Multiple sequence alignment - TraesCS7B01G162400

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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 TraesCS7B01G162400 chr7B 100.000 3539 0 0 1 3539 222699752 222703290 0.000000e+00 6536.0
1 TraesCS7B01G162400 chr7B 83.333 168 16 8 2599 2754 686983269 686983436 1.020000e-30 145.0
2 TraesCS7B01G162400 chr7B 77.273 220 42 7 3257 3470 121788615 121788398 4.800000e-24 122.0
3 TraesCS7B01G162400 chr7D 95.458 2532 90 18 297 2817 246523330 246525847 0.000000e+00 4015.0
4 TraesCS7B01G162400 chr7D 90.452 398 23 11 2813 3204 246526580 246526968 8.760000e-141 510.0
5 TraesCS7B01G162400 chr7D 98.540 137 2 0 1 137 246523174 246523310 3.530000e-60 243.0
6 TraesCS7B01G162400 chr7D 85.629 167 11 6 2599 2754 325848222 325848058 2.830000e-36 163.0
7 TraesCS7B01G162400 chr7D 84.615 169 11 7 2599 2754 359310354 359310520 1.700000e-33 154.0
8 TraesCS7B01G162400 chr7D 83.832 167 15 6 2599 2754 302816875 302817040 7.920000e-32 148.0
9 TraesCS7B01G162400 chr7D 81.982 111 14 6 3366 3471 214567590 214567699 4.870000e-14 89.8
10 TraesCS7B01G162400 chr7D 78.626 131 22 4 3358 3483 119962570 119962441 8.140000e-12 82.4
11 TraesCS7B01G162400 chr7A 92.792 2650 120 22 1 2606 263176627 263179249 0.000000e+00 3770.0
12 TraesCS7B01G162400 chr7A 84.024 169 12 9 2599 2754 227566328 227566162 7.920000e-32 148.0
13 TraesCS7B01G162400 chr7A 94.186 86 5 0 3022 3107 598923820 598923735 7.970000e-27 132.0
14 TraesCS7B01G162400 chr7A 81.579 152 14 9 2600 2738 84858321 84858471 2.890000e-21 113.0
15 TraesCS7B01G162400 chr7A 78.125 160 30 3 3330 3484 550048491 550048650 2.910000e-16 97.1
16 TraesCS7B01G162400 chr2B 87.425 167 12 7 2595 2754 741971910 741971746 2.170000e-42 183.0
17 TraesCS7B01G162400 chr6D 85.207 169 13 7 2597 2754 165527069 165527236 2.830000e-36 163.0
18 TraesCS7B01G162400 chr6D 84.524 168 10 9 2599 2754 225352931 225352768 6.120000e-33 152.0
19 TraesCS7B01G162400 chr1D 84.615 169 11 7 2599 2754 268829583 268829749 1.700000e-33 154.0
20 TraesCS7B01G162400 chr1D 88.679 106 10 2 3022 3126 415638370 415638266 1.030000e-25 128.0
21 TraesCS7B01G162400 chr6B 84.024 169 12 8 2599 2754 332260003 332259837 7.920000e-32 148.0
22 TraesCS7B01G162400 chr6B 88.350 103 10 2 3022 3123 540597406 540597507 4.800000e-24 122.0
23 TraesCS7B01G162400 chr6B 80.795 151 16 8 2601 2738 50480787 50480637 4.830000e-19 106.0
24 TraesCS7B01G162400 chr4D 83.832 167 15 8 2599 2754 247724184 247724019 7.920000e-32 148.0
25 TraesCS7B01G162400 chr1A 83.929 168 12 8 2600 2754 243246372 243246207 2.850000e-31 147.0
26 TraesCS7B01G162400 chr1A 89.796 98 10 0 3022 3119 575470518 575470421 3.710000e-25 126.0
27 TraesCS7B01G162400 chr5D 89.796 98 10 0 3022 3119 241960098 241960001 3.710000e-25 126.0
