Multiple sequence alignment - TraesCS6B01G181000

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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 TraesCS6B01G181000 chr6B 100.000 3857 0 0 519 4375 202352328 202348472 0.000000e+00 7123.0
1 TraesCS6B01G181000 chr6B 98.221 281 5 0 4095 4375 246988418 246988698 3.930000e-135 492.0
2 TraesCS6B01G181000 chr6B 93.993 283 13 4 4096 4375 511571749 511571468 4.040000e-115 425.0
3 TraesCS6B01G181000 chr6B 100.000 224 0 0 1 224 202352846 202352623 8.750000e-112 414.0
4 TraesCS6B01G181000 chr6B 92.958 284 19 1 4092 4375 619530882 619531164 3.150000e-111 412.0
5 TraesCS6B01G181000 chr6B 84.277 159 19 3 519 676 171037666 171037513 2.730000e-32 150.0
6 TraesCS6B01G181000 chr6B 92.647 68 5 0 1 68 636392802 636392735 1.000000e-16 99.0
7 TraesCS6B01G181000 chr6B 96.875 32 1 0 3299 3330 202349512 202349481 2.000000e-03 54.7
8 TraesCS6B01G181000 chr6B 96.875 32 1 0 3335 3366 202349548 202349517 2.000000e-03 54.7
9 TraesCS6B01G181000 chr6A 96.409 2534 75 11 845 3366 140608132 140605603 0.000000e+00 4161.0
10 TraesCS6B01G181000 chr6A 93.811 824 26 10 3299 4098 140605634 140604812 0.000000e+00 1216.0
11 TraesCS6B01G181000 chr6A 99.474 190 1 0 1 190 146494267 146494456 3.240000e-91 346.0
12 TraesCS6B01G181000 chr6A 96.795 156 3 2 519 672 146494971 146495126 4.340000e-65 259.0
13 TraesCS6B01G181000 chr6A 81.212 165 12 9 701 848 140608566 140608404 9.940000e-22 115.0
14 TraesCS6B01G181000 chr6A 91.176 68 6 0 1 68 564882808 564882741 4.660000e-15 93.5
15 TraesCS6B01G181000 chr6A 96.875 32 1 0 3299 3330 140605598 140605567 2.000000e-03 54.7
16 TraesCS6B01G181000 chr6A 96.875 32 1 0 3335 3366 140605670 140605639 2.000000e-03 54.7
17 TraesCS6B01G181000 chr6D 95.298 2616 76 11 768 3366 112942531 112939946 0.000000e+00 4106.0
18 TraesCS6B01G181000 chr6D 94.354 797 23 3 3299 4073 112939977 112939181 0.000000e+00 1203.0
19 TraesCS6B01G181000 chr6D 96.875 32 1 0 3299 3330 112939941 112939910 2.000000e-03 54.7
20 TraesCS6B01G181000 chr1A 94.982 279 13 1 4098 4375 212015818 212016096 1.870000e-118 436.0
21 TraesCS6B01G181000 chr1A 95.429 175 8 0 50 224 565149644 565149470 3.330000e-71 279.0
22 TraesCS6B01G181000 chr5B 94.014 284 17 0 4092 4375 496093523 496093806 8.690000e-117 431.0
23 TraesCS6B01G181000 chr5B 94.944 178 9 0 47 224 262568320 262568497 3.330000e-71 279.0
24 TraesCS6B01G181000 chr4A 94.909 275 13 1 4102 4375 65426320 65426594 3.130000e-116 429.0
25 TraesCS6B01G181000 chr1B 93.929 280 16 1 4096 4375 678849285 678849563 5.230000e-114 422.0
26 TraesCS6B01G181000 chr7B 93.594 281 18 0 4095 4375 382275378 382275658 1.880000e-113 420.0
27 TraesCS6B01G181000 chr7B 92.000 125 9 1 546 669 747327797 747327921 1.620000e-39 174.0
28 TraesCS6B01G181000 chr7B 91.379 58 4 1 649 705 745197579 745197522 1.300000e-10 78.7
29 TraesCS6B01G181000 chr7A 93.286 283 19 0 4093 4375 4442375 4442093 6.770000e-113 418.0
30 TraesCS6B01G181000 chr7A 86.207 145 16 3 519 663 57808331 57808191 2.110000e-33 154.0
31 TraesCS6B01G181000 chr1D 95.312 192 9 0 1 192 428617702 428617893 5.500000e-79 305.0
32 TraesCS6B01G181000 chr1D 94.022 184 11 0 1 184 414710905 414710722 3.330000e-71 279.0
33 TraesCS6B01G181000 chr1D 88.079 151 14 3 519 669 428618275 428618421 4.500000e-40 176.0
34 TraesCS6B01G181000 chr1D 91.837 49 3 1 658 705 123114609 123114657 2.820000e-07 67.6
35 TraesCS6B01G181000 chr5A 90.179 224 18 1 1 224 137045218 137045437 5.540000e-74 289.0
36 TraesCS6B01G181000 chr2B 96.000 175 7 0 50 224 53460499 53460325 7.160000e-73 285.0
37 TraesCS6B01G181000 chr2B 95.918 49 2 0 656 704 8687706 8687754 3.630000e-11 80.5
38 TraesCS6B01G181000 chr2B 97.500 40 1 0 666 705 149028747 149028708 7.850000e-08 69.4
39 TraesCS6B01G181000 chr3B 95.429 175 8 0 50 224 735973630 735973456 3.330000e-71 279.0
40 TraesCS6B01G181000 chr3B 84.868 152 17 3 519 669 804139067 804139213 9.800000e-32 148.0
41 TraesCS6B01G181000 chr7D 94.413 179 10 0 1 179 69449957 69450135 4.310000e-70 276.0
42 TraesCS6B01G181000 chr7D 94.000 50 3 0 656 705 125836433 125836384 4.690000e-10 76.8
43 TraesCS6B01G181000 chr3D 88.489 139 15 1 545 682 578902862 578902724 2.710000e-37 167.0
44 TraesCS6B01G181000 chr3D 86.755 151 16 3 519 669 572506851 572506997 9.730000e-37 165.0
45 TraesCS6B01G181000 chr2A 84.713 157 18 5 519 673 12301215 12301367 7.580000e-33 152.0
46 TraesCS6B01G181000 chr5D 100.000 40 0 0 668 707 408663565 408663526 1.690000e-09 75.0
47 TraesCS6B01G181000 chr3A 92.308 52 4 0 655 706 110030168 110030219 1.690000e-09 75.0
