Multiple sequence alignment - TraesCS5A01G138700

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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 TraesCS5A01G138700 chr5A 100.000 3358 0 0 1 3358 310999953 311003310 0.000000e+00 6202
1 TraesCS5A01G138700 chr5B 92.413 3203 148 44 1 3124 262353823 262350637 0.000000e+00 4481
2 TraesCS5A01G138700 chr5D 93.232 2689 121 29 391 3027 241275386 241278065 0.000000e+00 3901
3 TraesCS5A01G138700 chr5D 90.840 393 23 7 1 393 241274851 241275230 6.420000e-142 514
4 TraesCS5A01G138700 chr5D 80.909 110 8 8 3019 3117 241278295 241278402 1.290000e-09 75
5 TraesCS5A01G138700 chr1A 83.894 1515 142 48 486 1925 12917973 12919460 0.000000e+00 1352
6 TraesCS5A01G138700 chr1A 90.871 241 22 0 2120 2360 12919633 12919873 1.160000e-84 324
7 TraesCS5A01G138700 chr1A 89.024 82 7 2 474 554 12917215 12917295 2.130000e-17 100
8 TraesCS5A01G138700 chr1D 82.834 1602 158 64 400 1919 10739638 10741204 0.000000e+00 1327
9 TraesCS5A01G138700 chr1D 85.915 355 26 6 2120 2454 10741389 10741739 1.150000e-94 357
10 TraesCS5A01G138700 chr1D 80.645 217 34 8 469 681 10739069 10739281 9.640000e-36 161
11 TraesCS5A01G138700 chr1B 83.074 1542 148 54 474 1922 16215808 16217329 0.000000e+00 1297
12 TraesCS5A01G138700 chr1B 89.686 669 68 1 1100 1767 23978950 23978282 0.000000e+00 852
13 TraesCS5A01G138700 chr1B 93.333 225 15 0 2135 2359 16217412 16217636 1.930000e-87 333
14 TraesCS5A01G138700 chr1B 92.478 226 17 0 2134 2359 23970835 23970610 1.160000e-84 324
15 TraesCS5A01G138700 chr1B 93.168 161 11 0 1759 1919 23971133 23970973 1.560000e-58 237
16 TraesCS5A01G138700 chr1B 79.389 262 22 13 696 925 23979369 23979108 4.490000e-34 156
17 TraesCS5A01G138700 chr7D 88.166 169 19 1 132 300 56239551 56239718 2.040000e-47 200
18 TraesCS5A01G138700 chr7D 89.583 144 15 0 3214 3357 55422653 55422796 2.060000e-42 183
19 TraesCS5A01G138700 chr2D 91.275 149 9 2 3214 3358 58735821 58735673 2.040000e-47 200
20 TraesCS5A01G138700 chr7A 89.933 149 11 2 3214 3358 6424600 6424452 4.420000e-44 189
21 TraesCS5A01G138700 chr7B 85.965 171 18 3 132 300 586570295 586570461 9.570000e-41 178
22 TraesCS5A01G138700 chr3A 78.947 266 49 6 1475 1735 32100771 32100508 1.240000e-39 174
23 TraesCS5A01G138700 chr3A 86.842 152 11 5 3216 3358 13859058 13858907 9.640000e-36 161
24 TraesCS5A01G138700 chr3B 75.066 377 76 14 1475 1845 596853056 596853420 3.470000e-35 159
25 TraesCS5A01G138700 chr3B 73.568 454 103 14 1436 1882 686492538 686492981 1.250000e-34 158
26 TraesCS5A01G138700 chr3D 88.983 118 11 1 3241 3358 416409575 416409690 9.710000e-31 145


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 TraesCS5A01G138700 chr5A 310999953 311003310 3357 False 6202.000000 6202 100.000000 1 3358 1 chr5A.!!$F1 3357
1 TraesCS5A01G138700 chr5B 262350637 262353823 3186 True 4481.000000 4481 92.413000 1 3124 1 chr5B.!!$R1 3123
2 TraesCS5A01G138700 chr5D 241274851 241278402 3551 False 1496.666667 3901 88.327000 1 3117 3 chr5D.!!$F1 3116
3 TraesCS5A01G138700 chr1A 12917215 12919873 2658 False 592.000000 1352 87.929667 474 2360 3 chr1A.!!$F1 1886
4 TraesCS5A01G138700 chr1D 10739069 10741739 2670 False 615.000000 1327 83.131333 400 2454 3 chr1D.!!$F1 2054
5 TraesCS5A01G138700 chr1B 16215808 16217636 1828 False 815.000000 1297 88.203500 474 2359 2 chr1B.!!$F1 1885
6 TraesCS5A01G138700 chr1B 23978282 23979369 1087 True 504.000000 852 84.537500 696 1767 2 chr1B.!!$R2 1071
7 TraesCS5A01G138700 chr1B 23970610 23971133 523 True 280.500000 324 92.823000 1759 2359 2 chr1B.!!$R1 600

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
216 217 3.368531 GCGGATCCACAAGAGAAGTTACT 60.369 47.826 13.41 0.0 0.00 2.24 F
975 2014 3.984018 CTTTGAAGCAATTCAATGGCG 57.016 42.857 4.40 0.0 40.25 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1026 2073 0.458260 GAAGTGTTGGCGGTTGGTTT 59.542 50.0 0.0 0.0 0.0 3.27 R
2491 3643 0.032815 TTCAGTCCATGTTCGTCGCA 59.967 50.0 0.0 0.0 0.0 5.10 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
49 50 3.600388 AGGAAACGTAATCTGGCTGAAG 58.400 45.455 0.00 0.00 0.00 3.02
79 80 8.882736 TGACATAACATACAGATAAAGTTGCAG 58.117 33.333 0.00 0.00 0.00 4.41
96 97 3.613030 TGCAGCATGATCACACATAAGT 58.387 40.909 0.00 0.00 39.69 2.24
111 112 7.380333 TCACACATAAGTAACAAGAACGTAGTG 59.620 37.037 0.00 0.00 45.00 2.74
216 217 3.368531 GCGGATCCACAAGAGAAGTTACT 60.369 47.826 13.41 0.00 0.00 2.24
370 374 7.466746 AGAAATATGTTCCTGCAAAGCTAAA 57.533 32.000 0.00 0.00 0.00 1.85
454 628 9.436957 TCTAAAAAGAGAAATGAGTATGTCACC 57.563 33.333 0.00 0.00 38.28 4.02
894 1907 4.331168 CCGTCAGAGATCAAAGCTTAAAGG 59.669 45.833 0.00 0.00 0.00 3.11
975 2014 3.984018 CTTTGAAGCAATTCAATGGCG 57.016 42.857 4.40 0.00 40.25 5.69
1026 2073 1.770658 CCTATCCTCCATCCTGCAACA 59.229 52.381 0.00 0.00 0.00 3.33
1031 2078 1.619654 CTCCATCCTGCAACAAACCA 58.380 50.000 0.00 0.00 0.00 3.67
1084 2131 1.680522 GGCTTCTCCTCGGCATCTGA 61.681 60.000 0.00 0.00 0.00 3.27
1097 2144 1.268437 GCATCTGATGAAGCTTTCGGC 60.268 52.381 21.30 0.00 42.19 5.54
1119 2166 1.899142 GCTCTTCTCCTCCTCTGTGTT 59.101 52.381 0.00 0.00 0.00 3.32