28 TraesCS7B01G162400 chr2D 90.526 95 9 0 3022 3116 8321195 8321289 3.710000e-25 126.0
29 TraesCS7B01G162400 chr2A 89.796 98 10 0 3022 3119 168839352 168839255 3.710000e-25 126.0
30 TraesCS7B01G162400 chr2A 80.247 162 21 7 2599 2749 16662055 16662216 1.040000e-20 111.0
31 TraesCS7B01G162400 chr2A 77.966 177 37 1 3261 3437 693435928 693435754 3.740000e-20 110.0
32 TraesCS7B01G162400 chr5A 87.037 108 11 3 3022 3127 263547370 263547476 6.210000e-23 119.0
33 TraesCS7B01G162400 chr1B 79.042 167 23 7 2600 2754 489269152 489268986 1.740000e-18 104.0
34 TraesCS7B01G162400 chr1B 79.310 145 23 5 3332 3470 181149307 181149450 1.050000e-15 95.3
35 TraesCS7B01G162400 chr1B 96.970 33 0 1 2988 3019 667350867 667350899 2.000000e-03 54.7
36 TraesCS7B01G162400 chr3A 78.261 161 23 7 2597 2745 624858274 624858114 3.760000e-15 93.5
37 TraesCS7B01G162400 chr6A 81.818 110 14 4 3358 3462 601799202 601799310 1.750000e-13 87.9
38 TraesCS7B01G162400 chr5B 95.455 44 2 0 3492 3535 541377224 541377267 1.760000e-08 71.3
39 TraesCS7B01G162400 chr5B 93.182 44 3 0 3495 3538 468983727 468983684 8.200000e-07 65.8
40 TraesCS7B01G162400 chr3D 91.489 47 4 0 3492 3538 184563664 184563618 8.200000e-07 65.8
41 TraesCS7B01G162400 chr3B 79.279 111 10 9 3441 3538 165245193 165245083 8.200000e-07 65.8
42 TraesCS7B01G162400 chr4B 90.698 43 4 0 3492 3534 56395469 56395511 1.370000e-04 58.4


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 TraesCS7B01G162400 chr7B 222699752 222703290 3538 False 6536.000000 6536 100.000000 1 3539 1 chr7B.!!$F1 3538
1 TraesCS7B01G162400 chr7D 246523174 246526968 3794 False 1589.333333 4015 94.816667 1 3204 3 chr7D.!!$F4 3203
2 TraesCS7B01G162400 chr7A 263176627 263179249 2622 False 3770.000000 3770 92.792000 1 2606 1 chr7A.!!$F2 2605

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
961 998 0.792031 GTTTAACACGGCCTGGTACG 59.208 55.0 0.0 10.58 0.0 3.67 F
1764 1807 0.541063 TCCTCGCCAAGTACCTCACA 60.541 55.0 0.0 0.00 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2124 2167 0.029167 GCTCGTACGCTAGGAGGTTC 59.971 60.0 11.24 0.00 40.16 3.62 R
3290 4086 0.032615 TTTTTATGGGCCAGGGCGAT 60.033 50.0 13.78 15.25 43.06 4.58 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
149 155 9.901172 AGTTTCTCGACCATTACCTTTATTAAT 57.099 29.630 0.00 0.00 0.00 1.40
186 204 9.636965 GAAACTTAAAAAGCATTGTTTGTCATC 57.363 29.630 0.00 0.00 0.00 2.92
190 208 1.909700 AGCATTGTTTGTCATCCCGT 58.090 45.000 0.00 0.00 0.00 5.28
193 211 2.164219 GCATTGTTTGTCATCCCGTGAT 59.836 45.455 0.00 0.00 39.48 3.06
194 212 3.367292 GCATTGTTTGTCATCCCGTGATT 60.367 43.478 0.00 0.00 39.48 2.57
210 228 7.443477 TCCCGTGATTTATATCGTGGAATTTA 58.557 34.615 5.44 0.00 32.30 1.40
234 252 2.704464 TGGAAGATGATGTGGCTGAG 57.296 50.000 0.00 0.00 0.00 3.35
238 256 3.133721 GGAAGATGATGTGGCTGAGTAGT 59.866 47.826 0.00 0.00 0.00 2.73
