2.44
2628 3647 3.597868 AGGGGATCATCCTCCTTTTCAAA 59.402 43.478 0.00 0.00 37.93 2.69
2629 3648 3.053395 CAGGGGATCATCCTCCTTTTCAA 60.053 47.826 10.31 0.00 37.93 2.69
2630 3649 2.511218 CAGGGGATCATCCTCCTTTTCA 59.489 50.000 10.31 0.00 37.93 2.69
2631 3650 2.751143 GCAGGGGATCATCCTCCTTTTC 60.751 54.545 10.31 1.67 37.93 2.29
2632 3651 1.216427 GCAGGGGATCATCCTCCTTTT 59.784 52.381 10.31 0.00 37.93 2.27
2633 3652 0.849417 GCAGGGGATCATCCTCCTTT 59.151 55.000 10.31 0.00 37.93 3.11
2634 3653 0.327867 TGCAGGGGATCATCCTCCTT 60.328 55.000 10.31 0.00 37.93 3.36
2635 3654 0.104037 ATGCAGGGGATCATCCTCCT 60.104 55.000 0.00 3.76 37.93 3.69
2636 3655 0.327591 GATGCAGGGGATCATCCTCC 59.672 60.000 0.00 1.11 37.93 4.30
2637 3656 1.062364 TGATGCAGGGGATCATCCTC 58.938 55.000 2.93 0.00 37.26 3.71
2638 3657 1.526315 TTGATGCAGGGGATCATCCT 58.474 50.000 2.93 0.00 38.57 3.24
2639 3658 2.561419 CAATTGATGCAGGGGATCATCC 59.439 50.000 0.00 0.00 38.57 3.51
2640 3659 2.561419 CCAATTGATGCAGGGGATCATC 59.439 50.000 7.12 0.00 39.49 2.92
2641 3660 2.090943 ACCAATTGATGCAGGGGATCAT 60.091 45.455 7.12 0.00 29.96 2.45
2642 3661 1.288633 ACCAATTGATGCAGGGGATCA 59.711 47.619 7.12 0.00 0.00 2.92
2643 3662 1.684983 CACCAATTGATGCAGGGGATC 59.315 52.381 7.12 0.00 0.00 3.36
2644 3663 1.784358 CACCAATTGATGCAGGGGAT 58.216 50.000 7.12 0.00 0.00 3.85
2645 3664 0.971959 GCACCAATTGATGCAGGGGA 60.972 55.000 20.32 0.00 41.65 4.81
2646 3665 1.259142 TGCACCAATTGATGCAGGGG 61.259 55.000 23.90 0.00 46.63 4.79
2647 3666 2.278849 TGCACCAATTGATGCAGGG 58.721 52.632 23.90 0.00 46.63 4.45
2651 3670 1.286501 CTGCATGCACCAATTGATGC 58.713 50.000 18.46 18.46 42.40 3.91
2652 3671 1.286501 GCTGCATGCACCAATTGATG 58.713 50.000 18.46 0.00 42.31 3.07
2653 3672 0.177141 GGCTGCATGCACCAATTGAT 59.823 50.000 25.24 0.00 45.15 2.57
2654 3673 1.186267 TGGCTGCATGCACCAATTGA 61.186 50.000 28.52 13.13 45.15 2.57
2655 3674 0.107897 ATGGCTGCATGCACCAATTG 60.108 50.000 31.80 18.47 45.15 2.32
2656 3675 1.487300 TATGGCTGCATGCACCAATT 58.513 45.000 31.80 23.34 45.15 2.32
2657 3676 1.487300 TTATGGCTGCATGCACCAAT 58.513 45.000 31.80 22.01 45.15 3.16
2658 3677 1.264295 TTTATGGCTGCATGCACCAA 58.736 45.000 31.80 22.35 45.15 3.67
2659 3678 1.264295 TTTTATGGCTGCATGCACCA 58.736 45.000 30.91 30.91 45.15 4.17
2660 3679 2.383368 TTTTTATGGCTGCATGCACC 57.617 45.000 18.46 22.10 45.15 5.01
2678 3697 6.152379 GGAGTGAAATTCTCTCGCAATTTTT 58.848 36.000 15.97 0.00 37.75 1.94
2679 3698 5.335976 GGGAGTGAAATTCTCTCGCAATTTT 60.336 40.000 26.37 0.00 44.29 1.82
2680 3699 4.156739 GGGAGTGAAATTCTCTCGCAATTT 59.843 41.667 26.37 0.00 44.29 1.82