1370 2417 2.596553 TTTGCCGACCTCACCAACGT 62.597 55.000 0.00 0.00 0.00 3.99
1695 2742 1.658717 CGCCTTCTCCTACATCGCG 60.659 63.158 0.00 0.00 0.00 5.87
1780 2827 2.283824 GGTAAGAAGGCCGAGTCCA 58.716 57.895 0.00 0.00 0.00 4.02
1956 3006 5.457052 TTTCTTTCGAAAATGGGAGTACCCT 60.457 40.000 12.41 0.00 44.65 4.34
2065 3129 2.027073 CCCACACCACATGTCGTCG 61.027 63.158 0.00 0.00 40.64 5.12
2374 3521 3.350833 AGTGATGTTCCAGCCTCAAATC 58.649 45.455 0.00 0.00 0.00 2.17
2463 3613 5.220397 CCCTGCTTTTTCTTTCACGTTTTTC 60.220 40.000 0.00 0.00 0.00 2.29
2464 3614 5.220397 CCTGCTTTTTCTTTCACGTTTTTCC 60.220 40.000 0.00 0.00 0.00 3.13
2491 3643 5.566469 TCTCAATGGTTCCTTTCGGTTAAT 58.434 37.500 0.00 0.00 0.00 1.40
2492 3644 5.414454 TCTCAATGGTTCCTTTCGGTTAATG 59.586 40.000 0.00 0.00 0.00 1.90
2549 3701 6.992063 TCCAAGTTTCTATTGAGATTGCTC 57.008 37.500 0.00 0.00 41.67 4.26
2563 3715 0.469494 TTGCTCAGCTGGTCTTGTCA 59.531 50.000 15.13 0.00 0.00 3.58
2564 3716 0.469494 TGCTCAGCTGGTCTTGTCAA 59.531 50.000 15.13 0.00 0.00 3.18
2565 3717 0.871057 GCTCAGCTGGTCTTGTCAAC 59.129 55.000 15.13 0.00 0.00 3.18
2566 3718 1.542108 GCTCAGCTGGTCTTGTCAACT 60.542 52.381 15.13 0.00 0.00 3.16
2567 3719 2.843701 CTCAGCTGGTCTTGTCAACTT 58.156 47.619 15.13 0.00 0.00 2.66
2569 3721 4.573900 CTCAGCTGGTCTTGTCAACTTAT 58.426 43.478 15.13 0.00 0.00 1.73
2570 3722 4.318332 TCAGCTGGTCTTGTCAACTTATG 58.682 43.478 15.13 0.00 0.00 1.90
2572 3724 3.077359 GCTGGTCTTGTCAACTTATGCT 58.923 45.455 0.00 0.00 0.00 3.79
2573 3725 3.120060 GCTGGTCTTGTCAACTTATGCTG 60.120 47.826 0.00 0.00 0.00 4.41
2574 3726 4.318332 CTGGTCTTGTCAACTTATGCTGA 58.682 43.478 0.00 0.00 0.00 4.26
2575 3727 4.713553 TGGTCTTGTCAACTTATGCTGAA 58.286 39.130 0.00 0.00 0.00 3.02
2576 3728 4.515191 TGGTCTTGTCAACTTATGCTGAAC 59.485 41.667 0.00 0.00 0.00 3.18
2582 3740 5.308014 TGTCAACTTATGCTGAACATGTCT 58.692 37.500 0.00 0.00 40.06 3.41
2627 3787 3.003378 GTGTGAGCACTTAACTGAAACCC 59.997 47.826 1.99 0.00 42.13 4.11
2638 3798 7.763985 CACTTAACTGAAACCCAAGTCATTTTT 59.236 33.333 0.00 0.00 0.00 1.94
2660 3823 1.963515 AGCATGTTTTGGAAGGACACC 59.036 47.619 0.00 0.00 0.00 4.16
2698 3861 9.540538 TCCAATGTTCTGGAAAATTAATAAGGA 57.459 29.630 0.00 0.10 42.69 3.36
2743 3906 1.154150 GCAACAAGAGCATGTCGGC 60.154 57.895 0.00 0.00 31.81 5.54
2747 3910 1.675310 CAAGAGCATGTCGGCCCAA 60.675 57.895 0.00 0.00 0.00 4.12
2811 3974 0.603065 AAATTTTGGTCTCCGGCTGC 59.397 50.000 0.00 0.00 0.00 5.25
2860 4023 6.540438 TGTTCAACGATACTATTTCCTCCT 57.460 37.500 0.00 0.00 0.00 3.69
2861 4024 6.338146 TGTTCAACGATACTATTTCCTCCTG 58.662 40.000 0.00 0.00 0.00 3.86
2862 4025 4.945246 TCAACGATACTATTTCCTCCTGC 58.055 43.478 0.00 0.00 0.00 4.85
2863 4026 4.649674 TCAACGATACTATTTCCTCCTGCT 59.350 41.667 0.00 0.00 0.00 4.24
2864 4027 5.831525 TCAACGATACTATTTCCTCCTGCTA 59.168 40.000 0.00 0.00 0.00 3.49
2865 4028 5.708877 ACGATACTATTTCCTCCTGCTAC 57.291 43.478 0.00 0.00 0.00 3.58
2866 4029 4.215827 ACGATACTATTTCCTCCTGCTACG 59.784 45.833 0.00 0.00 0.00 3.51
2867 4030 4.215827 CGATACTATTTCCTCCTGCTACGT 59.784 45.833 0.00 0.00 0.00 3.57
2868 4031 5.410746 CGATACTATTTCCTCCTGCTACGTA 59.589 44.000 0.00 0.00 0.00 3.57
2869 4032 4.915158 ACTATTTCCTCCTGCTACGTAC 57.085 45.455 0.00 0.00 0.00 3.67
2870 4033 4.275810 ACTATTTCCTCCTGCTACGTACA 58.724 43.478 0.00 0.00 0.00 2.90
2871 4034 4.894114 ACTATTTCCTCCTGCTACGTACAT 59.106 41.667 0.00 0.00 0.00 2.29
2872 4035 4.755266 ATTTCCTCCTGCTACGTACATT 57.245 40.909 0.00 0.00 0.00 2.71
2873 4036 3.795623 TTCCTCCTGCTACGTACATTC 57.204 47.619 0.00 0.00 0.00 2.67
2874 4037 2.730382 TCCTCCTGCTACGTACATTCA 58.270 47.619 0.00 0.00 0.00 2.57
2892 4055 4.817634 TGCACTGTGGCTTGCATA 57.182 50.000 10.21 0.00 43.79 3.14
2899 4062 3.561310 CACTGTGGCTTGCATATATCGTT 59.439 43.478 0.00 0.00 0.00 3.85
2910 4073 3.494626 GCATATATCGTTGTGTGGTCCAG 59.505 47.826 0.00 0.00 0.00 3.86
2961 4156 2.380064 TTGCAATTGGAGACCAACCT 57.620 45.000 7.72 0.00 46.95 3.50
2976 4171 3.625897 CCTCCCACACCTCGCACA 61.626 66.667 0.00 0.00 0.00 4.57
2977 4172 2.665000 CTCCCACACCTCGCACAT 59.335 61.111 0.00 0.00 0.00 3.21
2978 4173 1.448540 CTCCCACACCTCGCACATC 60.449 63.158 0.00 0.00 0.00 3.06
2979 4174 2.171209 CTCCCACACCTCGCACATCA 62.171 60.000 0.00 0.00 0.00 3.07
2980 4175 1.742880 CCCACACCTCGCACATCAG 60.743 63.158 0.00 0.00 0.00 2.90
2996 4191 2.024176 TCAGCCTCCCAACAACTCTA 57.976 50.000 0.00 0.00 0.00 2.43
3003 4198 4.780815 CCTCCCAACAACTCTATATGCAA 58.219 43.478 0.00 0.00 0.00 4.08
3008 4203 4.096382 CCAACAACTCTATATGCAACCACC 59.904 45.833 0.00 0.00 0.00 4.61
3014 4209 7.779798 ACAACTCTATATGCAACCACCAATTAT 59.220 33.333 0.00 0.00 0.00 1.28
3023 4456 5.305644 TGCAACCACCAATTATAACAAAGGT 59.694 36.000 0.00 0.00 0.00 3.50
3055 4488 7.250445 TGATCAATCGTCCACTTTATCATTG 57.750 36.000 0.00 0.00 0.00 2.82
3066 4507 5.398353 CCACTTTATCATTGGACCAGGAGAT 60.398 44.000 0.00 2.65 31.39 2.75
3081 4523 7.998964 GGACCAGGAGATATCCTTTTTGAATAA 59.001 37.037 6.04 0.00 38.22 1.40
3082 4524 8.753497 ACCAGGAGATATCCTTTTTGAATAAC 57.247 34.615 6.04 0.00 38.22 1.89
3112 4557 8.242729 ACAATCTAATCAATGGAGATTTTCCC 57.757 34.615 0.00 0.00 46.19 3.97
3117 4562 6.973460 AATCAATGGAGATTTTCCCATCTC 57.027 37.500 2.57 2.57 46.19 2.75