242 260 5.851720 AGATGATGTGGCTGAGTAGTTATG 58.148 41.667 0.00 0.00 0.00 1.90
258 276 5.086104 AGTTATGTACACTGGGACATGTC 57.914 43.478 17.91 17.91 38.20 3.06
272 290 4.789012 GACATGTCCAAATCACCATTGT 57.211 40.909 15.31 0.00 0.00 2.71
278 296 7.395772 ACATGTCCAAATCACCATTGTACATAA 59.604 33.333 0.00 0.00 0.00 1.90
283 301 5.811399 AATCACCATTGTACATAACACCG 57.189 39.130 0.00 0.00 38.00 4.94
369 387 0.806868 ACGCAAGAACGGACGAGATA 59.193 50.000 0.00 0.00 43.62 1.98
390 408 2.616842 AGGTGTTCCTTTTGCAGTAACG 59.383 45.455 0.00 0.00 42.12 3.18
393 411 3.018149 TGTTCCTTTTGCAGTAACGGTT 58.982 40.909 0.00 0.00 0.00 4.44
540 558 9.872684 ATTTCATTCAAGTATCCCAGTCATATT 57.127 29.630 0.00 0.00 0.00 1.28
570 588 1.541233 GGTGACCAGGAGTGAGTTGTG 60.541 57.143 0.00 0.00 0.00 3.33
581 599 2.135933 GTGAGTTGTGTGGCTACAGTC 58.864 52.381 1.83 0.00 37.52 3.51
614 632 1.459592 GTCCAGATCACCAAAACGTCG 59.540 52.381 0.00 0.00 0.00 5.12
691 725 4.170062 CATTGCTGCAGACGCCCG 62.170 66.667 20.43 0.00 37.32 6.13
768 802 5.815222 TGGAATTGACATCAACTACCATACG 59.185 40.000 10.29 0.00 38.86 3.06
868 905 4.515191 TGGACAGTCAAAGATTTTTCTCGG 59.485 41.667 2.17 0.00 0.00 4.63
894 931 4.398319 CCCTGTGTTGGAAGTCTTGTAAT 58.602 43.478 0.00 0.00 0.00 1.89
961 998 0.792031 GTTTAACACGGCCTGGTACG 59.208 55.000 0.00 10.58 0.00 3.67
1107 1144 2.049433 AAACACGCCGAGGACGAG 60.049 61.111 11.61 7.21 42.66 4.18
1281 1324 0.909610 AGCCCTTCACCATCTTCCGA 60.910 55.000 0.00 0.00 0.00 4.55
1542 1585 1.880340 GGACTTCGCCGAGATGCTG 60.880 63.158 0.00 0.00 0.00 4.41
1557 1600 3.753434 CTGCTCCTCGACGGCTGT 61.753 66.667 0.00 0.00 0.00 4.40
1764 1807 0.541063 TCCTCGCCAAGTACCTCACA 60.541 55.000 0.00 0.00 0.00 3.58
1818 1861 2.593725 CCCGACGGCGAGATCCTA 60.594 66.667 15.16 0.00 40.82 2.94
2148 2191 0.107800 TCCTAGCGTACGAGCAGAGT 60.108 55.000 21.65 0.00 40.15 3.24
2485 2528 4.383861 CCGCTGTGCTCCTGCTCA 62.384 66.667 4.81 0.00 39.91 4.26
2587 2630 0.241749 CATGCATGCACCGAGTTGTT 59.758 50.000 25.37 0.00 0.00 2.83
2596 2639 4.633175 TGCACCGAGTTGTTACAATCTTA 58.367 39.130 0.00 0.00 0.00 2.10
2597 2640 5.242434 TGCACCGAGTTGTTACAATCTTAT 58.758 37.500 0.00 0.00 0.00 1.73
2624 2667 6.745116 ACTCCCTCCGTTTTTATTTTCTTTG 58.255 36.000 0.00 0.00 0.00 2.77
2762 2815 6.419791 TGATTTGTTATTGTATTCCCTCCGT 58.580 36.000 0.00 0.00 0.00 4.69
2766 2819 6.746745 TGTTATTGTATTCCCTCCGTTTTC 57.253 37.500 0.00 0.00 0.00 2.29
2777 2830 4.018779 TCCCTCCGTTTTCATTTACTCCAT 60.019 41.667 0.00 0.00 0.00 3.41
2778 2831 5.190132 TCCCTCCGTTTTCATTTACTCCATA 59.810 40.000 0.00 0.00 0.00 2.74
2780 2833 7.071447 TCCCTCCGTTTTCATTTACTCCATATA 59.929 37.037 0.00 0.00 0.00 0.86
2868 3662 4.902448 ACTCCCTCTCACTTTTGTAAGTCT 59.098 41.667 0.00 0.00 42.67 3.24
2872 3666 7.116736 TCCCTCTCACTTTTGTAAGTCTTTTT 58.883 34.615 0.00 0.00 42.67 1.94