48 TraesCS6B01G181000 chr3A 97.500 40 0 1 668 706 749866371 749866410 2.820000e-07 67.6


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 TraesCS6B01G181000 chr6B 202348472 202352846 4374 True 1911.60 7123 98.4375 1 4375 4 chr6B.!!$R4 4374
1 TraesCS6B01G181000 chr6A 140604812 140608566 3754 True 1120.28 4161 93.0364 701 4098 5 chr6A.!!$R2 3397
2 TraesCS6B01G181000 chr6A 146494267 146495126 859 False 302.50 346 98.1345 1 672 2 chr6A.!!$F1 671
3 TraesCS6B01G181000 chr6D 112939181 112942531 3350 True 1787.90 4106 95.5090 768 4073 3 chr6D.!!$R1 3305
4 TraesCS6B01G181000 chr1D 428617702 428618421 719 False 240.50 305 91.6955 1 669 2 chr1D.!!$F2 668

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
815 1020 0.819259 AGAGTTTTGCTTGCTGGCGA 60.819 50.000 0.00 0.0 34.52 5.54 F
1462 1946 0.953960 GCACCGACGACTTCCCAATT 60.954 55.000 0.00 0.0 0.00 2.32 F
1769 2261 1.767681 TCCCAAGGCACTGCAAATTTT 59.232 42.857 2.82 0.0 40.86 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2343 2837 1.331214 CACCACCAATGCAAAGGACT 58.669 50.000 14.09 0.0 0.00 3.85 R
3056 3551 1.689984 TCACTTCAGCATGGCAAACA 58.310 45.000 0.00 0.0 36.16 2.83 R
3766 4316 2.277591 TTCCACCCGGTAGTCCACG 61.278 63.158 0.00 0.0 0.00 4.94 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
41 42 1.303970 GAAGCTTTGCAGGGAGGCT 60.304 57.895 0.00 0.00 34.52 4.58
199 200 3.532155 CCGCGGGAAGGAGGAGAG 61.532 72.222 20.10 0.00 0.00 3.20
200 201 3.532155 CGCGGGAAGGAGGAGAGG 61.532 72.222 0.00 0.00 0.00 3.69
201 202 2.042843 GCGGGAAGGAGGAGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
202 203 2.131067 GCGGGAAGGAGGAGAGGAG 61.131 68.421 0.00 0.00 0.00 3.69
203 204 2.131067 CGGGAAGGAGGAGAGGAGC 61.131 68.421 0.00 0.00 0.00 4.70
204 205 2.131067 GGGAAGGAGGAGAGGAGCG 61.131 68.421 0.00 0.00 0.00 5.03
205 206 2.791868 GGAAGGAGGAGAGGAGCGC 61.792 68.421 0.00 0.00 0.00 5.92
206 207 3.132481 GAAGGAGGAGAGGAGCGCG 62.132 68.421 0.00 0.00 0.00 6.86
584 772 1.338769 GCGGAGAAGAAAGTAAGGGCA 60.339 52.381 0.00 0.00 0.00 5.36
627 815 0.899720 TAGATGGAGGGCGTTTTCGT 59.100 50.000 0.00 0.00 46.03 3.85
671 859 2.965671 TCCGAACGGAGGGAGTATAT 57.034 50.000 12.04 0.00 39.76 0.86
672 860 2.511659 TCCGAACGGAGGGAGTATATG 58.488 52.381 12.04 0.00 39.76 1.78
673 861 2.107031 TCCGAACGGAGGGAGTATATGA 59.893 50.000 12.04 0.00 39.76 2.15
674 862 3.090037 CCGAACGGAGGGAGTATATGAT 58.910 50.000 7.53 0.00 37.50 2.45
675 863 4.019051 TCCGAACGGAGGGAGTATATGATA 60.019 45.833 12.04 0.00 39.76 2.15
676 864 4.888239 CCGAACGGAGGGAGTATATGATAT 59.112 45.833 7.53 0.00 37.50 1.63
677 865 5.221067 CCGAACGGAGGGAGTATATGATATG 60.221 48.000 7.53 0.00 37.50 1.78
678 866 5.593010 GAACGGAGGGAGTATATGATATGC 58.407 45.833 0.00 0.00 0.00 3.14
679 867 4.610333 ACGGAGGGAGTATATGATATGCA 58.390 43.478 3.44 0.00 0.00 3.96
680 868 4.402793 ACGGAGGGAGTATATGATATGCAC 59.597 45.833 3.44 0.00 0.00 4.57
681 869 4.402474 CGGAGGGAGTATATGATATGCACA 59.598 45.833 3.44 0.00 0.00 4.57
682 870 5.665459 GGAGGGAGTATATGATATGCACAC 58.335 45.833 3.44 0.00 0.00 3.82
683 871 5.423610 GGAGGGAGTATATGATATGCACACT 59.576 44.000 2.74 2.74 0.00 3.55
684 872 6.406400 GGAGGGAGTATATGATATGCACACTC 60.406 46.154 17.31 17.31 0.00 3.51
685 873 6.019108 AGGGAGTATATGATATGCACACTCA 58.981 40.000 12.59 0.00 34.09 3.41
686 874 6.671340 AGGGAGTATATGATATGCACACTCAT 59.329 38.462 12.59 11.06 34.09 2.90
687 875 6.760298 GGGAGTATATGATATGCACACTCATG 59.240 42.308 14.55 0.00 34.09 3.07
688 876 6.257411 GGAGTATATGATATGCACACTCATGC 59.743 42.308 14.55 0.00 46.32 4.06
698 886 4.888038 GCACACTCATGCATATTTGAGA 57.112 40.909 19.36 2.35 45.39 3.27
699 887 5.239359 GCACACTCATGCATATTTGAGAA 57.761 39.130 19.36 0.00 45.39 2.87
700 888 5.643664 GCACACTCATGCATATTTGAGAAA 58.356 37.500 19.36 0.00 45.39 2.52
701 889 6.094719 GCACACTCATGCATATTTGAGAAAA 58.905 36.000 19.36 0.00 45.39 2.29
702 890 6.587226 GCACACTCATGCATATTTGAGAAAAA 59.413 34.615 19.36 0.00 45.39 1.94
733 921 5.765182 ACCTAACCTGACAAAGATTGACAAG 59.235 40.000 0.00 0.00 35.11 3.16
746 937 4.777896 AGATTGACAAGTAGGGAGTAGCAA 59.222 41.667 0.00 0.00 0.00 3.91
759 950 3.068873 GGAGTAGCAAGATTGGACGAGAT 59.931 47.826 0.00 0.00 0.00 2.75
766 957 4.816385 GCAAGATTGGACGAGATTGGATTA 59.184 41.667 0.00 0.00 0.00 1.75
805 996 4.511454 GTGGGGATTTGAAAAGAGTTTTGC 59.489 41.667 0.00 0.00 31.94 3.68
807 998 5.104569 TGGGGATTTGAAAAGAGTTTTGCTT 60.105 36.000 0.00 0.00 31.94 3.91
808 999 5.237127 GGGGATTTGAAAAGAGTTTTGCTTG 59.763 40.000 0.00 0.00 31.94 4.01
809 1000 5.277490 GGGATTTGAAAAGAGTTTTGCTTGC 60.277 40.000 0.00 0.00 31.94 4.01