3118 4563 5.722172 TCAATGGAGATTTTCCCATCTCT 57.278 39.130 9.90 0.00 46.02 3.10
3124 4569 4.040339 GGAGATTTTCCCATCTCTCTCTCC 59.960 50.000 9.90 0.00 46.02 3.71
3125 4570 3.973305 AGATTTTCCCATCTCTCTCTCCC 59.027 47.826 0.00 0.00 0.00 4.30
3126 4571 3.498614 TTTTCCCATCTCTCTCTCCCT 57.501 47.619 0.00 0.00 0.00 4.20
3127 4572 2.765689 TTCCCATCTCTCTCTCCCTC 57.234 55.000 0.00 0.00 0.00 4.30
3128 4573 0.856982 TCCCATCTCTCTCTCCCTCC 59.143 60.000 0.00 0.00 0.00 4.30
3129 4574 0.178935 CCCATCTCTCTCTCCCTCCC 60.179 65.000 0.00 0.00 0.00 4.30
3130 4575 0.859760 CCATCTCTCTCTCCCTCCCT 59.140 60.000 0.00 0.00 0.00 4.20
3131 4576 1.220236 CCATCTCTCTCTCCCTCCCTT 59.780 57.143 0.00 0.00 0.00 3.95
3132 4577 2.360209 CCATCTCTCTCTCCCTCCCTTT 60.360 54.545 0.00 0.00 0.00 3.11
3133 4578 2.838637 TCTCTCTCTCCCTCCCTTTC 57.161 55.000 0.00 0.00 0.00 2.62
3134 4579 2.293246 TCTCTCTCTCCCTCCCTTTCT 58.707 52.381 0.00 0.00 0.00 2.52
3135 4580 2.243736 TCTCTCTCTCCCTCCCTTTCTC 59.756 54.545 0.00 0.00 0.00 2.87
3136 4581 2.244769 CTCTCTCTCCCTCCCTTTCTCT 59.755 54.545 0.00 0.00 0.00 3.10
3137 4582 2.243736 TCTCTCTCCCTCCCTTTCTCTC 59.756 54.545 0.00 0.00 0.00 3.20
3138 4583 1.289530 TCTCTCCCTCCCTTTCTCTCC 59.710 57.143 0.00 0.00 0.00 3.71
3139 4584 1.290732 CTCTCCCTCCCTTTCTCTCCT 59.709 57.143 0.00 0.00 0.00 3.69
3140 4585 1.007721 TCTCCCTCCCTTTCTCTCCTG 59.992 57.143 0.00 0.00 0.00 3.86
3141 4586 0.618968 TCCCTCCCTTTCTCTCCTGC 60.619 60.000 0.00 0.00 0.00 4.85
3142 4587 1.519719 CCTCCCTTTCTCTCCTGCG 59.480 63.158 0.00 0.00 0.00 5.18
3143 4588 0.972983 CCTCCCTTTCTCTCCTGCGA 60.973 60.000 0.00 0.00 0.00 5.10
3144 4589 0.459489 CTCCCTTTCTCTCCTGCGAG 59.541 60.000 0.00 0.00 37.48 5.03
3145 4590 0.972983 TCCCTTTCTCTCCTGCGAGG 60.973 60.000 0.00 0.00 36.70 4.63
3146 4591 1.153469 CCTTTCTCTCCTGCGAGGC 60.153 63.158 0.00 0.00 36.70 4.70
3147 4592 1.153469 CTTTCTCTCCTGCGAGGCC 60.153 63.158 0.00 0.00 36.70 5.19
3148 4593 1.892819 CTTTCTCTCCTGCGAGGCCA 61.893 60.000 5.01 0.00 36.70 5.36
3149 4594 1.480212 TTTCTCTCCTGCGAGGCCAA 61.480 55.000 5.01 0.00 36.70 4.52
3150 4595 1.480212 TTCTCTCCTGCGAGGCCAAA 61.480 55.000 5.01 0.00 36.70 3.28
3151 4596 1.003355 CTCTCCTGCGAGGCCAAAA 60.003 57.895 5.01 0.00 36.70 2.44
3152 4597 1.301677 CTCTCCTGCGAGGCCAAAAC 61.302 60.000 5.01 0.00 36.70 2.43
3153 4598 1.600636 CTCCTGCGAGGCCAAAACA 60.601 57.895 5.01 0.00 34.61 2.83
3154 4599 1.580845 CTCCTGCGAGGCCAAAACAG 61.581 60.000 5.01 6.82 34.61 3.16
3155 4600 1.600636 CCTGCGAGGCCAAAACAGA 60.601 57.895 5.01 0.00 0.00 3.41
3156 4601 0.962356 CCTGCGAGGCCAAAACAGAT 60.962 55.000 5.01 0.00 0.00 2.90
3157 4602 1.678728 CCTGCGAGGCCAAAACAGATA 60.679 52.381 5.01 0.00 0.00 1.98
3158 4603 1.667724 CTGCGAGGCCAAAACAGATAG 59.332 52.381 5.01 0.00 0.00 2.08
3159 4604 1.003118 TGCGAGGCCAAAACAGATAGT 59.997 47.619 5.01 0.00 0.00 2.12
3160 4605 1.666189 GCGAGGCCAAAACAGATAGTC 59.334 52.381 5.01 0.00 0.00 2.59
3161 4606 2.678190 GCGAGGCCAAAACAGATAGTCT 60.678 50.000 5.01 0.00 0.00 3.24
3162 4607 3.600388 CGAGGCCAAAACAGATAGTCTT 58.400 45.455 5.01 0.00 0.00 3.01
3163 4608 3.619038 CGAGGCCAAAACAGATAGTCTTC 59.381 47.826 5.01 0.00 0.00 2.87
3164 4609 4.579869 GAGGCCAAAACAGATAGTCTTCA 58.420 43.478 5.01 0.00 0.00 3.02
3165 4610 4.985538 AGGCCAAAACAGATAGTCTTCAA 58.014 39.130 5.01 0.00 0.00 2.69
3166 4611 5.385198 AGGCCAAAACAGATAGTCTTCAAA 58.615 37.500 5.01 0.00 0.00 2.69
3167 4612 5.833131 AGGCCAAAACAGATAGTCTTCAAAA 59.167 36.000 5.01 0.00 0.00 2.44
3168 4613 6.494835 AGGCCAAAACAGATAGTCTTCAAAAT 59.505 34.615 5.01 0.00 0.00 1.82
3169 4614 6.587608 GGCCAAAACAGATAGTCTTCAAAATG 59.412 38.462 0.00 0.00 0.00 2.32
3170 4615 7.370383 GCCAAAACAGATAGTCTTCAAAATGA 58.630 34.615 0.00 0.00 0.00 2.57
3171 4616 8.031277 GCCAAAACAGATAGTCTTCAAAATGAT 58.969 33.333 0.00 0.00 0.00 2.45
3175 4620 9.965902 AAACAGATAGTCTTCAAAATGATAGGT 57.034 29.630 0.00 0.00 0.00 3.08
3183 4628 9.178758 AGTCTTCAAAATGATAGGTATTTCCAC 57.821 33.333 0.00 0.00 39.02 4.02
3184 4629 8.406297 GTCTTCAAAATGATAGGTATTTCCACC 58.594 37.037 0.00 0.00 39.02 4.61
3185 4630 6.935741 TCAAAATGATAGGTATTTCCACCG 57.064 37.500 0.00 0.00 43.84 4.94
3186 4631 5.298276 TCAAAATGATAGGTATTTCCACCGC 59.702 40.000 0.00 0.00 43.84 5.68
3187 4632 4.431416 AATGATAGGTATTTCCACCGCA 57.569 40.909 0.00 0.00 43.84 5.69
3188 4633 3.916359 TGATAGGTATTTCCACCGCAA 57.084 42.857 0.00 0.00 43.84 4.85
3189 4634 4.223556 TGATAGGTATTTCCACCGCAAA 57.776 40.909 0.00 0.00 43.84 3.68
3190 4635 4.590918 TGATAGGTATTTCCACCGCAAAA 58.409 39.130 0.00 0.00 43.84 2.44
3191 4636 5.010933 TGATAGGTATTTCCACCGCAAAAA 58.989 37.500 0.00 0.00 43.84 1.94
3217 4662 9.613428 AAAGAAAATGAAACCTTTTAGAAAGGG 57.387 29.630 20.21 11.07 41.71 3.95
3218 4663 8.547481 AGAAAATGAAACCTTTTAGAAAGGGA 57.453 30.769 20.21 5.24 41.71 4.20
3219 4664 8.988060 AGAAAATGAAACCTTTTAGAAAGGGAA 58.012 29.630 20.21 6.34 41.71 3.97
3220 4665 9.607988 GAAAATGAAACCTTTTAGAAAGGGAAA 57.392 29.630 20.21 6.62 41.71 3.13
3221 4666 9.967451 AAAATGAAACCTTTTAGAAAGGGAAAA 57.033 25.926 20.21 6.92 41.71 2.29
3229 4674 9.822727 ACCTTTTAGAAAGGGAAAATATTCTGA 57.177 29.630 20.21 0.00 41.71 3.27