2898 3693 1.372128 GAAAGTGGGCTGCTTTGCG 60.372 57.895 10.51 0.00 36.43 4.85
2905 3700 4.988486 GCTGCTTTGCGCGCTGTT 62.988 61.111 33.29 0.00 43.27 3.16
2912 3707 2.315011 CTTTGCGCGCTGTTTGAAATA 58.685 42.857 33.29 4.14 0.00 1.40
2922 3717 5.382303 CGCTGTTTGAAATATCTTCAACGT 58.618 37.500 10.61 0.00 38.05 3.99
2942 3737 9.098355 TCAACGTCTTATGAAAATGAATAGAGG 57.902 33.333 0.00 0.00 0.00 3.69
2945 3740 9.319143 ACGTCTTATGAAAATGAATAGAGGAAG 57.681 33.333 0.00 0.00 0.00 3.46
3116 3911 4.402155 TGAAGCAAATAAAAGCGGATGGAT 59.598 37.500 0.00 0.00 35.48 3.41
3165 3961 1.502190 GCCTGTTAGTTTGAGCCGC 59.498 57.895 0.00 0.00 0.00 6.53
3205 4001 5.993055 TGATGATCAGAAGCAATACCTTCA 58.007 37.500 0.09 0.00 42.84 3.02
3206 4002 6.598503 TGATGATCAGAAGCAATACCTTCAT 58.401 36.000 0.09 0.00 42.84 2.57
3207 4003 6.485648 TGATGATCAGAAGCAATACCTTCATG 59.514 38.462 0.09 0.00 42.84 3.07
3208 4004 5.748402 TGATCAGAAGCAATACCTTCATGT 58.252 37.500 0.00 0.00 42.84 3.21
3209 4005 6.182627 TGATCAGAAGCAATACCTTCATGTT 58.817 36.000 0.00 0.00 42.84 2.71
3210 4006 6.660521 TGATCAGAAGCAATACCTTCATGTTT 59.339 34.615 0.00 0.00 42.84 2.83
3211 4007 7.828717 TGATCAGAAGCAATACCTTCATGTTTA 59.171 33.333 0.00 0.00 42.84 2.01
3212 4008 8.757982 ATCAGAAGCAATACCTTCATGTTTAT 57.242 30.769 4.92 0.00 42.84 1.40
3213 4009 9.851686 ATCAGAAGCAATACCTTCATGTTTATA 57.148 29.630 4.92 0.00 42.84 0.98
3214 4010 9.109393 TCAGAAGCAATACCTTCATGTTTATAC 57.891 33.333 4.92 0.00 42.84 1.47
3215 4011 8.892723 CAGAAGCAATACCTTCATGTTTATACA 58.107 33.333 4.92 0.00 42.84 2.29
3216 4012 9.632638 AGAAGCAATACCTTCATGTTTATACAT 57.367 29.630 4.92 0.00 45.81 2.29
3239 4035 9.764363 ACATATACATGGAGTGTTTGTACTATG 57.236 33.333 0.00 0.00 42.29 2.23
3240 4036 9.981114 CATATACATGGAGTGTTTGTACTATGA 57.019 33.333 0.00 0.00 42.29 2.15
3243 4039 7.849804 ACATGGAGTGTTTGTACTATGAATC 57.150 36.000 0.00 0.00 38.01 2.52
3244 4040 7.394016 ACATGGAGTGTTTGTACTATGAATCA 58.606 34.615 0.00 0.00 38.01 2.57
3245 4041 8.049117 ACATGGAGTGTTTGTACTATGAATCAT 58.951 33.333 0.00 0.00 38.01 2.45
3246 4042 7.848223 TGGAGTGTTTGTACTATGAATCATG 57.152 36.000 5.91 0.00 0.00 3.07
3247 4043 7.394016 TGGAGTGTTTGTACTATGAATCATGT 58.606 34.615 5.91 4.96 0.00 3.21
3248 4044 8.536175 TGGAGTGTTTGTACTATGAATCATGTA 58.464 33.333 5.91 4.03 0.00 2.29
3249 4045 8.818057 GGAGTGTTTGTACTATGAATCATGTAC 58.182 37.037 19.51 19.51 33.44 2.90
3250 4046 8.407457 AGTGTTTGTACTATGAATCATGTACG 57.593 34.615 20.24 6.74 34.43 3.67
3251 4047 8.248253 AGTGTTTGTACTATGAATCATGTACGA 58.752 33.333 20.24 17.94 34.43 3.43
3252 4048 8.318876 GTGTTTGTACTATGAATCATGTACGAC 58.681 37.037 20.24 19.95 34.43 4.34
3253 4049 7.219344 TGTTTGTACTATGAATCATGTACGACG 59.781 37.037 20.24 0.00 34.43 5.12
3254 4050 5.754778 TGTACTATGAATCATGTACGACGG 58.245 41.667 20.24 2.80 34.43 4.79