815 1020 0.819259 AGAGTTTTGCTTGCTGGCGA 60.819 50.000 0.00 0.00 34.52 5.54
981 1462 1.227380 CTCCATCGCTTCTTCCCCG 60.227 63.158 0.00 0.00 0.00 5.73
982 1463 1.676678 CTCCATCGCTTCTTCCCCGA 61.677 60.000 0.00 0.00 35.29 5.14
1192 1673 7.992008 TGTCGATTCTAATATATACCATCGCA 58.008 34.615 9.84 8.90 33.66 5.10
1194 1675 8.129840 GTCGATTCTAATATATACCATCGCAGT 58.870 37.037 9.84 0.00 33.66 4.40
1330 1811 4.426313 CCTTCAACCGCCTCCCCC 62.426 72.222 0.00 0.00 0.00 5.40
1424 1908 2.025156 CCGCGGAATGCATCTTGC 59.975 61.111 24.07 3.11 46.97 4.01
1441 1925 2.494445 CACTGTATCGGCGCCTCA 59.506 61.111 26.68 16.37 0.00 3.86
1460 1944 2.029964 GCACCGACGACTTCCCAA 59.970 61.111 0.00 0.00 0.00 4.12
1461 1945 1.375523 GCACCGACGACTTCCCAAT 60.376 57.895 0.00 0.00 0.00 3.16
1462 1946 0.953960 GCACCGACGACTTCCCAATT 60.954 55.000 0.00 0.00 0.00 2.32
1604 2088 2.543012 GACATCTGCATTGTCGATGAGG 59.457 50.000 17.09 0.00 38.03 3.86
1646 2130 6.857964 CCAAGGTGCGTTATTATTGATTGATC 59.142 38.462 0.00 0.00 0.00 2.92
1769 2261 1.767681 TCCCAAGGCACTGCAAATTTT 59.232 42.857 2.82 0.00 40.86 1.82
1782 2274 6.018832 CACTGCAAATTTTTGTCTTGGTTAGG 60.019 38.462 5.05 0.00 40.24 2.69
1786 2278 7.065204 TGCAAATTTTTGTCTTGGTTAGGTTTC 59.935 33.333 5.05 0.00 40.24 2.78
2072 2564 7.555965 TGACATATATCTACAAATCGATGGGG 58.444 38.462 0.00 0.00 0.00 4.96
2343 2837 3.551496 CTTCAAGCTCCCACGCCCA 62.551 63.158 0.00 0.00 0.00 5.36
2758 3253 9.000486 GTAGTAAAGTTTGCTCAATTTAGGTCT 58.000 33.333 9.67 0.00 0.00 3.85
2800 3295 4.141111 TCCTTTTAGGTTTACAAGGCCTGT 60.141 41.667 5.69 9.73 36.89 4.00
2960 3455 4.518970 GGTAGTGAAATTGCTGGTCAAAGA 59.481 41.667 0.00 0.00 38.34 2.52
2965 3460 2.226962 ATTGCTGGTCAAAGATGGCT 57.773 45.000 0.00 0.00 38.34 4.75
2979 3474 4.558538 AGATGGCTTCAAAATGCGTATC 57.441 40.909 3.03 0.00 0.00 2.24
3056 3551 4.098914 TCTCCCTTTTGCATGTAACAGT 57.901 40.909 8.59 0.00 0.00 3.55
3521 4052 0.994995 CCTGATCGAGACAAGTTGCG 59.005 55.000 1.81 0.00 0.00 4.85
3553 4084 1.607628 CAACTCTGCTCAAGCTTGCTT 59.392 47.619 21.99 1.55 42.66 3.91
3640 4171 1.330521 CGTTTGCGGATGGATTACTGG 59.669 52.381 0.00 0.00 0.00 4.00
3854 4404 4.701765 GAGTCATTATGCCATCAGTCACT 58.298 43.478 0.00 0.00 0.00 3.41
3952 4502 0.317770 CGTTGCATGTCCACAACCAC 60.318 55.000 7.93 0.00 42.51 4.16
4098 4654 4.889832 GGAAGTGCTCCATCACATTTAG 57.110 45.455 0.00 0.00 44.67 1.85
4099 4655 3.629398 GGAAGTGCTCCATCACATTTAGG 59.371 47.826 0.00 0.00 44.67 2.69
4100 4656 3.287867 AGTGCTCCATCACATTTAGGG 57.712 47.619 0.00 0.00 39.35 3.53
4101 4657 1.678101 GTGCTCCATCACATTTAGGGC 59.322 52.381 0.00 0.00 36.97 5.19
4102 4658 1.565759 TGCTCCATCACATTTAGGGCT 59.434 47.619 0.00 0.00 0.00 5.19
4103 4659 2.225467 GCTCCATCACATTTAGGGCTC 58.775 52.381 0.00 0.00 0.00 4.70
4104 4660 2.856222 CTCCATCACATTTAGGGCTCC 58.144 52.381 0.00 0.00 0.00 4.70
4105 4661 2.441001 CTCCATCACATTTAGGGCTCCT 59.559 50.000 0.00 0.00 37.71 3.69
4106 4662 2.852449 TCCATCACATTTAGGGCTCCTT 59.148 45.455 0.00 0.00 34.61 3.36
4107 4663 3.269381 TCCATCACATTTAGGGCTCCTTT 59.731 43.478 0.00 0.00 34.61 3.11
4108 4664 3.382546 CCATCACATTTAGGGCTCCTTTG 59.617 47.826 0.00 0.00 34.61 2.77
4109 4665 4.272489 CATCACATTTAGGGCTCCTTTGA 58.728 43.478 0.00 0.00 34.61 2.69
4110 4666 4.591321 TCACATTTAGGGCTCCTTTGAT 57.409 40.909 0.00 0.00 34.61 2.57
4111 4667 4.934356 TCACATTTAGGGCTCCTTTGATT 58.066 39.130 0.00 0.00 34.61 2.57
4112 4668 4.949856 TCACATTTAGGGCTCCTTTGATTC 59.050 41.667 0.00 0.00 34.61 2.52
4113 4669 4.706476 CACATTTAGGGCTCCTTTGATTCA 59.294 41.667 0.00 0.00 34.61 2.57
4114 4670 5.185635 CACATTTAGGGCTCCTTTGATTCAA 59.814 40.000 0.00 0.00 34.61 2.69
4115 4671 5.779771 ACATTTAGGGCTCCTTTGATTCAAA 59.220 36.000 11.19 11.19 34.61 2.69
4127 4683 4.782019 TTGATTCAAAGGAATTCCGTGG 57.218 40.909 23.30 17.24 43.69 4.94
4128 4684 3.088532 TGATTCAAAGGAATTCCGTGGG 58.911 45.455 23.30 15.32 43.69 4.61
4129 4685 2.961531 TTCAAAGGAATTCCGTGGGA 57.038 45.000 23.30 16.95 42.08 4.37
4130 4686 3.449746 TTCAAAGGAATTCCGTGGGAT 57.550 42.857 23.30 4.36 42.08 3.85
4131 4687 3.449746 TCAAAGGAATTCCGTGGGATT 57.550 42.857 23.30 9.32 42.08 3.01
4132 4688 3.773560 TCAAAGGAATTCCGTGGGATTT 58.226 40.909 23.30 13.87 42.08 2.17
4133 4689 4.156477 TCAAAGGAATTCCGTGGGATTTT 58.844 39.130 23.30 13.29 42.08 1.82
4134 4690 4.591072 TCAAAGGAATTCCGTGGGATTTTT 59.409 37.500 23.30 12.70 42.08 1.94
4135 4691 4.535526 AAGGAATTCCGTGGGATTTTTG 57.464 40.909 18.82 0.00 42.08 2.44
4136 4692 2.831526 AGGAATTCCGTGGGATTTTTGG 59.168 45.455 18.82 0.00 42.08 3.28
4137 4693 2.829120 GGAATTCCGTGGGATTTTTGGA 59.171 45.455 9.17 0.00 0.00 3.53
4138 4694 3.119137 GGAATTCCGTGGGATTTTTGGAG 60.119 47.826 9.17 0.00 0.00 3.86