3234 4679 7.888250 AGAAAGGGAAAATATTCTGATCACC 57.112 36.000 0.00 0.00 35.79 4.02
3235 4680 6.836007 AGAAAGGGAAAATATTCTGATCACCC 59.164 38.462 4.46 4.46 35.79 4.61
3236 4681 4.718961 AGGGAAAATATTCTGATCACCCG 58.281 43.478 6.60 0.00 39.67 5.28
3237 4682 4.412199 AGGGAAAATATTCTGATCACCCGA 59.588 41.667 6.60 0.00 39.67 5.14
3238 4683 5.073691 AGGGAAAATATTCTGATCACCCGAT 59.926 40.000 6.60 0.00 39.67 4.18
3239 4684 6.272324 AGGGAAAATATTCTGATCACCCGATA 59.728 38.462 6.60 0.00 39.67 2.92
3240 4685 6.595716 GGGAAAATATTCTGATCACCCGATAG 59.404 42.308 0.00 0.00 35.79 2.08
3241 4686 7.386851 GGAAAATATTCTGATCACCCGATAGA 58.613 38.462 0.00 0.00 35.79 1.98
3242 4687 8.043710 GGAAAATATTCTGATCACCCGATAGAT 58.956 37.037 0.00 0.00 35.79 1.98
3243 4688 9.092876 GAAAATATTCTGATCACCCGATAGATC 57.907 37.037 0.00 0.00 40.75 2.75
3244 4689 6.723298 ATATTCTGATCACCCGATAGATCC 57.277 41.667 0.00 0.00 39.86 3.36
3245 4690 2.808919 TCTGATCACCCGATAGATCCC 58.191 52.381 0.00 0.00 39.86 3.85
3246 4691 2.110011 TCTGATCACCCGATAGATCCCA 59.890 50.000 0.00 0.00 39.86 4.37
3247 4692 2.232452 CTGATCACCCGATAGATCCCAC 59.768 54.545 0.00 0.00 39.86 4.61
3248 4693 2.248248 GATCACCCGATAGATCCCACA 58.752 52.381 0.00 0.00 35.69 4.17
3249 4694 1.410004 TCACCCGATAGATCCCACAC 58.590 55.000 0.00 0.00 39.76 3.82
3250 4695 1.063190 TCACCCGATAGATCCCACACT 60.063 52.381 0.00 0.00 39.76 3.55
3251 4696 2.176148 TCACCCGATAGATCCCACACTA 59.824 50.000 0.00 0.00 39.76 2.74
3252 4697 2.963101 CACCCGATAGATCCCACACTAA 59.037 50.000 0.00 0.00 39.76 2.24
3253 4698 3.386726 CACCCGATAGATCCCACACTAAA 59.613 47.826 0.00 0.00 39.76 1.85
3254 4699 4.035112 ACCCGATAGATCCCACACTAAAA 58.965 43.478 0.00 0.00 39.76 1.52
3255 4700 4.101119 ACCCGATAGATCCCACACTAAAAG 59.899 45.833 0.00 0.00 39.76 2.27
3256 4701 4.101119 CCCGATAGATCCCACACTAAAAGT 59.899 45.833 0.00 0.00 39.76 2.66
3257 4702 5.290386 CCGATAGATCCCACACTAAAAGTC 58.710 45.833 0.00 0.00 39.76 3.01
3258 4703 5.290386 CGATAGATCCCACACTAAAAGTCC 58.710 45.833 0.00 0.00 39.76 3.85
3259 4704 5.163447 CGATAGATCCCACACTAAAAGTCCA 60.163 44.000 0.00 0.00 39.76 4.02
3260 4705 4.287766 AGATCCCACACTAAAAGTCCAC 57.712 45.455 0.00 0.00 0.00 4.02
3261 4706 2.943036 TCCCACACTAAAAGTCCACC 57.057 50.000 0.00 0.00 0.00 4.61
3262 4707 1.071071 TCCCACACTAAAAGTCCACCG 59.929 52.381 0.00 0.00 0.00 4.94
3263 4708 0.872388 CCACACTAAAAGTCCACCGC 59.128 55.000 0.00 0.00 0.00 5.68
3264 4709 0.872388 CACACTAAAAGTCCACCGCC 59.128 55.000 0.00 0.00 0.00 6.13
3265 4710 0.763035 ACACTAAAAGTCCACCGCCT 59.237 50.000 0.00 0.00 0.00 5.52
3266 4711 1.142262 ACACTAAAAGTCCACCGCCTT 59.858 47.619 0.00 0.00 0.00 4.35
3267 4712 1.804748 CACTAAAAGTCCACCGCCTTC 59.195 52.381 0.00 0.00 0.00 3.46
3268 4713 1.271217 ACTAAAAGTCCACCGCCTTCC 60.271 52.381 0.00 0.00 0.00 3.46
3269 4714 0.037160 TAAAAGTCCACCGCCTTCCC 59.963 55.000 0.00 0.00 0.00 3.97
3270 4715 1.716028 AAAAGTCCACCGCCTTCCCT 61.716 55.000 0.00 0.00 0.00 4.20
3271 4716 0.838987 AAAGTCCACCGCCTTCCCTA 60.839 55.000 0.00 0.00 0.00 3.53
3272 4717 0.620700 AAGTCCACCGCCTTCCCTAT 60.621 55.000 0.00 0.00 0.00 2.57
3273 4718 1.146263 GTCCACCGCCTTCCCTATG 59.854 63.158 0.00 0.00 0.00 2.23
3274 4719 2.203209 CCACCGCCTTCCCTATGC 60.203 66.667 0.00 0.00 0.00 3.14
3276 4721 4.547367 ACCGCCTTCCCTATGCGC 62.547 66.667 0.00 0.00 46.50 6.09
3278 4723 4.545706 CGCCTTCCCTATGCGCCA 62.546 66.667 4.18 0.00 41.95 5.69
3279 4724 2.902343 GCCTTCCCTATGCGCCAC 60.902 66.667 4.18 0.00 0.00 5.01
3280 4725 2.588877 CCTTCCCTATGCGCCACG 60.589 66.667 4.18 0.00 0.00 4.94
3281 4726 2.186903 CTTCCCTATGCGCCACGT 59.813 61.111 4.18 0.00 0.00 4.49
3282 4727 2.125310 TTCCCTATGCGCCACGTG 60.125 61.111 9.08 9.08 0.00 4.49
3283 4728 4.830765 TCCCTATGCGCCACGTGC 62.831 66.667 10.91 4.89 39.75 5.34
3287 4732 4.481617 TATGCGCCACGTGCCCAT 62.482 61.111 10.91 13.58 41.31 4.00
3295 4740 3.471620 ACGTGCCCATGTGAGTCT 58.528 55.556 0.00 0.00 0.00 3.24
3296 4741 1.004560 ACGTGCCCATGTGAGTCTG 60.005 57.895 0.00 0.00 0.00 3.51
3297 4742 2.393768 CGTGCCCATGTGAGTCTGC 61.394 63.158 0.00 0.00 0.00 4.26
3298 4743 1.302752 GTGCCCATGTGAGTCTGCA 60.303 57.895 0.00 0.00 0.00 4.41
3299 4744 1.302752 TGCCCATGTGAGTCTGCAC 60.303 57.895 0.00 0.00 39.22 4.57
3300 4745 2.042831 GCCCATGTGAGTCTGCACC 61.043 63.158 0.00 0.00 37.99 5.01
3301 4746 1.376086 CCCATGTGAGTCTGCACCA 59.624 57.895 0.00 0.00 37.99 4.17
3302 4747 0.957395 CCCATGTGAGTCTGCACCAC 60.957 60.000 0.00 0.00 37.99 4.16
3303 4748 0.957395 CCATGTGAGTCTGCACCACC 60.957 60.000 0.00 0.00 37.99 4.61
3304 4749 1.004560 ATGTGAGTCTGCACCACCG 60.005 57.895 0.00 0.00 37.99 4.94
3305 4750 3.044305 GTGAGTCTGCACCACCGC 61.044 66.667 0.00 0.00 32.68 5.68
3306 4751 3.233980 TGAGTCTGCACCACCGCT 61.234 61.111 0.00 0.00 0.00 5.52
3307 4752 2.433318 GAGTCTGCACCACCGCTC 60.433 66.667 0.00 0.00 0.00 5.03
3308 4753 2.919856 AGTCTGCACCACCGCTCT 60.920 61.111 0.00 0.00 0.00 4.09
3309 4754 2.031163 GTCTGCACCACCGCTCTT 59.969 61.111 0.00 0.00 0.00 2.85
3310 4755 1.185618 AGTCTGCACCACCGCTCTTA 61.186 55.000 0.00 0.00 0.00 2.10
3311 4756 0.108138 GTCTGCACCACCGCTCTTAT 60.108 55.000 0.00 0.00 0.00 1.73