3255 4051 4.238761 ACTATGAATCATGTACGACGGG 57.761 45.455 5.91 0.00 0.00 5.28
3256 4052 2.526304 ATGAATCATGTACGACGGGG 57.474 50.000 0.00 0.00 0.00 5.73
3257 4053 0.179094 TGAATCATGTACGACGGGGC 60.179 55.000 0.00 0.00 0.00 5.80
3258 4054 1.213094 GAATCATGTACGACGGGGCG 61.213 60.000 0.00 0.00 37.29 6.13
3259 4055 2.638330 AATCATGTACGACGGGGCGG 62.638 60.000 0.00 0.00 35.12 6.13
3260 4056 4.884257 CATGTACGACGGGGCGGG 62.884 72.222 0.00 0.00 35.12 6.13
3279 4075 4.104183 GCCCGGACCGATCCCAAA 62.104 66.667 17.49 0.00 42.83 3.28
3280 4076 2.124860 CCCGGACCGATCCCAAAC 60.125 66.667 17.49 0.00 42.83 2.93
3281 4077 2.124860 CCGGACCGATCCCAAACC 60.125 66.667 17.49 0.00 42.83 3.27
3282 4078 2.124860 CGGACCGATCCCAAACCC 60.125 66.667 8.64 0.00 42.83 4.11
3283 4079 2.666098 CGGACCGATCCCAAACCCT 61.666 63.158 8.64 0.00 42.83 4.34
3284 4080 1.223763 GGACCGATCCCAAACCCTC 59.776 63.158 0.00 0.00 39.39 4.30
3285 4081 1.153429 GACCGATCCCAAACCCTCG 60.153 63.158 0.00 0.00 0.00 4.63
3286 4082 1.896122 GACCGATCCCAAACCCTCGT 61.896 60.000 0.00 0.00 0.00 4.18
3287 4083 1.153429 CCGATCCCAAACCCTCGTC 60.153 63.158 0.00 0.00 0.00 4.20
3288 4084 1.153429 CGATCCCAAACCCTCGTCC 60.153 63.158 0.00 0.00 0.00 4.79
3289 4085 1.153429 GATCCCAAACCCTCGTCCG 60.153 63.158 0.00 0.00 0.00 4.79
3290 4086 1.610554 GATCCCAAACCCTCGTCCGA 61.611 60.000 0.00 0.00 0.00 4.55
3291 4087 0.981277 ATCCCAAACCCTCGTCCGAT 60.981 55.000 0.00 0.00 0.00 4.18
3292 4088 1.153429 CCCAAACCCTCGTCCGATC 60.153 63.158 0.00 0.00 0.00 3.69
3293 4089 1.518572 CCAAACCCTCGTCCGATCG 60.519 63.158 8.51 8.51 0.00 3.69
3294 4090 2.165301 CAAACCCTCGTCCGATCGC 61.165 63.158 10.32 0.00 0.00 4.58
3295 4091 3.366739 AAACCCTCGTCCGATCGCC 62.367 63.158 10.32 0.86 0.00 5.54
3298 4094 4.271816 CCTCGTCCGATCGCCCTG 62.272 72.222 10.32 0.00 0.00 4.45
3299 4095 4.271816 CTCGTCCGATCGCCCTGG 62.272 72.222 10.32 0.00 0.00 4.45
3305 4101 3.625897 CGATCGCCCTGGCCCATA 61.626 66.667 0.26 0.00 37.98 2.74
3306 4102 2.836154 GATCGCCCTGGCCCATAA 59.164 61.111 0.00 0.00 37.98 1.90
3307 4103 1.150536 GATCGCCCTGGCCCATAAA 59.849 57.895 0.00 0.00 37.98 1.40
3308 4104 0.467290 GATCGCCCTGGCCCATAAAA 60.467 55.000 0.00 0.00 37.98 1.52
3309 4105 0.032615 ATCGCCCTGGCCCATAAAAA 60.033 50.000 0.00 0.00 37.98 1.94
3333 4129 6.515272 AAAAACCTATCATTCTCATGCGTT 57.485 33.333 0.00 0.00 0.00 4.84
3334 4130 7.624360 AAAAACCTATCATTCTCATGCGTTA 57.376 32.000 0.00 0.00 0.00 3.18
3335 4131 7.807977 AAAACCTATCATTCTCATGCGTTAT 57.192 32.000 0.00 0.00 0.00 1.89
3336 4132 7.426929 AAACCTATCATTCTCATGCGTTATC 57.573 36.000 0.00 0.00 0.00 1.75
3337 4133 5.164233 ACCTATCATTCTCATGCGTTATCG 58.836 41.667 0.00 0.00 40.37 2.92
3338 4134 4.564372 CCTATCATTCTCATGCGTTATCGG 59.436 45.833 0.00 0.00 37.56 4.18
3339 4135 3.452755 TCATTCTCATGCGTTATCGGT 57.547 42.857 0.00 0.00 37.56 4.69