4139 4695 1.917872 TTCCGTGGGATTTTTGGAGG 58.082 50.000 0.00 0.00 0.00 4.30
4140 4696 0.039035 TCCGTGGGATTTTTGGAGGG 59.961 55.000 0.00 0.00 0.00 4.30
4141 4697 0.251608 CCGTGGGATTTTTGGAGGGT 60.252 55.000 0.00 0.00 0.00 4.34
4142 4698 1.627864 CGTGGGATTTTTGGAGGGTT 58.372 50.000 0.00 0.00 0.00 4.11
4143 4699 2.555670 CCGTGGGATTTTTGGAGGGTTA 60.556 50.000 0.00 0.00 0.00 2.85
4144 4700 2.752903 CGTGGGATTTTTGGAGGGTTAG 59.247 50.000 0.00 0.00 0.00 2.34
4145 4701 3.560453 CGTGGGATTTTTGGAGGGTTAGA 60.560 47.826 0.00 0.00 0.00 2.10
4146 4702 4.412843 GTGGGATTTTTGGAGGGTTAGAA 58.587 43.478 0.00 0.00 0.00 2.10
4147 4703 5.023452 GTGGGATTTTTGGAGGGTTAGAAT 58.977 41.667 0.00 0.00 0.00 2.40
4148 4704 5.127194 GTGGGATTTTTGGAGGGTTAGAATC 59.873 44.000 0.00 0.00 0.00 2.52
4149 4705 4.649674 GGGATTTTTGGAGGGTTAGAATCC 59.350 45.833 0.00 0.00 40.01 3.01
4150 4706 4.649674 GGATTTTTGGAGGGTTAGAATCCC 59.350 45.833 0.00 0.00 44.90 3.85
4159 4715 4.875578 GGGTTAGAATCCCTAGGGTTTT 57.124 45.455 27.58 20.98 41.58 2.43
4160 4716 5.202746 GGGTTAGAATCCCTAGGGTTTTT 57.797 43.478 27.58 21.40 41.58 1.94
4182 4738 8.568732 TTTTTCCTATGTTTGTCGTTTGATTC 57.431 30.769 0.00 0.00 0.00 2.52
4183 4739 6.869315 TTCCTATGTTTGTCGTTTGATTCA 57.131 33.333 0.00 0.00 0.00 2.57
4184 4740 6.236017 TCCTATGTTTGTCGTTTGATTCAC 57.764 37.500 0.00 0.00 0.00 3.18
4185 4741 5.760743 TCCTATGTTTGTCGTTTGATTCACA 59.239 36.000 0.00 0.00 0.00 3.58
4186 4742 6.073276 TCCTATGTTTGTCGTTTGATTCACAG 60.073 38.462 0.00 0.00 0.00 3.66
4187 4743 4.285807 TGTTTGTCGTTTGATTCACAGG 57.714 40.909 0.00 0.00 0.00 4.00
4188 4744 3.942115 TGTTTGTCGTTTGATTCACAGGA 59.058 39.130 0.00 0.00 0.00 3.86
4189 4745 4.578516 TGTTTGTCGTTTGATTCACAGGAT 59.421 37.500 0.00 0.00 0.00 3.24
4190 4746 5.067153 TGTTTGTCGTTTGATTCACAGGATT 59.933 36.000 0.00 0.00 0.00 3.01
4191 4747 4.747540 TGTCGTTTGATTCACAGGATTG 57.252 40.909 0.00 0.00 0.00 2.67
4192 4748 4.384940 TGTCGTTTGATTCACAGGATTGA 58.615 39.130 0.00 0.00 0.00 2.57
4193 4749 4.452114 TGTCGTTTGATTCACAGGATTGAG 59.548 41.667 0.00 0.00 0.00 3.02
4194 4750 4.452455 GTCGTTTGATTCACAGGATTGAGT 59.548 41.667 0.00 0.00 0.00 3.41
4195 4751 4.690748 TCGTTTGATTCACAGGATTGAGTC 59.309 41.667 0.00 0.00 33.85 3.36
4231 4787 9.444600 TTTTTCCTATGGAATCAAGTGTACTAC 57.555 33.333 0.00 0.00 41.71 2.73
4232 4788 7.727578 TTCCTATGGAATCAAGTGTACTACA 57.272 36.000 0.00 0.00 36.71 2.74
4233 4789 7.914427 TCCTATGGAATCAAGTGTACTACAT 57.086 36.000 0.00 0.00 0.00 2.29
4234 4790 8.319057 TCCTATGGAATCAAGTGTACTACATT 57.681 34.615 0.00 0.00 0.00 2.71
4235 4791 8.768397 TCCTATGGAATCAAGTGTACTACATTT 58.232 33.333 0.00 0.00 0.00 2.32
4236 4792 9.046296 CCTATGGAATCAAGTGTACTACATTTC 57.954 37.037 0.00 0.00 0.00 2.17
4237 4793 9.599866 CTATGGAATCAAGTGTACTACATTTCA 57.400 33.333 0.00 0.00 0.00 2.69
4239 4795 8.862325 TGGAATCAAGTGTACTACATTTCATT 57.138 30.769 0.00 0.00 0.00 2.57
4240 4796 8.729756 TGGAATCAAGTGTACTACATTTCATTG 58.270 33.333 0.00 0.00 0.00 2.82
4241 4797 8.946085 GGAATCAAGTGTACTACATTTCATTGA 58.054 33.333 0.00 3.52 0.00 2.57
4254 4810 9.674824 CTACATTTCATTGAAAATCTAGCATCC 57.325 33.333 15.34 0.00 35.11 3.51
4255 4811 8.070034 ACATTTCATTGAAAATCTAGCATCCA 57.930 30.769 15.34 0.00 35.11 3.41
4256 4812 7.977853 ACATTTCATTGAAAATCTAGCATCCAC 59.022 33.333 15.34 0.00 35.11 4.02
4257 4813 7.707624 TTTCATTGAAAATCTAGCATCCACT 57.292 32.000 9.36 0.00 0.00 4.00
4258 4814 6.932356 TCATTGAAAATCTAGCATCCACTC 57.068 37.500 0.00 0.00 0.00 3.51
4259 4815 5.824624 TCATTGAAAATCTAGCATCCACTCC 59.175 40.000 0.00 0.00 0.00 3.85
4260 4816 4.842531 TGAAAATCTAGCATCCACTCCA 57.157 40.909 0.00 0.00 0.00 3.86
4261 4817 5.178096 TGAAAATCTAGCATCCACTCCAA 57.822 39.130 0.00 0.00 0.00 3.53
4262 4818 4.943705 TGAAAATCTAGCATCCACTCCAAC 59.056 41.667 0.00 0.00 0.00 3.77
4263 4819 3.567478 AATCTAGCATCCACTCCAACC 57.433 47.619 0.00 0.00 0.00 3.77
4264 4820 2.254152 TCTAGCATCCACTCCAACCT 57.746 50.000 0.00 0.00 0.00 3.50
4265 4821 2.111384 TCTAGCATCCACTCCAACCTC 58.889 52.381 0.00 0.00 0.00 3.85
4266 4822 2.114616 CTAGCATCCACTCCAACCTCT 58.885 52.381 0.00 0.00 0.00 3.69
4267 4823 1.366319 AGCATCCACTCCAACCTCTT 58.634 50.000 0.00 0.00 0.00 2.85
4268 4824 1.707427 AGCATCCACTCCAACCTCTTT 59.293 47.619 0.00 0.00 0.00 2.52
4269 4825 2.108952 AGCATCCACTCCAACCTCTTTT 59.891 45.455 0.00 0.00 0.00 2.27
4270 4826 2.893489 GCATCCACTCCAACCTCTTTTT 59.107 45.455 0.00 0.00 0.00 1.94
4292 4848 8.628630 TTTTTCAATTCCTTTGTTTTTCCTGT 57.371 26.923 0.00 0.00 36.65 4.00
4293 4849 9.726438 TTTTTCAATTCCTTTGTTTTTCCTGTA 57.274 25.926 0.00 0.00 36.65 2.74