3312 4757 0.613260 TCTGCACCACCGCTCTTATT 59.387 50.000 0.00 0.00 0.00 1.40
3313 4758 1.003118 TCTGCACCACCGCTCTTATTT 59.997 47.619 0.00 0.00 0.00 1.40
3314 4759 1.812571 CTGCACCACCGCTCTTATTTT 59.187 47.619 0.00 0.00 0.00 1.82
3315 4760 2.228822 CTGCACCACCGCTCTTATTTTT 59.771 45.455 0.00 0.00 0.00 1.94
3316 4761 2.227865 TGCACCACCGCTCTTATTTTTC 59.772 45.455 0.00 0.00 0.00 2.29
3317 4762 2.415491 GCACCACCGCTCTTATTTTTCC 60.415 50.000 0.00 0.00 0.00 3.13
3318 4763 3.081804 CACCACCGCTCTTATTTTTCCT 58.918 45.455 0.00 0.00 0.00 3.36
3319 4764 3.506067 CACCACCGCTCTTATTTTTCCTT 59.494 43.478 0.00 0.00 0.00 3.36
3320 4765 4.698304 CACCACCGCTCTTATTTTTCCTTA 59.302 41.667 0.00 0.00 0.00 2.69
3321 4766 5.357032 CACCACCGCTCTTATTTTTCCTTAT 59.643 40.000 0.00 0.00 0.00 1.73
3322 4767 5.589050 ACCACCGCTCTTATTTTTCCTTATC 59.411 40.000 0.00 0.00 0.00 1.75
3323 4768 5.823045 CCACCGCTCTTATTTTTCCTTATCT 59.177 40.000 0.00 0.00 0.00 1.98
3324 4769 6.017852 CCACCGCTCTTATTTTTCCTTATCTC 60.018 42.308 0.00 0.00 0.00 2.75
3325 4770 6.017852 CACCGCTCTTATTTTTCCTTATCTCC 60.018 42.308 0.00 0.00 0.00 3.71
3326 4771 6.055588 CCGCTCTTATTTTTCCTTATCTCCA 58.944 40.000 0.00 0.00 0.00 3.86
3327 4772 6.542370 CCGCTCTTATTTTTCCTTATCTCCAA 59.458 38.462 0.00 0.00 0.00 3.53
3328 4773 7.254932 CCGCTCTTATTTTTCCTTATCTCCAAG 60.255 40.741 0.00 0.00 0.00 3.61
3329 4774 7.254932 CGCTCTTATTTTTCCTTATCTCCAAGG 60.255 40.741 0.00 0.00 45.59 3.61
3336 4781 2.827652 CCTTATCTCCAAGGAAGCGAC 58.172 52.381 0.00 0.00 46.94 5.19
3337 4782 2.483889 CCTTATCTCCAAGGAAGCGACC 60.484 54.545 0.00 0.00 46.94 4.79
3338 4783 1.120530 TATCTCCAAGGAAGCGACCC 58.879 55.000 0.00 0.00 0.00 4.46
3339 4784 1.627297 ATCTCCAAGGAAGCGACCCC 61.627 60.000 0.00 0.00 0.00 4.95
3340 4785 2.528127 TCCAAGGAAGCGACCCCA 60.528 61.111 0.00 0.00 0.00 4.96
3341 4786 1.915078 CTCCAAGGAAGCGACCCCAT 61.915 60.000 0.00 0.00 0.00 4.00
3342 4787 1.452108 CCAAGGAAGCGACCCCATC 60.452 63.158 0.00 0.00 0.00 3.51
3343 4788 1.452108 CAAGGAAGCGACCCCATCC 60.452 63.158 0.00 0.00 0.00 3.51
3344 4789 1.923395 AAGGAAGCGACCCCATCCA 60.923 57.895 0.00 0.00 34.30 3.41
3345 4790 2.124695 GGAAGCGACCCCATCCAC 60.125 66.667 0.00 0.00 32.08 4.02
3346 4791 2.668632 GAAGCGACCCCATCCACA 59.331 61.111 0.00 0.00 0.00 4.17
3347 4792 1.224592 GAAGCGACCCCATCCACAT 59.775 57.895 0.00 0.00 0.00 3.21
3348 4793 0.815615 GAAGCGACCCCATCCACATC 60.816 60.000 0.00 0.00 0.00 3.06
3349 4794 1.274703 AAGCGACCCCATCCACATCT 61.275 55.000 0.00 0.00 0.00 2.90
3350 4795 1.227674 GCGACCCCATCCACATCTC 60.228 63.158 0.00 0.00 0.00 2.75
3351 4796 1.447643 CGACCCCATCCACATCTCC 59.552 63.158 0.00 0.00 0.00 3.71
3352 4797 1.050988 CGACCCCATCCACATCTCCT 61.051 60.000 0.00 0.00 0.00 3.69
3353 4798 1.216990 GACCCCATCCACATCTCCTT 58.783 55.000 0.00 0.00 0.00 3.36
3354 4799 1.141858 GACCCCATCCACATCTCCTTC 59.858 57.143 0.00 0.00 0.00 3.46
3355 4800 0.475906 CCCCATCCACATCTCCTTCC 59.524 60.000 0.00 0.00 0.00 3.46
3356 4801 0.475906 CCCATCCACATCTCCTTCCC 59.524 60.000 0.00 0.00 0.00 3.97
3357 4802 0.475906 CCATCCACATCTCCTTCCCC 59.524 60.000 0.00 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 7.307493 TCTTGTTACTTATGTGTGATCATGC 57.693 36.000 0.00 0.00 0.00 4.06
216 217 9.847224 TTATCTATCACGCCATCTATACTATGA 57.153 33.333 0.00 0.00 0.00 2.15
388 392 4.746729 CAAGCTAATGCATGCAAGGTAAA 58.253 39.130 26.68 0.00 42.74 2.01
454 628 5.701855 TGTGCATACAGTGACATCATTTTG 58.298 37.500 0.00 0.00 31.91 2.44
862 1875 1.133407 GATCTCTGACGGCGAGACTTT 59.867 52.381 16.62 0.60 40.07 2.66
894 1907 3.243839 TGTTTTTCTGGATCTTGCCAAGC 60.244 43.478 0.00 0.00 37.52 4.01
902 1915 5.242393 CACCATTGAGTGTTTTTCTGGATCT 59.758 40.000 0.00 0.00 32.89 2.75
975 2014 4.846779 TTTGTAGTCTCAATTTGGGCAC 57.153 40.909 0.00 0.00 0.00 5.01
1026 2073 0.458260 GAAGTGTTGGCGGTTGGTTT 59.542 50.000 0.00 0.00 0.00 3.27
1031 2078 0.958822 GAATGGAAGTGTTGGCGGTT 59.041 50.000 0.00 0.00 0.00 4.44
1097 2144 1.477700 CACAGAGGAGGAGAAGAGCAG 59.522 57.143 0.00 0.00 0.00 4.24
1370 2417 1.980232 TAGGCGGCCTTGAACTCGA 60.980 57.895 29.02 2.77 34.61 4.04
1431 2478 0.526662 CGTCCTCGTACCTGAAGCTT 59.473 55.000 0.00 0.00 0.00 3.74
1695 2742 3.702048 TGTAGCCCGCCACTGGAC 61.702 66.667 0.00 0.00 0.00 4.02
1780 2827 2.125512 GCTGATCGTCACCGCCTT 60.126 61.111 0.00 0.00 0.00 4.35
1956 3006 1.415289 CATAGTCTGATGCAGAGGCCA 59.585 52.381 5.01 0.00 41.46 5.36
2065 3129 2.749621 AGATTGAAATCCAACGTGAGGC 59.250 45.455 2.51 0.00 37.63 4.70
2374 3521 2.172082 TCTTCAATCCTCTGGATGCAGG 59.828 50.000 14.84 5.13 42.27 4.85
2463 3613 4.798574 CGAAAGGAACCATTGAGAAAAGG 58.201 43.478 0.00 0.00 0.00 3.11
2491 3643 0.032815 TTCAGTCCATGTTCGTCGCA 59.967 50.000 0.00 0.00 0.00 5.10
2492 3644 1.144969 TTTCAGTCCATGTTCGTCGC 58.855 50.000 0.00 0.00 0.00 5.19
2549 3701 3.120060 GCATAAGTTGACAAGACCAGCTG 60.120 47.826 6.78 6.78 0.00 4.24
2552 3704 4.318332 TCAGCATAAGTTGACAAGACCAG 58.682 43.478 0.00 0.00 29.40 4.00
2554 3706 4.515191 TGTTCAGCATAAGTTGACAAGACC 59.485 41.667 0.00 0.00 34.53 3.85
2563 3715 6.488006 AGTTTCAGACATGTTCAGCATAAGTT 59.512 34.615 0.00 0.00 35.74 2.66
2564 3716 6.000219 AGTTTCAGACATGTTCAGCATAAGT 59.000 36.000 0.00 0.00 35.74 2.24