3340 4136 3.381045 TCATTCTCATGCGTTATCGGTC 58.619 45.455 0.00 0.00 37.56 4.79
3341 4137 2.951457 TTCTCATGCGTTATCGGTCA 57.049 45.000 0.00 0.00 37.56 4.02
3342 4138 2.492019 TCTCATGCGTTATCGGTCAG 57.508 50.000 0.00 0.00 37.56 3.51
3343 4139 0.855349 CTCATGCGTTATCGGTCAGC 59.145 55.000 0.00 0.00 37.56 4.26
3344 4140 0.174617 TCATGCGTTATCGGTCAGCA 59.825 50.000 0.00 0.00 42.28 4.41
3345 4141 3.686622 ATGCGTTATCGGTCAGCAT 57.313 47.368 0.37 0.37 42.85 3.79
3346 4142 1.599071 CATGCGTTATCGGTCAGCATT 59.401 47.619 3.15 0.00 44.97 3.56
3347 4143 1.006086 TGCGTTATCGGTCAGCATTG 58.994 50.000 0.00 0.00 37.56 2.82
3348 4144 0.316196 GCGTTATCGGTCAGCATTGC 60.316 55.000 0.00 0.00 37.56 3.56
3349 4145 1.290203 CGTTATCGGTCAGCATTGCT 58.710 50.000 5.03 5.03 40.77 3.91
3350 4146 1.665679 CGTTATCGGTCAGCATTGCTT 59.334 47.619 8.83 0.00 36.40 3.91
3351 4147 2.285834 CGTTATCGGTCAGCATTGCTTC 60.286 50.000 8.83 5.28 36.40 3.86
3352 4148 2.677836 GTTATCGGTCAGCATTGCTTCA 59.322 45.455 8.83 0.00 36.40 3.02
3353 4149 1.376543 ATCGGTCAGCATTGCTTCAG 58.623 50.000 8.83 6.43 36.40 3.02
3354 4150 0.321346 TCGGTCAGCATTGCTTCAGA 59.679 50.000 8.83 8.63 36.40 3.27
3355 4151 0.725686 CGGTCAGCATTGCTTCAGAG 59.274 55.000 8.83 0.00 36.40 3.35
3373 4169 2.809174 CGTCAGCGTCCGCATTCA 60.809 61.111 14.70 0.00 44.88 2.57
3374 4170 2.167219 CGTCAGCGTCCGCATTCAT 61.167 57.895 14.70 0.00 44.88 2.57
3375 4171 1.349627 GTCAGCGTCCGCATTCATG 59.650 57.895 14.70 3.06 44.88 3.07
3385 4181 4.670199 CATTCATGCCTGGCCAGA 57.330 55.556 34.91 16.18 0.00 3.86
3386 4182 2.415825 CATTCATGCCTGGCCAGAG 58.584 57.895 34.91 23.71 0.00 3.35
3387 4183 0.395311 CATTCATGCCTGGCCAGAGT 60.395 55.000 34.91 16.12 0.00 3.24
3388 4184 0.395311 ATTCATGCCTGGCCAGAGTG 60.395 55.000 34.91 25.86 0.00 3.51
3389 4185 2.439701 CATGCCTGGCCAGAGTGG 60.440 66.667 34.91 19.60 41.55 4.00
3390 4186 2.937689 ATGCCTGGCCAGAGTGGT 60.938 61.111 34.91 12.00 40.46 4.16
3391 4187 2.976490 ATGCCTGGCCAGAGTGGTC 61.976 63.158 34.91 14.21 43.98 4.02
3396 4192 4.703703 GGCCAGAGTGGTCAAGAC 57.296 61.111 0.00 0.00 42.98 3.01
3405 4201 4.268687 GGTCAAGACCGCTCACTG 57.731 61.111 3.08 0.00 42.29 3.66
3406 4202 1.374758 GGTCAAGACCGCTCACTGG 60.375 63.158 3.08 0.00 42.29 4.00
3407 4203 1.367840 GTCAAGACCGCTCACTGGT 59.632 57.895 0.00 0.00 44.10 4.00
3408 4204 0.946221 GTCAAGACCGCTCACTGGTG 60.946 60.000 0.00 0.00 40.63 4.17
3409 4205 2.031163 AAGACCGCTCACTGGTGC 59.969 61.111 0.00 0.00 40.63 5.01
3410 4206 3.537206 AAGACCGCTCACTGGTGCC 62.537 63.158 0.00 0.00 40.63 5.01
3416 4212 2.360350 CTCACTGGTGCCGGCATT 60.360 61.111 35.23 14.88 0.00 3.56
3417 4213 2.672651 TCACTGGTGCCGGCATTG 60.673 61.111 35.23 25.94 0.00 2.82
3418 4214 2.672651 CACTGGTGCCGGCATTGA 60.673 61.111 35.23 18.27 0.00 2.57
3419 4215 2.115052 ACTGGTGCCGGCATTGAA 59.885 55.556 35.23 17.22 0.00 2.69