4294 4850 8.940768 TTTCAATTCCTTTGTTTTTCCTGTAG 57.059 30.769 0.00 0.00 36.65 2.74
4295 4851 6.512297 TCAATTCCTTTGTTTTTCCTGTAGC 58.488 36.000 0.00 0.00 36.65 3.58
4296 4852 6.097554 TCAATTCCTTTGTTTTTCCTGTAGCA 59.902 34.615 0.00 0.00 36.65 3.49
4297 4853 6.670695 ATTCCTTTGTTTTTCCTGTAGCAT 57.329 33.333 0.00 0.00 0.00 3.79
4298 4854 5.705609 TCCTTTGTTTTTCCTGTAGCATC 57.294 39.130 0.00 0.00 0.00 3.91
4299 4855 5.136828 TCCTTTGTTTTTCCTGTAGCATCA 58.863 37.500 0.00 0.00 0.00 3.07
4300 4856 5.596361 TCCTTTGTTTTTCCTGTAGCATCAA 59.404 36.000 0.00 0.00 0.00 2.57
4301 4857 6.097554 TCCTTTGTTTTTCCTGTAGCATCAAA 59.902 34.615 0.00 0.00 0.00 2.69
4302 4858 6.200854 CCTTTGTTTTTCCTGTAGCATCAAAC 59.799 38.462 0.00 0.00 0.00 2.93
4303 4859 5.843673 TGTTTTTCCTGTAGCATCAAACA 57.156 34.783 0.00 0.00 31.84 2.83
4304 4860 5.587289 TGTTTTTCCTGTAGCATCAAACAC 58.413 37.500 0.00 0.00 29.87 3.32
4305 4861 5.359576 TGTTTTTCCTGTAGCATCAAACACT 59.640 36.000 0.00 0.00 29.87 3.55
4306 4862 5.689383 TTTTCCTGTAGCATCAAACACTC 57.311 39.130 0.00 0.00 0.00 3.51
4307 4863 4.623932 TTCCTGTAGCATCAAACACTCT 57.376 40.909 0.00 0.00 0.00 3.24
4308 4864 5.738619 TTCCTGTAGCATCAAACACTCTA 57.261 39.130 0.00 0.00 0.00 2.43
4309 4865 5.939764 TCCTGTAGCATCAAACACTCTAT 57.060 39.130 0.00 0.00 0.00 1.98
4310 4866 5.664457 TCCTGTAGCATCAAACACTCTATG 58.336 41.667 0.00 0.00 0.00 2.23
4311 4867 4.813161 CCTGTAGCATCAAACACTCTATGG 59.187 45.833 0.00 0.00 0.00 2.74
4312 4868 5.420725 TGTAGCATCAAACACTCTATGGT 57.579 39.130 0.00 0.00 34.66 3.55
4313 4869 6.406961 CCTGTAGCATCAAACACTCTATGGTA 60.407 42.308 0.00 0.00 32.70 3.25
4314 4870 6.941857 TGTAGCATCAAACACTCTATGGTAA 58.058 36.000 0.00 0.00 34.98 2.85
4315 4871 7.564793 TGTAGCATCAAACACTCTATGGTAAT 58.435 34.615 0.00 0.00 34.98 1.89
4316 4872 7.710907 TGTAGCATCAAACACTCTATGGTAATC 59.289 37.037 0.00 0.00 34.98 1.75
4317 4873 6.058183 AGCATCAAACACTCTATGGTAATCC 58.942 40.000 0.00 0.00 0.00 3.01
4318 4874 6.058183 GCATCAAACACTCTATGGTAATCCT 58.942 40.000 0.00 0.00 34.23 3.24
4319 4875 7.071196 AGCATCAAACACTCTATGGTAATCCTA 59.929 37.037 0.00 0.00 34.23 2.94
4320 4876 7.880195 GCATCAAACACTCTATGGTAATCCTAT 59.120 37.037 0.00 0.00 34.23 2.57
4323 4879 9.090103 TCAAACACTCTATGGTAATCCTATAGG 57.910 37.037 13.07 13.07 31.74 2.57
4338 4894 6.425210 TCCTATAGGATTCAAGTGGACATG 57.575 41.667 18.00 0.00 39.78 3.21
4339 4895 4.999950 CCTATAGGATTCAAGTGGACATGC 59.000 45.833 14.11 0.00 37.39 4.06
4340 4896 2.134789 AGGATTCAAGTGGACATGCC 57.865 50.000 0.00 0.00 37.10 4.40
4341 4897 1.355381 AGGATTCAAGTGGACATGCCA 59.645 47.619 4.93 4.93 46.96 4.92
4350 4906 1.838112 TGGACATGCCACTCAAATCC 58.162 50.000 4.93 0.00 43.33 3.01
4351 4907 1.355381 TGGACATGCCACTCAAATCCT 59.645 47.619 4.93 0.00 43.33 3.24
4352 4908 1.747355 GGACATGCCACTCAAATCCTG 59.253 52.381 0.00 0.00 36.34 3.86
4353 4909 2.440409 GACATGCCACTCAAATCCTGT 58.560 47.619 0.00 0.00 0.00 4.00
4354 4910 3.609853 GACATGCCACTCAAATCCTGTA 58.390 45.455 0.00 0.00 0.00 2.74
4355 4911 4.202441 GACATGCCACTCAAATCCTGTAT 58.798 43.478 0.00 0.00 0.00 2.29
4356 4912 4.603131 ACATGCCACTCAAATCCTGTATT 58.397 39.130 0.00 0.00 0.00 1.89
4357 4913 5.018809 ACATGCCACTCAAATCCTGTATTT 58.981 37.500 0.00 0.00 38.36 1.40
4358 4914 9.702434 GGACATGCCACTCAAATCCTGTATTTG 62.702 44.444 0.00 0.00 44.71 2.32
4368 4924 7.277174 CAAATCCTGTATTTGTCCTATTCCC 57.723 40.000 0.00 0.00 46.31 3.97
4369 4925 4.682778 TCCTGTATTTGTCCTATTCCCG 57.317 45.455 0.00 0.00 0.00 5.14
4370 4926 3.139077 CCTGTATTTGTCCTATTCCCGC 58.861 50.000 0.00 0.00 0.00 6.13
4371 4927 2.800544 CTGTATTTGTCCTATTCCCGCG 59.199 50.000 0.00 0.00 0.00 6.46
4372 4928 2.168936 TGTATTTGTCCTATTCCCGCGT 59.831 45.455 4.92 0.00 0.00 6.01
4373 4929 2.413310 ATTTGTCCTATTCCCGCGTT 57.587 45.000 4.92 0.00 0.00 4.84
4374 4930 2.188062 TTTGTCCTATTCCCGCGTTT 57.812 45.000 4.92 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 2.267642 GCGGCCATGGTGTACTCA 59.732 61.111 14.67 0.00 0.00 3.41
677 865 4.888038 TCTCAAATATGCATGAGTGTGC 57.112 40.909 10.16 0.00 42.86 4.57
702 890 9.981114 CAATCTTTGTCAGGTTAGGTTAAATTT 57.019 29.630 0.00 0.00 0.00 1.82
703 891 9.362151 TCAATCTTTGTCAGGTTAGGTTAAATT 57.638 29.630 0.00 0.00 0.00 1.82
704 892 8.793592 GTCAATCTTTGTCAGGTTAGGTTAAAT 58.206 33.333 0.00 0.00 0.00 1.40
705 893 7.776030 TGTCAATCTTTGTCAGGTTAGGTTAAA 59.224 33.333 0.00 0.00 0.00 1.52
710 898 5.765182 ACTTGTCAATCTTTGTCAGGTTAGG 59.235 40.000 0.00 0.00 36.07 2.69
712 900 6.934645 CCTACTTGTCAATCTTTGTCAGGTTA 59.065 38.462 7.33 0.00 39.09 2.85
716 904 5.551233 TCCCTACTTGTCAATCTTTGTCAG 58.449 41.667 0.00 0.00 30.83 3.51