2681 3700 3.691609 GGGAGTGAAATTCTCTCGCAATT 59.308 43.478 26.37 0.00 44.29 2.32
2682 3701 3.274288 GGGAGTGAAATTCTCTCGCAAT 58.726 45.455 26.37 0.00 44.29 3.56
2683 3702 2.615493 GGGGAGTGAAATTCTCTCGCAA 60.615 50.000 29.65 0.00 45.67 4.85
2684 3703 1.066143 GGGGAGTGAAATTCTCTCGCA 60.066 52.381 29.65 0.00 45.67 5.10
2685 3704 1.657822 GGGGAGTGAAATTCTCTCGC 58.342 55.000 24.55 24.55 44.21 5.03
2686 3705 1.471676 CGGGGGAGTGAAATTCTCTCG 60.472 57.143 15.97 4.74 37.75 4.04
2687 3706 1.134371 CCGGGGGAGTGAAATTCTCTC 60.134 57.143 14.64 14.64 36.55 3.20
2688 3707 0.912486 CCGGGGGAGTGAAATTCTCT 59.088 55.000 0.00 0.00 33.06 3.10
2689 3708 0.748367 GCCGGGGGAGTGAAATTCTC 60.748 60.000 2.18 0.00 0.00 2.87
2690 3709 1.208165 AGCCGGGGGAGTGAAATTCT 61.208 55.000 2.18 0.00 0.00 2.40
2691 3710 0.748367 GAGCCGGGGGAGTGAAATTC 60.748 60.000 2.18 0.00 0.00 2.17
2692 3711 1.208165 AGAGCCGGGGGAGTGAAATT 61.208 55.000 2.18 0.00 0.00 1.82
2693 3712 1.616628 AGAGCCGGGGGAGTGAAAT 60.617 57.895 2.18 0.00 0.00 2.17
2694 3713 2.203938 AGAGCCGGGGGAGTGAAA 60.204 61.111 2.18 0.00 0.00 2.69
2695 3714 3.003173 CAGAGCCGGGGGAGTGAA 61.003 66.667 2.18 0.00 0.00 3.18
2703 3722 2.257409 ATACTTGGTGCAGAGCCGGG 62.257 60.000 2.18 0.00 0.00 5.73
2704 3723 0.811616 GATACTTGGTGCAGAGCCGG 60.812 60.000 0.00 0.00 0.00 6.13
2705 3724 0.108186 TGATACTTGGTGCAGAGCCG 60.108 55.000 0.00 0.00 0.00 5.52
2706 3725 1.661341 CTGATACTTGGTGCAGAGCC 58.339 55.000 0.00 0.00 0.00 4.70
2707 3726 1.208052 TCCTGATACTTGGTGCAGAGC 59.792 52.381 0.00 0.00 0.00 4.09
2708 3727 3.616956 TTCCTGATACTTGGTGCAGAG 57.383 47.619 0.00 0.00 0.00 3.35
2709 3728 3.582647 TCTTTCCTGATACTTGGTGCAGA 59.417 43.478 0.00 0.00 0.00 4.26
2710 3729 3.686726 GTCTTTCCTGATACTTGGTGCAG 59.313 47.826 0.00 0.00 0.00 4.41
2711 3730 3.327757 AGTCTTTCCTGATACTTGGTGCA 59.672 43.478 0.00 0.00 0.00 4.57
2712 3731 3.686726 CAGTCTTTCCTGATACTTGGTGC 59.313 47.826 0.00 0.00 34.23 5.01
2713 3732 4.256920 CCAGTCTTTCCTGATACTTGGTG 58.743 47.826 0.00 0.00 34.23 4.17
2714 3733 3.910627 ACCAGTCTTTCCTGATACTTGGT 59.089 43.478 0.00 0.00 34.23 3.67
2715 3734 4.508662 GACCAGTCTTTCCTGATACTTGG 58.491 47.826 0.00 0.00 34.23 3.61
2716 3735 4.223923 AGGACCAGTCTTTCCTGATACTTG 59.776 45.833 0.00 0.00 40.98 3.16
2717 3736 4.430441 AGGACCAGTCTTTCCTGATACTT 58.570 43.478 0.00 0.00 40.98 2.24
2718 3737 4.027437 GAGGACCAGTCTTTCCTGATACT 58.973 47.826 4.69 0.00 42.68 2.12
2719 3738 3.769844 TGAGGACCAGTCTTTCCTGATAC 59.230 47.826 4.69 0.00 42.68 2.24
2720 3739 4.061131 TGAGGACCAGTCTTTCCTGATA 57.939 45.455 4.69 0.00 42.68 2.15