3420 4216 1.973281 ACTGGTGCCGGCATTGAAG 60.973 57.895 35.23 26.88 0.00 3.02
3421 4217 3.346631 CTGGTGCCGGCATTGAAGC 62.347 63.158 35.23 19.46 0.00 3.86
3422 4218 4.481112 GGTGCCGGCATTGAAGCG 62.481 66.667 35.23 0.00 34.64 4.68
3423 4219 3.430862 GTGCCGGCATTGAAGCGA 61.431 61.111 35.23 1.82 34.64 4.93
3424 4220 3.430862 TGCCGGCATTGAAGCGAC 61.431 61.111 29.03 0.00 34.64 5.19
3425 4221 4.520846 GCCGGCATTGAAGCGACG 62.521 66.667 24.80 0.00 34.64 5.12
3426 4222 4.520846 CCGGCATTGAAGCGACGC 62.521 66.667 13.03 13.03 34.64 5.19
3427 4223 4.851114 CGGCATTGAAGCGACGCG 62.851 66.667 15.18 3.53 34.64 6.01
3428 4224 3.788766 GGCATTGAAGCGACGCGT 61.789 61.111 13.85 13.85 34.64 6.01
3429 4225 2.276058 GCATTGAAGCGACGCGTC 60.276 61.111 28.96 28.96 37.54 5.19
3430 4226 3.010585 GCATTGAAGCGACGCGTCA 62.011 57.895 35.71 30.09 44.27 4.35
3431 4227 1.057822 CATTGAAGCGACGCGTCAG 59.942 57.895 35.71 27.85 46.12 3.51
3432 4228 2.730672 ATTGAAGCGACGCGTCAGC 61.731 57.895 35.71 34.31 46.12 4.26
3454 4250 3.869272 CATCGCCCGCACTGCTTC 61.869 66.667 0.00 0.00 0.00 3.86
3468 4264 4.379243 CTTCCGGTGCAGGCGACT 62.379 66.667 0.00 0.00 46.44 4.18
3480 4276 4.284123 GCGACTGCCTCACATTCA 57.716 55.556 0.00 0.00 33.98 2.57
3481 4277 2.543578 GCGACTGCCTCACATTCAA 58.456 52.632 0.00 0.00 33.98 2.69
3482 4278 0.874390 GCGACTGCCTCACATTCAAA 59.126 50.000 0.00 0.00 33.98 2.69
3483 4279 1.400242 GCGACTGCCTCACATTCAAAC 60.400 52.381 0.00 0.00 33.98 2.93
3484 4280 1.872952 CGACTGCCTCACATTCAAACA 59.127 47.619 0.00 0.00 0.00 2.83
3485 4281 2.349817 CGACTGCCTCACATTCAAACAC 60.350 50.000 0.00 0.00 0.00 3.32
3486 4282 1.956477 ACTGCCTCACATTCAAACACC 59.044 47.619 0.00 0.00 0.00 4.16
3487 4283 2.233271 CTGCCTCACATTCAAACACCT 58.767 47.619 0.00 0.00 0.00 4.00
3488 4284 3.181445 ACTGCCTCACATTCAAACACCTA 60.181 43.478 0.00 0.00 0.00 3.08
3489 4285 4.012374 CTGCCTCACATTCAAACACCTAT 58.988 43.478 0.00 0.00 0.00 2.57
3490 4286 4.406456 TGCCTCACATTCAAACACCTATT 58.594 39.130 0.00 0.00 0.00 1.73
3491 4287 4.458989 TGCCTCACATTCAAACACCTATTC 59.541 41.667 0.00 0.00 0.00 1.75
3492 4288 4.437390 GCCTCACATTCAAACACCTATTCG 60.437 45.833 0.00 0.00 0.00 3.34
3493 4289 4.695455 CCTCACATTCAAACACCTATTCGT 59.305 41.667 0.00 0.00 0.00 3.85
3494 4290 5.163854 CCTCACATTCAAACACCTATTCGTC 60.164 44.000 0.00 0.00 0.00 4.20
3495 4291 4.693566 TCACATTCAAACACCTATTCGTCC 59.306 41.667 0.00 0.00 0.00 4.79
3496 4292 4.454161 CACATTCAAACACCTATTCGTCCA 59.546 41.667 0.00 0.00 0.00 4.02
3497 4293 5.123820 CACATTCAAACACCTATTCGTCCAT 59.876 40.000 0.00 0.00 0.00 3.41
3498 4294 5.354234 ACATTCAAACACCTATTCGTCCATC 59.646 40.000 0.00 0.00 0.00 3.51
3499 4295 4.819105 TCAAACACCTATTCGTCCATCT 57.181 40.909 0.00 0.00 0.00 2.90
3500 4296 4.503910 TCAAACACCTATTCGTCCATCTG 58.496 43.478 0.00 0.00 0.00 2.90