720 908 5.582665 GCTACTCCCTACTTGTCAATCTTTG 59.417 44.000 0.00 0.00 0.00 2.77
722 910 4.777896 TGCTACTCCCTACTTGTCAATCTT 59.222 41.667 0.00 0.00 0.00 2.40
733 921 3.491104 CGTCCAATCTTGCTACTCCCTAC 60.491 52.174 0.00 0.00 0.00 3.18
746 937 5.605534 CTGTAATCCAATCTCGTCCAATCT 58.394 41.667 0.00 0.00 0.00 2.40
759 950 0.034186 CCCTGCAGGCTGTAATCCAA 60.034 55.000 28.39 0.00 0.00 3.53
815 1020 7.308589 CGTTTACTTCACCTTCATCTTTGGAAT 60.309 37.037 0.00 0.00 0.00 3.01
981 1462 0.036306 TGGCGGTTCCTTTCTTCCTC 59.964 55.000 0.00 0.00 35.26 3.71
982 1463 0.698818 ATGGCGGTTCCTTTCTTCCT 59.301 50.000 0.00 0.00 35.26 3.36
1192 1673 1.575447 GGAGGGGAAATCAGGGCACT 61.575 60.000 0.00 0.00 0.00 4.40
1194 1675 1.230281 AGGAGGGGAAATCAGGGCA 60.230 57.895 0.00 0.00 0.00 5.36
1301 1782 2.954684 TTGAAGGCGGCGATCTGGT 61.955 57.895 12.98 0.00 0.00 4.00
1330 1811 2.487428 CTCTCGTGGCCTGACTCG 59.513 66.667 3.32 1.33 0.00 4.18
1333 1814 2.680352 TCCCTCTCGTGGCCTGAC 60.680 66.667 3.32 0.00 0.00 3.51
1424 1908 1.148157 CTTGAGGCGCCGATACAGTG 61.148 60.000 23.20 12.27 0.00 3.66
1441 1925 2.035237 TTGGGAAGTCGTCGGTGCTT 62.035 55.000 0.00 0.00 0.00 3.91
1460 1944 2.025887 GGGTGTTCTCCATGGTCTCAAT 60.026 50.000 12.58 0.00 0.00 2.57
1461 1945 1.351017 GGGTGTTCTCCATGGTCTCAA 59.649 52.381 12.58 0.00 0.00 3.02
1462 1946 0.984230 GGGTGTTCTCCATGGTCTCA 59.016 55.000 12.58 4.72 0.00 3.27
1498 1982 0.034477 AGGACGGGCGGAAATTGATT 60.034 50.000 0.00 0.00 0.00 2.57
1646 2130 5.504665 GCAATTGCAATACTACACAGGCTAG 60.505 44.000 25.36 0.00 41.59 3.42
1657 2141 2.939103 GAGGTCGAGCAATTGCAATACT 59.061 45.455 30.89 20.69 45.16 2.12
1782 2274 4.008074 TCAATCACCTGACAGGAGAAAC 57.992 45.455 28.56 0.00 38.46 2.78
1786 2278 2.428530 TCGATCAATCACCTGACAGGAG 59.571 50.000 28.56 20.32 37.67 3.69
1982 2474 2.563620 TGGCGAAGTGTAAGTCCACATA 59.436 45.455 0.00 0.00 37.82 2.29
2062 2554 4.788925 TGGTAGAATTTCCCCATCGATT 57.211 40.909 0.00 0.00 0.00 3.34
2072 2564 6.500684 TGCAAAGTCTCATGGTAGAATTTC 57.499 37.500 6.82 4.42 40.67 2.17
2168 2660 7.677454 TCTCGTAATCACAAACTACTGACTA 57.323 36.000 0.00 0.00 0.00 2.59
2343 2837 1.331214 CACCACCAATGCAAAGGACT 58.669 50.000 14.09 0.00 0.00 3.85
2758 3253 2.268298 GAGCGAGTATGCGAGGAAAAA 58.732 47.619 0.00 0.00 40.67 1.94
2800 3295 9.299963 CGGTCAAAATAAATCTCAAAATGCATA 57.700 29.630 0.00 0.00 0.00 3.14
2960 3455 3.489738 GCTGATACGCATTTTGAAGCCAT 60.490 43.478 0.00 0.00 0.00 4.40
2965 3460 3.505680 ACAAGGCTGATACGCATTTTGAA 59.494 39.130 0.00 0.00 30.67 2.69
2979 3474 2.817258 TCATTTCGGGTTTACAAGGCTG 59.183 45.455 0.00 0.00 0.00 4.85
3056 3551 1.689984 TCACTTCAGCATGGCAAACA 58.310 45.000 0.00 0.00 36.16 2.83
3110 3605 4.881019 ATAACCTTCAGGATCCGAGATG 57.119 45.455 5.98 10.55 38.94 2.90
3553 4084 5.764131 ACGAAAAACACAAGAGAAAACACA 58.236 33.333 0.00 0.00 0.00 3.72
3601 4132 7.226772 GCAAACGGCATTTATTTGAAAAGTAG 58.773 34.615 0.30 0.00 43.97 2.57
3640 4171 5.471116 TGCATTCATAGTGTGCCATAAGATC 59.529 40.000 0.00 0.00 38.06 2.75
3766 4316 2.277591 TTCCACCCGGTAGTCCACG 61.278 63.158 0.00 0.00 0.00 4.94
3854 4404 7.691213 TCAAAACTTACCAGGATACCAACATA 58.309 34.615 0.00 0.00 37.17 2.29
3992 4544 3.155501 TGCCATGTTGACATTCACATGA 58.844 40.909 16.80 0.00 37.72 3.07
4104 4660 9.194101 ATCCCACGGAATTCCTTTGAATCAAAG 62.194 40.741 24.53 24.53 41.67 2.77
4105 4661 4.021544 CCCACGGAATTCCTTTGAATCAAA 60.022 41.667 22.05 8.25 40.34 2.69
4106 4662 3.509575 CCCACGGAATTCCTTTGAATCAA 59.490 43.478 22.05 0.00 40.34 2.57
4107 4663 3.088532 CCCACGGAATTCCTTTGAATCA 58.911 45.455 22.05 0.00 40.34 2.57
4108 4664 3.352648 TCCCACGGAATTCCTTTGAATC 58.647 45.455 22.05 0.00 40.34 2.52
4109 4665 3.449746 TCCCACGGAATTCCTTTGAAT 57.550 42.857 22.05 0.00 43.08 2.57
4110 4666 2.961531 TCCCACGGAATTCCTTTGAA 57.038 45.000 22.05 8.05 34.33 2.69
4111 4667 3.449746 AATCCCACGGAATTCCTTTGA 57.550 42.857 22.05 11.84 34.34 2.69
4112 4668 4.535526 AAAATCCCACGGAATTCCTTTG 57.464 40.909 22.05 17.34 34.34 2.77
4113 4669 4.262851 CCAAAAATCCCACGGAATTCCTTT 60.263 41.667 22.05 11.49 34.34 3.11
4114 4670 3.260632 CCAAAAATCCCACGGAATTCCTT 59.739 43.478 22.05 10.52 34.34 3.36
4115 4671 2.831526 CCAAAAATCCCACGGAATTCCT 59.168 45.455 22.05 6.76 34.34 3.36
4116 4672 2.829120 TCCAAAAATCCCACGGAATTCC 59.171 45.455 15.01 15.01 34.34 3.01
4117 4673 3.119137 CCTCCAAAAATCCCACGGAATTC 60.119 47.826 0.00 0.00 34.34 2.17
4118 4674 2.831526 CCTCCAAAAATCCCACGGAATT 59.168 45.455 0.00 0.00 34.34 2.17
4119 4675 2.456577 CCTCCAAAAATCCCACGGAAT 58.543 47.619 0.00 0.00 34.34 3.01
4120 4676 1.549037 CCCTCCAAAAATCCCACGGAA 60.549 52.381 0.00 0.00 34.34 4.30