2721 3740 2.907892 TGAGGACCAGTCTTTCCTGAT 58.092 47.619 4.69 0.00 42.68 2.90
2722 3741 2.398754 TGAGGACCAGTCTTTCCTGA 57.601 50.000 4.69 0.00 42.68 3.86
2723 3742 2.634940 TCTTGAGGACCAGTCTTTCCTG 59.365 50.000 4.69 0.00 42.68 3.86
2724 3743 2.977808 TCTTGAGGACCAGTCTTTCCT 58.022 47.619 0.00 0.00 45.49 3.36
2725 3744 3.771577 TTCTTGAGGACCAGTCTTTCC 57.228 47.619 0.00 0.00 0.00 3.13
2726 3745 7.929941 ATTTATTCTTGAGGACCAGTCTTTC 57.070 36.000 0.00 0.00 0.00 2.62
2727 3746 9.454859 CTTATTTATTCTTGAGGACCAGTCTTT 57.545 33.333 0.00 0.00 0.00 2.52
2728 3747 8.826765 TCTTATTTATTCTTGAGGACCAGTCTT 58.173 33.333 0.00 0.00 0.00 3.01
2729 3748 8.380742 TCTTATTTATTCTTGAGGACCAGTCT 57.619 34.615 0.00 0.00 0.00 3.24
2730 3749 8.884726 GTTCTTATTTATTCTTGAGGACCAGTC 58.115 37.037 0.00 0.00 0.00 3.51
2731 3750 7.829706 GGTTCTTATTTATTCTTGAGGACCAGT 59.170 37.037 0.00 0.00 33.77 4.00
2732 3751 8.049721 AGGTTCTTATTTATTCTTGAGGACCAG 58.950 37.037 0.00 0.00 35.62 4.00
2733 3752 7.928873 AGGTTCTTATTTATTCTTGAGGACCA 58.071 34.615 0.00 0.00 35.62 4.02
2734 3753 9.549078 CTAGGTTCTTATTTATTCTTGAGGACC 57.451 37.037 0.00 0.00 33.77 4.46
2735 3754 9.549078 CCTAGGTTCTTATTTATTCTTGAGGAC 57.451 37.037 0.00 0.00 0.00 3.85
2736 3755 9.280456 ACCTAGGTTCTTATTTATTCTTGAGGA 57.720 33.333 9.21 0.00 0.00 3.71
2737 3756 9.331282 CACCTAGGTTCTTATTTATTCTTGAGG 57.669 37.037 13.15 0.00 0.00 3.86
2738 3757 9.892130 ACACCTAGGTTCTTATTTATTCTTGAG 57.108 33.333 13.15 0.00 0.00 3.02
2749 3768 9.802039 TGTAAAAATCAACACCTAGGTTCTTAT 57.198 29.630 13.15 0.99 0.00 1.73
2750 3769 9.802039 ATGTAAAAATCAACACCTAGGTTCTTA 57.198 29.630 13.15 0.00 0.00 2.10
2751 3770 8.706322 ATGTAAAAATCAACACCTAGGTTCTT 57.294 30.769 13.15 3.50 0.00 2.52
2752 3771 7.393515 GGATGTAAAAATCAACACCTAGGTTCT 59.606 37.037 13.15 0.00 0.00 3.01
2753 3772 7.175990 TGGATGTAAAAATCAACACCTAGGTTC 59.824 37.037 13.15 1.55 0.00 3.62
2754 3773 7.007723 TGGATGTAAAAATCAACACCTAGGTT 58.992 34.615 13.15 0.78 0.00 3.50
2755 3774 6.433093 GTGGATGTAAAAATCAACACCTAGGT 59.567 38.462 9.21 9.21 31.70 3.08
2756 3775 6.659242 AGTGGATGTAAAAATCAACACCTAGG 59.341 38.462 7.41 7.41 33.53 3.02
2757 3776 7.148239 GGAGTGGATGTAAAAATCAACACCTAG 60.148 40.741 2.08 0.00 37.91 3.02
2758 3777 6.657541 GGAGTGGATGTAAAAATCAACACCTA 59.342 38.462 2.08 0.00 37.91 3.08
2759 3778 5.476945 GGAGTGGATGTAAAAATCAACACCT 59.523 40.000 2.08 0.00 37.91 4.00
2760 3779 5.336451 GGGAGTGGATGTAAAAATCAACACC 60.336 44.000 0.89 0.89 39.35 4.16
2761 3780 5.336451 GGGGAGTGGATGTAAAAATCAACAC 60.336 44.000 0.00 0.00 33.53 3.32