2565 3717 6.492007 AGTTTCAGACATGTTCAGCATAAG 57.508 37.500 0.00 0.00 35.74 1.73
2566 3718 6.486320 TGAAGTTTCAGACATGTTCAGCATAA 59.514 34.615 0.00 0.00 32.83 1.90
2567 3719 5.997129 TGAAGTTTCAGACATGTTCAGCATA 59.003 36.000 0.00 0.00 32.83 3.14
2569 3721 4.198530 TGAAGTTTCAGACATGTTCAGCA 58.801 39.130 0.00 0.00 32.50 4.41
2570 3722 4.818534 TGAAGTTTCAGACATGTTCAGC 57.181 40.909 0.00 0.00 32.50 4.26
2582 3740 5.097742 TCACACTTTCCTCTGAAGTTTCA 57.902 39.130 0.00 0.00 35.26 2.69
2594 3754 1.599542 GTGCTCACACTCACACTTTCC 59.400 52.381 0.00 0.00 43.85 3.13
2638 3798 3.572255 GGTGTCCTTCCAAAACATGCTAA 59.428 43.478 0.00 0.00 0.00 3.09
2641 3801 1.335872 CGGTGTCCTTCCAAAACATGC 60.336 52.381 0.00 0.00 0.00 4.06
2651 3814 0.037734 AATTGGTCCCGGTGTCCTTC 59.962 55.000 0.00 0.00 0.00 3.46
2674 3837 9.807649 CCTCCTTATTAATTTTCCAGAACATTG 57.192 33.333 0.00 0.00 0.00 2.82
2690 3853 6.894103 ACCGAAGTTTCTAGACCTCCTTATTA 59.106 38.462 0.00 0.00 0.00 0.98
2698 3861 3.236896 TCCAACCGAAGTTTCTAGACCT 58.763 45.455 0.00 0.00 32.45 3.85
2732 3895 2.700773 GGTTTGGGCCGACATGCTC 61.701 63.158 11.35 0.00 0.00 4.26
2743 3906 2.301009 AGAACAGTACGGTAGGTTTGGG 59.699 50.000 0.00 0.00 0.00 4.12
2747 3910 4.097589 GCAGATAGAACAGTACGGTAGGTT 59.902 45.833 0.00 5.18 0.00 3.50
2811 3974 0.817634 TGGGGTTTCAGTTCAGTGCG 60.818 55.000 0.00 0.00 0.00 5.34
2860 4023 2.929398 CAGTGCATGAATGTACGTAGCA 59.071 45.455 0.00 0.00 46.13 3.49
2861 4024 2.930040 ACAGTGCATGAATGTACGTAGC 59.070 45.455 0.00 0.00 46.13 3.58
2862 4025 3.306973 CCACAGTGCATGAATGTACGTAG 59.693 47.826 0.00 3.84 46.13 3.51
2863 4026 3.258228 CCACAGTGCATGAATGTACGTA 58.742 45.455 0.00 0.00 46.13 3.57
2864 4027 2.076100 CCACAGTGCATGAATGTACGT 58.924 47.619 0.00 0.00 46.13 3.57
2865 4028 1.202065 GCCACAGTGCATGAATGTACG 60.202 52.381 0.00 4.49 46.13 3.67
2866 4029 2.086869 AGCCACAGTGCATGAATGTAC 58.913 47.619 0.00 3.59 42.66 2.90
2867 4030 2.488937 CAAGCCACAGTGCATGAATGTA 59.511 45.455 0.00 0.00 31.88 2.29
2868 4031 1.271379 CAAGCCACAGTGCATGAATGT 59.729 47.619 0.00 0.00 31.88 2.71
2869 4032 1.990799 CAAGCCACAGTGCATGAATG 58.009 50.000 0.00 0.00 31.88 2.67
2870 4033 0.245539 GCAAGCCACAGTGCATGAAT 59.754 50.000 0.00 0.00 40.58 2.57
2871 4034 1.108132 TGCAAGCCACAGTGCATGAA 61.108 50.000 0.00 0.00 45.52 2.57
2872 4035 1.528776 TGCAAGCCACAGTGCATGA 60.529 52.632 0.00 0.00 45.52 3.07
2873 4036 3.044280 TGCAAGCCACAGTGCATG 58.956 55.556 0.00 0.00 45.52 4.06
2892 4055 1.277842 TGCTGGACCACACAACGATAT 59.722 47.619 0.00 0.00 0.00 1.63
2899 4062 0.177836 CCGATATGCTGGACCACACA 59.822 55.000 0.00 0.00 0.00 3.72
2910 4073 1.359848 CTACCCAATCGCCGATATGC 58.640 55.000 0.00 0.00 0.00 3.14
2961 4156 2.171209 CTGATGTGCGAGGTGTGGGA 62.171 60.000 0.00 0.00 0.00 4.37
2976 4171 1.366319 AGAGTTGTTGGGAGGCTGAT 58.634 50.000 0.00 0.00 0.00 2.90
2977 4172 2.024176 TAGAGTTGTTGGGAGGCTGA 57.976 50.000 0.00 0.00 0.00 4.26
2978 4173 4.384056 CATATAGAGTTGTTGGGAGGCTG 58.616 47.826 0.00 0.00 0.00 4.85
2979 4174 3.181450 GCATATAGAGTTGTTGGGAGGCT 60.181 47.826 0.00 0.00 0.00 4.58
2980 4175 3.142174 GCATATAGAGTTGTTGGGAGGC 58.858 50.000 0.00 0.00 0.00 4.70
2996 4191 8.203485 CCTTTGTTATAATTGGTGGTTGCATAT 58.797 33.333 0.00 0.00 0.00 1.78
3003 4198 7.672239 ACATACACCTTTGTTATAATTGGTGGT 59.328 33.333 21.72 13.39 46.37 4.16
3014 4209 9.040939 CGATTGATCATACATACACCTTTGTTA 57.959 33.333 0.00 0.00 37.15 2.41
3023 4456 6.405278 AGTGGACGATTGATCATACATACA 57.595 37.500 0.00 0.00 0.00 2.29
3112 4557 2.773525 AAGGGAGGGAGAGAGAGATG 57.226 55.000 0.00 0.00 0.00 2.90
3117 4562 2.666317 GAGAGAAAGGGAGGGAGAGAG 58.334 57.143 0.00 0.00 0.00 3.20
3118 4563 1.289530 GGAGAGAAAGGGAGGGAGAGA 59.710 57.143 0.00 0.00 0.00 3.10
3124 4569 0.972983 TCGCAGGAGAGAAAGGGAGG 60.973 60.000 0.00 0.00 0.00 4.30
3125 4570 0.459489 CTCGCAGGAGAGAAAGGGAG 59.541 60.000 0.00 0.00 43.27 4.30
3126 4571 0.972983 CCTCGCAGGAGAGAAAGGGA 60.973 60.000 1.37 0.00 43.27 4.20
3127 4572 1.519719 CCTCGCAGGAGAGAAAGGG 59.480 63.158 1.37 0.00 43.27 3.95
3128 4573 1.153469 GCCTCGCAGGAGAGAAAGG 60.153 63.158 6.40 0.00 43.27 3.11
3129 4574 1.153469 GGCCTCGCAGGAGAGAAAG 60.153 63.158 0.00 0.00 43.27 2.62
3130 4575 1.480212 TTGGCCTCGCAGGAGAGAAA 61.480 55.000 3.32 0.00 43.27 2.52
3131 4576 1.480212 TTTGGCCTCGCAGGAGAGAA 61.480 55.000 3.32 0.00 43.27 2.87
3132 4577 1.480212 TTTTGGCCTCGCAGGAGAGA 61.480 55.000 3.32 0.00 43.27 3.10
3133 4578 1.003355 TTTTGGCCTCGCAGGAGAG 60.003 57.895 3.32 0.00 43.27 3.20
3134 4579 1.302511 GTTTTGGCCTCGCAGGAGA 60.303 57.895 3.32 0.00 43.27 3.71
3135 4580 1.580845 CTGTTTTGGCCTCGCAGGAG 61.581 60.000 3.32 0.00 37.67 3.69
3136 4581 1.600636 CTGTTTTGGCCTCGCAGGA 60.601 57.895 3.32 0.00 37.67 3.86
3137 4582 0.962356 ATCTGTTTTGGCCTCGCAGG 60.962 55.000 3.32 0.00 38.80 4.85
3138 4583 1.667724 CTATCTGTTTTGGCCTCGCAG 59.332 52.381 3.32 7.55 0.00 5.18
3139 4584 1.003118 ACTATCTGTTTTGGCCTCGCA 59.997 47.619 3.32 0.00 0.00 5.10
3140 4585 1.666189 GACTATCTGTTTTGGCCTCGC 59.334 52.381 3.32 0.00 0.00 5.03
3141 4586 3.252974 AGACTATCTGTTTTGGCCTCG 57.747 47.619 3.32 0.00 0.00 4.63
3142 4587 4.579869 TGAAGACTATCTGTTTTGGCCTC 58.420 43.478 3.32 0.00 0.00 4.70