4121 4677 0.039035 CCCTCCAAAAATCCCACGGA 59.961 55.000 0.00 0.00 35.55 4.69
4122 4678 0.251608 ACCCTCCAAAAATCCCACGG 60.252 55.000 0.00 0.00 0.00 4.94
4123 4679 1.627864 AACCCTCCAAAAATCCCACG 58.372 50.000 0.00 0.00 0.00 4.94
4124 4680 4.042271 TCTAACCCTCCAAAAATCCCAC 57.958 45.455 0.00 0.00 0.00 4.61
4125 4681 4.750833 TTCTAACCCTCCAAAAATCCCA 57.249 40.909 0.00 0.00 0.00 4.37
4126 4682 4.649674 GGATTCTAACCCTCCAAAAATCCC 59.350 45.833 0.00 0.00 36.33 3.85
4127 4683 4.649674 GGGATTCTAACCCTCCAAAAATCC 59.350 45.833 0.00 0.00 43.65 3.01
4128 4684 5.854010 GGGATTCTAACCCTCCAAAAATC 57.146 43.478 0.00 0.00 43.65 2.17
4157 4713 8.191446 TGAATCAAACGACAAACATAGGAAAAA 58.809 29.630 0.00 0.00 0.00 1.94
4158 4714 7.646130 GTGAATCAAACGACAAACATAGGAAAA 59.354 33.333 0.00 0.00 0.00 2.29
4159 4715 7.136119 GTGAATCAAACGACAAACATAGGAAA 58.864 34.615 0.00 0.00 0.00 3.13
4160 4716 6.261158 TGTGAATCAAACGACAAACATAGGAA 59.739 34.615 0.00 0.00 0.00 3.36
4161 4717 5.760743 TGTGAATCAAACGACAAACATAGGA 59.239 36.000 0.00 0.00 0.00 2.94
4162 4718 5.996219 TGTGAATCAAACGACAAACATAGG 58.004 37.500 0.00 0.00 0.00 2.57
4163 4719 6.073276 TCCTGTGAATCAAACGACAAACATAG 60.073 38.462 0.00 0.00 0.00 2.23
4164 4720 5.760743 TCCTGTGAATCAAACGACAAACATA 59.239 36.000 0.00 0.00 0.00 2.29
4165 4721 4.578516 TCCTGTGAATCAAACGACAAACAT 59.421 37.500 0.00 0.00 0.00 2.71
4166 4722 3.942115 TCCTGTGAATCAAACGACAAACA 59.058 39.130 0.00 0.00 0.00 2.83
4167 4723 4.545823 TCCTGTGAATCAAACGACAAAC 57.454 40.909 0.00 0.00 0.00 2.93
4168 4724 5.298026 TCAATCCTGTGAATCAAACGACAAA 59.702 36.000 0.00 0.00 0.00 2.83
4169 4725 4.819088 TCAATCCTGTGAATCAAACGACAA 59.181 37.500 0.00 0.00 0.00 3.18
4170 4726 4.384940 TCAATCCTGTGAATCAAACGACA 58.615 39.130 0.00 0.00 0.00 4.35
4171 4727 4.452455 ACTCAATCCTGTGAATCAAACGAC 59.548 41.667 0.00 0.00 0.00 4.34
4172 4728 4.641396 ACTCAATCCTGTGAATCAAACGA 58.359 39.130 0.00 0.00 0.00 3.85
4173 4729 4.142816 GGACTCAATCCTGTGAATCAAACG 60.143 45.833 0.00 0.00 45.22 3.60
4174 4730 5.302357 GGACTCAATCCTGTGAATCAAAC 57.698 43.478 0.00 0.00 45.22 2.93
4205 4761 9.444600 GTAGTACACTTGATTCCATAGGAAAAA 57.555 33.333 2.16 0.62 45.41 1.94
4206 4762 8.598916 TGTAGTACACTTGATTCCATAGGAAAA 58.401 33.333 0.00 0.00 45.41 2.29
4207 4763 8.141298 TGTAGTACACTTGATTCCATAGGAAA 57.859 34.615 0.00 0.00 45.41 3.13
4208 4764 7.727578 TGTAGTACACTTGATTCCATAGGAA 57.272 36.000 0.00 0.30 46.39 3.36
4209 4765 7.914427 ATGTAGTACACTTGATTCCATAGGA 57.086 36.000 4.80 0.00 0.00 2.94
4210 4766 8.964476 AAATGTAGTACACTTGATTCCATAGG 57.036 34.615 4.80 0.00 0.00 2.57
4211 4767 9.599866 TGAAATGTAGTACACTTGATTCCATAG 57.400 33.333 4.80 0.00 0.00 2.23
4213 4769 9.466497 AATGAAATGTAGTACACTTGATTCCAT 57.534 29.630 4.80 0.00 0.00 3.41
4214 4770 8.729756 CAATGAAATGTAGTACACTTGATTCCA 58.270 33.333 4.80 0.00 0.00 3.53
4215 4771 8.946085 TCAATGAAATGTAGTACACTTGATTCC 58.054 33.333 4.80 0.00 0.00 3.01
4228 4784 9.674824 GGATGCTAGATTTTCAATGAAATGTAG 57.325 33.333 9.41 11.76 41.85 2.74
4229 4785 9.187996 TGGATGCTAGATTTTCAATGAAATGTA 57.812 29.630 9.41 0.00 31.34 2.29
4230 4786 7.977853 GTGGATGCTAGATTTTCAATGAAATGT 59.022 33.333 9.41 1.73 31.34 2.71
4231 4787 8.195436 AGTGGATGCTAGATTTTCAATGAAATG 58.805 33.333 9.41 0.20 31.34 2.32
4232 4788 8.302515 AGTGGATGCTAGATTTTCAATGAAAT 57.697 30.769 9.41 0.22 31.34 2.17
4233 4789 7.148018 GGAGTGGATGCTAGATTTTCAATGAAA 60.148 37.037 4.03 4.03 0.00 2.69
4234 4790 6.319658 GGAGTGGATGCTAGATTTTCAATGAA 59.680 38.462 0.00 0.00 0.00 2.57
4235 4791 5.824624 GGAGTGGATGCTAGATTTTCAATGA 59.175 40.000 0.00 0.00 0.00 2.57
4236 4792 5.591472 TGGAGTGGATGCTAGATTTTCAATG 59.409 40.000 0.00 0.00 0.00 2.82
4237 4793 5.759059 TGGAGTGGATGCTAGATTTTCAAT 58.241 37.500 0.00 0.00 0.00 2.57
4238 4794 5.178096 TGGAGTGGATGCTAGATTTTCAA 57.822 39.130 0.00 0.00 0.00 2.69
4239 4795 4.842531 TGGAGTGGATGCTAGATTTTCA 57.157 40.909 0.00 0.00 0.00 2.69
4240 4796 4.336713 GGTTGGAGTGGATGCTAGATTTTC 59.663 45.833 0.00 0.00 0.00 2.29
4241 4797 4.018050 AGGTTGGAGTGGATGCTAGATTTT 60.018 41.667 0.00 0.00 0.00 1.82
4242 4798 3.525199 AGGTTGGAGTGGATGCTAGATTT 59.475 43.478 0.00 0.00 0.00 2.17
4243 4799 3.118531 AGGTTGGAGTGGATGCTAGATT 58.881 45.455 0.00 0.00 0.00 2.40
4244 4800 2.703007 GAGGTTGGAGTGGATGCTAGAT 59.297 50.000 0.00 0.00 0.00 1.98
4245 4801 2.111384 GAGGTTGGAGTGGATGCTAGA 58.889 52.381 0.00 0.00 0.00 2.43
4246 4802 2.114616 AGAGGTTGGAGTGGATGCTAG 58.885 52.381 0.00 0.00 0.00 3.42
4247 4803 2.254152 AGAGGTTGGAGTGGATGCTA 57.746 50.000 0.00 0.00 0.00 3.49
4248 4804 1.366319 AAGAGGTTGGAGTGGATGCT 58.634 50.000 0.00 0.00 0.00 3.79