2762 3781 4.770010 GGGGAGTGGATGTAAAAATCAACA 59.230 41.667 0.00 0.00 33.53 3.33
2763 3782 4.770010 TGGGGAGTGGATGTAAAAATCAAC 59.230 41.667 0.00 0.00 31.53 3.18
2764 3783 5.004361 TGGGGAGTGGATGTAAAAATCAA 57.996 39.130 0.00 0.00 0.00 2.57
2765 3784 4.666412 TGGGGAGTGGATGTAAAAATCA 57.334 40.909 0.00 0.00 0.00 2.57
2766 3785 4.159693 GGTTGGGGAGTGGATGTAAAAATC 59.840 45.833 0.00 0.00 0.00 2.17
2767 3786 4.093743 GGTTGGGGAGTGGATGTAAAAAT 58.906 43.478 0.00 0.00 0.00 1.82
2768 3787 3.117093 TGGTTGGGGAGTGGATGTAAAAA 60.117 43.478 0.00 0.00 0.00 1.94
2769 3788 2.447429 TGGTTGGGGAGTGGATGTAAAA 59.553 45.455 0.00 0.00 0.00 1.52
2770 3789 2.041081 CTGGTTGGGGAGTGGATGTAAA 59.959 50.000 0.00 0.00 0.00 2.01
2771 3790 1.633432 CTGGTTGGGGAGTGGATGTAA 59.367 52.381 0.00 0.00 0.00 2.41
2772 3791 1.285280 CTGGTTGGGGAGTGGATGTA 58.715 55.000 0.00 0.00 0.00 2.29
2773 3792 0.772124 ACTGGTTGGGGAGTGGATGT 60.772 55.000 0.00 0.00 0.00 3.06
2774 3793 0.405585 AACTGGTTGGGGAGTGGATG 59.594 55.000 0.00 0.00 0.00 3.51
2775 3794 0.405585 CAACTGGTTGGGGAGTGGAT 59.594 55.000 5.64 0.00 36.95 3.41
2776 3795 0.696143 TCAACTGGTTGGGGAGTGGA 60.696 55.000 12.65 0.00 40.78 4.02
2777 3796 0.250901 CTCAACTGGTTGGGGAGTGG 60.251 60.000 12.65 0.00 40.78 4.00
2778 3797 0.890996 GCTCAACTGGTTGGGGAGTG 60.891 60.000 14.16 1.23 41.25 3.51
2779 3798 1.062488 AGCTCAACTGGTTGGGGAGT 61.062 55.000 14.16 0.00 41.25 3.85
2780 3799 0.984230 TAGCTCAACTGGTTGGGGAG 59.016 55.000 14.16 6.02 41.25 4.30
2781 3800 0.984230 CTAGCTCAACTGGTTGGGGA 59.016 55.000 14.16 0.00 41.25 4.81
2782 3801 0.035056 CCTAGCTCAACTGGTTGGGG 60.035 60.000 14.16 8.58 41.25 4.96
2783 3802 0.678048 GCCTAGCTCAACTGGTTGGG 60.678 60.000 12.65 10.80 43.71 4.12
2784 3803 0.326264 AGCCTAGCTCAACTGGTTGG 59.674 55.000 12.65 5.82 40.78 3.77
2785 3804 3.944476 AGCCTAGCTCAACTGGTTG 57.056 52.632 7.10 7.10 41.71 3.77
2795 3814 0.326048 ATGTGGGAGTGAGCCTAGCT 60.326 55.000 0.00 0.00 43.88 3.32
2796 3815 0.179062 CATGTGGGAGTGAGCCTAGC 60.179 60.000 0.00 0.00 0.00 3.42
2797 3816 1.198713 ACATGTGGGAGTGAGCCTAG 58.801 55.000 0.00 0.00 0.00 3.02
2798 3817 2.108168 GTACATGTGGGAGTGAGCCTA 58.892 52.381 9.11 0.00 0.00 3.93
2799 3818 0.905357 GTACATGTGGGAGTGAGCCT 59.095 55.000 9.11 0.00 0.00 4.58
2800 3819 0.905357 AGTACATGTGGGAGTGAGCC 59.095 55.000 9.11 0.00 0.00 4.70
2801 3820 3.887621 TTAGTACATGTGGGAGTGAGC 57.112 47.619 9.11 0.00 0.00 4.26
2802 3821 7.687941 AAATTTTAGTACATGTGGGAGTGAG 57.312 36.000 9.11 0.00 0.00 3.51
2803 3822 9.747898 AATAAATTTTAGTACATGTGGGAGTGA 57.252 29.630 9.11 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.