3143 4588 4.640771 TGAAGACTATCTGTTTTGGCCT 57.359 40.909 3.32 0.00 0.00 5.19
3144 4589 5.705609 TTTGAAGACTATCTGTTTTGGCC 57.294 39.130 0.00 0.00 0.00 5.36
3145 4590 7.370383 TCATTTTGAAGACTATCTGTTTTGGC 58.630 34.615 0.00 0.00 0.00 4.52
3149 4594 9.965902 ACCTATCATTTTGAAGACTATCTGTTT 57.034 29.630 0.00 0.00 0.00 2.83
3157 4602 9.178758 GTGGAAATACCTATCATTTTGAAGACT 57.821 33.333 0.00 0.00 39.86 3.24
3158 4603 8.406297 GGTGGAAATACCTATCATTTTGAAGAC 58.594 37.037 0.00 0.00 37.74 3.01
3159 4604 7.282224 CGGTGGAAATACCTATCATTTTGAAGA 59.718 37.037 0.00 0.00 38.62 2.87
3160 4605 7.417612 CGGTGGAAATACCTATCATTTTGAAG 58.582 38.462 0.00 0.00 38.62 3.02
3161 4606 6.183360 GCGGTGGAAATACCTATCATTTTGAA 60.183 38.462 0.00 0.00 38.62 2.69
3162 4607 5.298276 GCGGTGGAAATACCTATCATTTTGA 59.702 40.000 0.00 0.00 38.62 2.69
3163 4608 5.067153 TGCGGTGGAAATACCTATCATTTTG 59.933 40.000 0.00 0.00 38.62 2.44
3164 4609 5.197451 TGCGGTGGAAATACCTATCATTTT 58.803 37.500 0.00 0.00 38.62 1.82
3165 4610 4.787551 TGCGGTGGAAATACCTATCATTT 58.212 39.130 0.00 0.00 38.62 2.32
3166 4611 4.431416 TGCGGTGGAAATACCTATCATT 57.569 40.909 0.00 0.00 38.62 2.57
3167 4612 4.431416 TTGCGGTGGAAATACCTATCAT 57.569 40.909 0.00 0.00 38.62 2.45
3168 4613 3.916359 TTGCGGTGGAAATACCTATCA 57.084 42.857 0.00 0.00 38.62 2.15
3169 4614 5.570234 TTTTTGCGGTGGAAATACCTATC 57.430 39.130 0.00 0.00 38.62 2.08
3191 4636 9.613428 CCCTTTCTAAAAGGTTTCATTTTCTTT 57.387 29.630 15.41 0.00 35.65 2.52
3192 4637 8.988060 TCCCTTTCTAAAAGGTTTCATTTTCTT 58.012 29.630 15.41 0.00 35.65 2.52
3193 4638 8.547481 TCCCTTTCTAAAAGGTTTCATTTTCT 57.453 30.769 15.41 0.00 35.65 2.52
3194 4639 9.607988 TTTCCCTTTCTAAAAGGTTTCATTTTC 57.392 29.630 15.41 0.00 35.65 2.29
3195 4640 9.967451 TTTTCCCTTTCTAAAAGGTTTCATTTT 57.033 25.926 15.41 0.00 35.65 1.82
3203 4648 9.822727 TCAGAATATTTTCCCTTTCTAAAAGGT 57.177 29.630 15.41 1.83 35.65 3.50
3208 4653 9.408648 GGTGATCAGAATATTTTCCCTTTCTAA 57.591 33.333 0.00 0.00 31.84 2.10
3209 4654 7.998964 GGGTGATCAGAATATTTTCCCTTTCTA 59.001 37.037 0.00 0.00 31.84 2.10
3210 4655 6.836007 GGGTGATCAGAATATTTTCCCTTTCT 59.164 38.462 0.00 0.00 31.84 2.52
3211 4656 6.238759 CGGGTGATCAGAATATTTTCCCTTTC 60.239 42.308 0.00 0.00 31.84 2.62
3212 4657 5.594317 CGGGTGATCAGAATATTTTCCCTTT 59.406 40.000 0.00 0.00 31.84 3.11
3213 4658 5.104109 TCGGGTGATCAGAATATTTTCCCTT 60.104 40.000 0.00 0.00 31.84 3.95
3214 4659 4.412199 TCGGGTGATCAGAATATTTTCCCT 59.588 41.667 0.00 0.00 31.84 4.20
3215 4660 4.714632 TCGGGTGATCAGAATATTTTCCC 58.285 43.478 0.00 0.00 31.84 3.97
3216 4661 7.386851 TCTATCGGGTGATCAGAATATTTTCC 58.613 38.462 0.00 0.00 35.99 3.13
3217 4662 9.092876 GATCTATCGGGTGATCAGAATATTTTC 57.907 37.037 0.00 0.00 38.97 2.29
3218 4663 8.043710 GGATCTATCGGGTGATCAGAATATTTT 58.956 37.037 0.00 0.00 40.41 1.82
3219 4664 7.365117 GGGATCTATCGGGTGATCAGAATATTT 60.365 40.741 0.00 0.00 40.41 1.40
3220 4665 6.098982 GGGATCTATCGGGTGATCAGAATATT 59.901 42.308 0.00 0.00 40.41 1.28
3221 4666 5.600484 GGGATCTATCGGGTGATCAGAATAT 59.400 44.000 0.00 0.00 40.41 1.28
3222 4667 4.956700 GGGATCTATCGGGTGATCAGAATA 59.043 45.833 0.00 0.00 40.41 1.75
3223 4668 3.772025 GGGATCTATCGGGTGATCAGAAT 59.228 47.826 0.00 0.00 40.41 2.40
3224 4669 3.165875 GGGATCTATCGGGTGATCAGAA 58.834 50.000 0.00 0.00 40.41 3.02
3225 4670 2.110011 TGGGATCTATCGGGTGATCAGA 59.890 50.000 0.00 0.00 40.41 3.27
3226 4671 2.232452 GTGGGATCTATCGGGTGATCAG 59.768 54.545 0.00 0.00 40.41 2.90
3227 4672 2.248248 GTGGGATCTATCGGGTGATCA 58.752 52.381 0.00 0.00 40.41 2.92
3228 4673 2.028930 GTGTGGGATCTATCGGGTGATC 60.029 54.545 0.00 0.00 38.56 2.92
3229 4674 1.971357 GTGTGGGATCTATCGGGTGAT 59.029 52.381 0.00 0.00 38.67 3.06
3230 4675 1.063190 AGTGTGGGATCTATCGGGTGA 60.063 52.381 0.00 0.00 0.00 4.02
3231 4676 1.414158 AGTGTGGGATCTATCGGGTG 58.586 55.000 0.00 0.00 0.00 4.61
3232 4677 3.323774 TTAGTGTGGGATCTATCGGGT 57.676 47.619 0.00 0.00 0.00 5.28
3233 4678 4.101119 ACTTTTAGTGTGGGATCTATCGGG 59.899 45.833 0.00 0.00 0.00 5.14
3234 4679 5.277857 ACTTTTAGTGTGGGATCTATCGG 57.722 43.478 0.00 0.00 0.00 4.18
3235 4680 5.163447 TGGACTTTTAGTGTGGGATCTATCG 60.163 44.000 0.00 0.00 0.00 2.92
3236 4681 6.049790 GTGGACTTTTAGTGTGGGATCTATC 58.950 44.000 0.00 0.00 0.00 2.08
3237 4682 5.104485 GGTGGACTTTTAGTGTGGGATCTAT 60.104 44.000 0.00 0.00 0.00 1.98
3238 4683 4.224370 GGTGGACTTTTAGTGTGGGATCTA 59.776 45.833 0.00 0.00 0.00 1.98
3239 4684 3.009143 GGTGGACTTTTAGTGTGGGATCT 59.991 47.826 0.00 0.00 0.00 2.75
3240 4685 3.344515 GGTGGACTTTTAGTGTGGGATC 58.655 50.000 0.00 0.00 0.00 3.36
3241 4686 2.290071 CGGTGGACTTTTAGTGTGGGAT 60.290 50.000 0.00 0.00 0.00 3.85
3242 4687 1.071071 CGGTGGACTTTTAGTGTGGGA 59.929 52.381 0.00 0.00 0.00 4.37
3243 4688 1.519408 CGGTGGACTTTTAGTGTGGG 58.481 55.000 0.00 0.00 0.00 4.61
3244 4689 0.872388 GCGGTGGACTTTTAGTGTGG 59.128 55.000 0.00 0.00 0.00 4.17
3245 4690 0.872388 GGCGGTGGACTTTTAGTGTG 59.128 55.000 0.00 0.00 0.00 3.82
3246 4691 0.763035 AGGCGGTGGACTTTTAGTGT 59.237 50.000 0.00 0.00 0.00 3.55
3247 4692 1.804748 GAAGGCGGTGGACTTTTAGTG 59.195 52.381 0.00 0.00 43.21 2.74
3248 4693 1.271217 GGAAGGCGGTGGACTTTTAGT 60.271 52.381 0.00 0.00 43.21 2.24