4249 4805 2.206576 AAAGAGGTTGGAGTGGATGC 57.793 50.000 0.00 0.00 0.00 3.91
4267 4823 8.628630 ACAGGAAAAACAAAGGAATTGAAAAA 57.371 26.923 0.00 0.00 41.85 1.94
4268 4824 9.377312 CTACAGGAAAAACAAAGGAATTGAAAA 57.623 29.630 0.00 0.00 41.85 2.29
4269 4825 7.494298 GCTACAGGAAAAACAAAGGAATTGAAA 59.506 33.333 0.00 0.00 41.85 2.69
4270 4826 6.983890 GCTACAGGAAAAACAAAGGAATTGAA 59.016 34.615 0.00 0.00 41.85 2.69
4271 4827 6.097554 TGCTACAGGAAAAACAAAGGAATTGA 59.902 34.615 0.00 0.00 41.85 2.57
4272 4828 6.279882 TGCTACAGGAAAAACAAAGGAATTG 58.720 36.000 0.00 0.00 44.95 2.32
4273 4829 6.478512 TGCTACAGGAAAAACAAAGGAATT 57.521 33.333 0.00 0.00 0.00 2.17
4274 4830 6.267471 TGATGCTACAGGAAAAACAAAGGAAT 59.733 34.615 0.00 0.00 0.00 3.01
4275 4831 5.596361 TGATGCTACAGGAAAAACAAAGGAA 59.404 36.000 0.00 0.00 0.00 3.36
4276 4832 5.136828 TGATGCTACAGGAAAAACAAAGGA 58.863 37.500 0.00 0.00 0.00 3.36
4277 4833 5.452078 TGATGCTACAGGAAAAACAAAGG 57.548 39.130 0.00 0.00 0.00 3.11
4278 4834 6.756074 TGTTTGATGCTACAGGAAAAACAAAG 59.244 34.615 10.57 0.00 35.10 2.77
4279 4835 6.533367 GTGTTTGATGCTACAGGAAAAACAAA 59.467 34.615 13.11 0.00 37.56 2.83
4280 4836 6.039616 GTGTTTGATGCTACAGGAAAAACAA 58.960 36.000 13.11 0.00 37.56 2.83
4281 4837 5.359576 AGTGTTTGATGCTACAGGAAAAACA 59.640 36.000 9.52 9.52 35.39 2.83
4282 4838 5.831997 AGTGTTTGATGCTACAGGAAAAAC 58.168 37.500 5.84 5.84 31.48 2.43
4283 4839 5.827797 AGAGTGTTTGATGCTACAGGAAAAA 59.172 36.000 0.00 0.00 0.00 1.94
4284 4840 5.376625 AGAGTGTTTGATGCTACAGGAAAA 58.623 37.500 0.00 0.00 0.00 2.29
4285 4841 4.973168 AGAGTGTTTGATGCTACAGGAAA 58.027 39.130 0.00 0.00 0.00 3.13
4286 4842 4.623932 AGAGTGTTTGATGCTACAGGAA 57.376 40.909 0.00 0.00 0.00 3.36
4287 4843 5.395657 CCATAGAGTGTTTGATGCTACAGGA 60.396 44.000 0.00 0.00 0.00 3.86
4288 4844 4.813161 CCATAGAGTGTTTGATGCTACAGG 59.187 45.833 0.00 0.00 0.00 4.00
4289 4845 5.423015 ACCATAGAGTGTTTGATGCTACAG 58.577 41.667 0.00 0.00 0.00 2.74
4290 4846 5.420725 ACCATAGAGTGTTTGATGCTACA 57.579 39.130 0.00 0.00 0.00 2.74
4291 4847 7.171678 GGATTACCATAGAGTGTTTGATGCTAC 59.828 40.741 0.00 0.00 35.97 3.58
4292 4848 7.071196 AGGATTACCATAGAGTGTTTGATGCTA 59.929 37.037 0.00 0.00 38.94 3.49
4293 4849 6.058183 GGATTACCATAGAGTGTTTGATGCT 58.942 40.000 0.00 0.00 35.97 3.79
4294 4850 6.058183 AGGATTACCATAGAGTGTTTGATGC 58.942 40.000 0.00 0.00 38.94 3.91
4297 4853 9.090103 CCTATAGGATTACCATAGAGTGTTTGA 57.910 37.037 14.11 0.00 38.94 2.69
4298 4854 9.090103 TCCTATAGGATTACCATAGAGTGTTTG 57.910 37.037 18.00 0.00 39.78 2.93
4314 4870 9.380119 GGCATGTCCACTTGAATCCTATAGGAT 62.380 44.444 26.04 26.04 45.17 3.24
4315 4871 8.157082 GGCATGTCCACTTGAATCCTATAGGA 62.157 46.154 23.76 23.76 41.05 2.94
4316 4872 4.999950 GCATGTCCACTTGAATCCTATAGG 59.000 45.833 13.07 13.07 0.00 2.57
4317 4873 4.999950 GGCATGTCCACTTGAATCCTATAG 59.000 45.833 0.00 0.00 34.01 1.31
4318 4874 4.411869 TGGCATGTCCACTTGAATCCTATA 59.588 41.667 4.93 0.00 40.72 1.31
4319 4875 3.202818 TGGCATGTCCACTTGAATCCTAT 59.797 43.478 4.93 0.00 40.72 2.57
4320 4876 2.575735 TGGCATGTCCACTTGAATCCTA 59.424 45.455 4.93 0.00 40.72 2.94
4321 4877 1.355381 TGGCATGTCCACTTGAATCCT 59.645 47.619 4.93 0.00 40.72 3.24
4322 4878 1.838112 TGGCATGTCCACTTGAATCC 58.162 50.000 4.93 0.00 40.72 3.01
4331 4887 1.355381 AGGATTTGAGTGGCATGTCCA 59.645 47.619 4.93 4.93 44.18 4.02
4332 4888 1.747355 CAGGATTTGAGTGGCATGTCC 59.253 52.381 0.00 0.00 33.11 4.02
4333 4889 2.440409 ACAGGATTTGAGTGGCATGTC 58.560 47.619 0.00 0.00 0.00 3.06
4334 4890 2.592102 ACAGGATTTGAGTGGCATGT 57.408 45.000 0.00 0.00 0.00 3.21
4335 4891 5.587388 AAATACAGGATTTGAGTGGCATG 57.413 39.130 0.00 0.00 36.35 4.06
4345 4901 6.062095 CGGGAATAGGACAAATACAGGATTT 58.938 40.000 0.00 0.00 38.34 2.17
4346 4902 5.621193 CGGGAATAGGACAAATACAGGATT 58.379 41.667 0.00 0.00 0.00 3.01
4347 4903 4.505039 GCGGGAATAGGACAAATACAGGAT 60.505 45.833 0.00 0.00 0.00 3.24
4348 4904 3.181458 GCGGGAATAGGACAAATACAGGA 60.181 47.826 0.00 0.00 0.00 3.86
4349 4905 3.139077 GCGGGAATAGGACAAATACAGG 58.861 50.000 0.00 0.00 0.00 4.00
4350 4906 2.800544 CGCGGGAATAGGACAAATACAG 59.199 50.000 0.00 0.00 0.00 2.74
4351 4907 2.168936 ACGCGGGAATAGGACAAATACA 59.831 45.455 12.47 0.00 0.00 2.29
4352 4908 2.830104 ACGCGGGAATAGGACAAATAC 58.170 47.619 12.47 0.00 0.00 1.89
4353 4909 3.547054 AACGCGGGAATAGGACAAATA 57.453 42.857 12.47 0.00 0.00 1.40
4354 4910 2.413310 AACGCGGGAATAGGACAAAT 57.587 45.000 12.47 0.00 0.00 2.32
4355 4911 2.188062 AAACGCGGGAATAGGACAAA 57.812 45.000 12.47 0.00 0.00 2.83
4356 4912 3.940229 AAACGCGGGAATAGGACAA 57.060 47.368 12.47 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.