3249 4694 1.450025 GGAAGGCGGTGGACTTTTAG 58.550 55.000 0.00 0.00 43.21 1.85
3250 4695 0.037160 GGGAAGGCGGTGGACTTTTA 59.963 55.000 0.00 0.00 43.21 1.52
3251 4696 1.228459 GGGAAGGCGGTGGACTTTT 60.228 57.895 0.00 0.00 43.21 2.27
3252 4697 0.838987 TAGGGAAGGCGGTGGACTTT 60.839 55.000 0.00 0.00 43.21 2.66
3253 4698 0.620700 ATAGGGAAGGCGGTGGACTT 60.621 55.000 0.00 0.00 46.86 3.01
3254 4699 1.003051 ATAGGGAAGGCGGTGGACT 59.997 57.895 0.00 0.00 0.00 3.85
3255 4700 1.146263 CATAGGGAAGGCGGTGGAC 59.854 63.158 0.00 0.00 0.00 4.02
3256 4701 2.742116 GCATAGGGAAGGCGGTGGA 61.742 63.158 0.00 0.00 0.00 4.02
3257 4702 2.203209 GCATAGGGAAGGCGGTGG 60.203 66.667 0.00 0.00 0.00 4.61
3258 4703 2.588877 CGCATAGGGAAGGCGGTG 60.589 66.667 0.00 0.00 46.46 4.94
3262 4707 2.902343 GTGGCGCATAGGGAAGGC 60.902 66.667 10.83 0.00 0.00 4.35
3263 4708 2.588877 CGTGGCGCATAGGGAAGG 60.589 66.667 10.83 0.00 0.00 3.46
3264 4709 2.173669 CACGTGGCGCATAGGGAAG 61.174 63.158 10.83 0.00 0.00 3.46
3265 4710 2.125310 CACGTGGCGCATAGGGAA 60.125 61.111 10.83 0.00 0.00 3.97
3266 4711 4.830765 GCACGTGGCGCATAGGGA 62.831 66.667 18.88 0.00 0.00 4.20
3275 4720 3.434319 CTCACATGGGCACGTGGC 61.434 66.667 32.17 32.17 43.74 5.01
3276 4721 2.032528 ACTCACATGGGCACGTGG 59.967 61.111 18.88 2.06 37.94 4.94
3277 4722 1.004560 AGACTCACATGGGCACGTG 60.005 57.895 12.28 12.28 39.55 4.49
3278 4723 1.004560 CAGACTCACATGGGCACGT 60.005 57.895 0.00 0.00 0.00 4.49
3279 4724 2.393768 GCAGACTCACATGGGCACG 61.394 63.158 0.00 0.00 0.00 5.34
3280 4725 1.302752 TGCAGACTCACATGGGCAC 60.303 57.895 0.00 0.00 0.00 5.01
3281 4726 1.302752 GTGCAGACTCACATGGGCA 60.303 57.895 0.00 0.00 36.97 5.36
3282 4727 2.042831 GGTGCAGACTCACATGGGC 61.043 63.158 0.00 0.00 38.66 5.36
3283 4728 0.957395 GTGGTGCAGACTCACATGGG 60.957 60.000 0.00 0.00 38.66 4.00
3284 4729 0.957395 GGTGGTGCAGACTCACATGG 60.957 60.000 0.00 0.00 38.66 3.66
3285 4730 1.293963 CGGTGGTGCAGACTCACATG 61.294 60.000 10.28 0.00 38.66 3.21
3286 4731 1.004560 CGGTGGTGCAGACTCACAT 60.005 57.895 10.28 0.00 38.66 3.21
3287 4732 2.421314 CGGTGGTGCAGACTCACA 59.579 61.111 10.28 0.00 38.66 3.58
3288 4733 3.044305 GCGGTGGTGCAGACTCAC 61.044 66.667 0.00 0.00 36.28 3.51
3289 4734 3.226429 GAGCGGTGGTGCAGACTCA 62.226 63.158 0.00 0.00 37.31 3.41
3290 4735 2.433318 GAGCGGTGGTGCAGACTC 60.433 66.667 0.00 0.00 37.31 3.36
3291 4736 1.185618 TAAGAGCGGTGGTGCAGACT 61.186 55.000 0.00 0.00 37.31 3.24
3292 4737 0.108138 ATAAGAGCGGTGGTGCAGAC 60.108 55.000 0.00 0.00 37.31 3.51
3293 4738 0.613260 AATAAGAGCGGTGGTGCAGA 59.387 50.000 0.00 0.00 37.31 4.26
3294 4739 1.453155 AAATAAGAGCGGTGGTGCAG 58.547 50.000 0.00 0.00 37.31 4.41
3295 4740 1.904287 AAAATAAGAGCGGTGGTGCA 58.096 45.000 0.00 0.00 37.31 4.57
3296 4741 2.415491 GGAAAAATAAGAGCGGTGGTGC 60.415 50.000 0.00 0.00 0.00 5.01
3297 4742 3.081804 AGGAAAAATAAGAGCGGTGGTG 58.918 45.455 0.00 0.00 0.00 4.17
3298 4743 3.434940 AGGAAAAATAAGAGCGGTGGT 57.565 42.857 0.00 0.00 0.00 4.16
3299 4744 5.823045 AGATAAGGAAAAATAAGAGCGGTGG 59.177 40.000 0.00 0.00 0.00 4.61
3300 4745 6.017852 GGAGATAAGGAAAAATAAGAGCGGTG 60.018 42.308 0.00 0.00 0.00 4.94
3301 4746 6.056236 GGAGATAAGGAAAAATAAGAGCGGT 58.944 40.000 0.00 0.00 0.00 5.68
3302 4747 6.055588 TGGAGATAAGGAAAAATAAGAGCGG 58.944 40.000 0.00 0.00 0.00 5.52
3303 4748 7.553881 TTGGAGATAAGGAAAAATAAGAGCG 57.446 36.000 0.00 0.00 0.00 5.03
3316 4761 2.483889 GGTCGCTTCCTTGGAGATAAGG 60.484 54.545 0.00 0.00 46.94 2.69
3317 4762 2.483889 GGGTCGCTTCCTTGGAGATAAG 60.484 54.545 0.00 0.00 0.00 1.73
3318 4763 1.485066 GGGTCGCTTCCTTGGAGATAA 59.515 52.381 0.00 0.00 0.00 1.75
3319 4764 1.120530 GGGTCGCTTCCTTGGAGATA 58.879 55.000 0.00 0.00 0.00 1.98
3320 4765 1.627297 GGGGTCGCTTCCTTGGAGAT 61.627 60.000 0.00 0.00 0.00 2.75
3321 4766 2.291043 GGGGTCGCTTCCTTGGAGA 61.291 63.158 0.00 0.00 0.00 3.71
3322 4767 1.915078 ATGGGGTCGCTTCCTTGGAG 61.915 60.000 0.00 0.00 0.00 3.86
3323 4768 1.910580 GATGGGGTCGCTTCCTTGGA 61.911 60.000 0.00 0.00 0.00 3.53
3324 4769 1.452108 GATGGGGTCGCTTCCTTGG 60.452 63.158 0.00 0.00 0.00 3.61
3325 4770 1.452108 GGATGGGGTCGCTTCCTTG 60.452 63.158 11.09 0.00 0.00 3.61
3326 4771 1.923395 TGGATGGGGTCGCTTCCTT 60.923 57.895 16.70 0.00 0.00 3.36
3327 4772 2.285368 TGGATGGGGTCGCTTCCT 60.285 61.111 16.70 0.00 0.00 3.36
3328 4773 2.124695 GTGGATGGGGTCGCTTCC 60.125 66.667 11.35 11.35 0.00 3.46
3329 4774 0.815615 GATGTGGATGGGGTCGCTTC 60.816 60.000 0.00 0.00 0.00 3.86
3330 4775 1.224592 GATGTGGATGGGGTCGCTT 59.775 57.895 0.00 0.00 0.00 4.68
3331 4776 1.690219 GAGATGTGGATGGGGTCGCT 61.690 60.000 0.00 0.00 0.00 4.93
3332 4777 1.227674 GAGATGTGGATGGGGTCGC 60.228 63.158 0.00 0.00 0.00 5.19
3333 4778 1.050988 AGGAGATGTGGATGGGGTCG 61.051 60.000 0.00 0.00 0.00 4.79
3334 4779 1.141858 GAAGGAGATGTGGATGGGGTC 59.858 57.143 0.00 0.00 0.00 4.46
3335 4780 1.216990 GAAGGAGATGTGGATGGGGT 58.783 55.000 0.00 0.00 0.00 4.95
3336 4781 0.475906 GGAAGGAGATGTGGATGGGG 59.524 60.000 0.00 0.00 0.00 4.96
3337 4782 0.475906 GGGAAGGAGATGTGGATGGG 59.524 60.000 0.00 0.00 0.00 4.00
3338 4783 0.475906 GGGGAAGGAGATGTGGATGG 59.524 60.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.