3501 4297 4.020573 TCAAACACCTATTCGTCCATCTGT 60.021 41.667 0.00 0.00 0.00 3.41
3502 4298 3.802948 ACACCTATTCGTCCATCTGTC 57.197 47.619 0.00 0.00 0.00 3.51
3503 4299 2.099263 ACACCTATTCGTCCATCTGTCG 59.901 50.000 0.00 0.00 0.00 4.35
3504 4300 1.067212 ACCTATTCGTCCATCTGTCGC 59.933 52.381 0.00 0.00 0.00 5.19
3505 4301 1.603172 CCTATTCGTCCATCTGTCGCC 60.603 57.143 0.00 0.00 0.00 5.54
3506 4302 0.387929 TATTCGTCCATCTGTCGCCC 59.612 55.000 0.00 0.00 0.00 6.13
3507 4303 1.613317 ATTCGTCCATCTGTCGCCCA 61.613 55.000 0.00 0.00 0.00 5.36
3508 4304 2.501223 TTCGTCCATCTGTCGCCCAC 62.501 60.000 0.00 0.00 0.00 4.61
3509 4305 2.662596 GTCCATCTGTCGCCCACA 59.337 61.111 0.00 0.00 0.00 4.17
3510 4306 1.221840 GTCCATCTGTCGCCCACAT 59.778 57.895 0.00 0.00 33.23 3.21
3511 4307 0.392998 GTCCATCTGTCGCCCACATT 60.393 55.000 0.00 0.00 33.23 2.71
3512 4308 0.392863 TCCATCTGTCGCCCACATTG 60.393 55.000 0.00 0.00 33.23 2.82
3513 4309 0.392863 CCATCTGTCGCCCACATTGA 60.393 55.000 0.00 0.00 33.23 2.57
3514 4310 1.671979 CATCTGTCGCCCACATTGAT 58.328 50.000 0.00 0.00 33.23 2.57
3515 4311 1.332686 CATCTGTCGCCCACATTGATG 59.667 52.381 0.00 0.00 33.60 3.07
3516 4312 0.612744 TCTGTCGCCCACATTGATGA 59.387 50.000 0.00 0.00 33.23 2.92
3517 4313 1.210234 TCTGTCGCCCACATTGATGAT 59.790 47.619 0.00 0.00 33.23 2.45
3518 4314 2.433970 TCTGTCGCCCACATTGATGATA 59.566 45.455 0.00 0.00 33.23 2.15
3519 4315 2.545526 CTGTCGCCCACATTGATGATAC 59.454 50.000 0.00 0.00 33.23 2.24
3520 4316 2.093235 TGTCGCCCACATTGATGATACA 60.093 45.455 0.00 0.00 0.00 2.29
3521 4317 2.287915 GTCGCCCACATTGATGATACAC 59.712 50.000 0.00 0.00 0.00 2.90
3522 4318 1.261354 CGCCCACATTGATGATACACG 59.739 52.381 0.00 0.00 0.00 4.49
3523 4319 1.603802 GCCCACATTGATGATACACGG 59.396 52.381 0.00 0.00 0.00 4.94
3524 4320 2.917933 CCCACATTGATGATACACGGT 58.082 47.619 0.00 0.00 0.00 4.83
3525 4321 3.278574 CCCACATTGATGATACACGGTT 58.721 45.455 0.00 0.00 0.00 4.44
3526 4322 3.065233 CCCACATTGATGATACACGGTTG 59.935 47.826 0.00 0.00 0.00 3.77
3527 4323 3.487376 CCACATTGATGATACACGGTTGC 60.487 47.826 0.00 0.00 0.00 4.17
3528 4324 2.682856 ACATTGATGATACACGGTTGCC 59.317 45.455 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 2.355009 CAAGCACTTTGGCGGCAC 60.355 61.111 12.92 0.00 39.27 5.01
186 204 6.554334 AAATTCCACGATATAAATCACGGG 57.446 37.500 0.00 0.00 31.93 5.28
210 228 3.889538 CAGCCACATCATCTTCCATCATT 59.110 43.478 0.00 0.00 0.00 2.57
221 239 5.620738 ACATAACTACTCAGCCACATCAT 57.379 39.130 0.00 0.00 0.00 2.45
234 252 5.974108 ACATGTCCCAGTGTACATAACTAC 58.026 41.667 0.00 0.00 34.61 2.73
238 256 4.481368 GGACATGTCCCAGTGTACATAA 57.519 45.455 31.37 0.00 43.94 1.90
258 276 6.329496 GGTGTTATGTACAATGGTGATTTGG 58.671 40.000 0.00 0.00 38.80 3.28
272 290 5.653769 AGTTAGTAAGCCTCGGTGTTATGTA 59.346 40.000 0.00 0.00 0.00 2.29
278 296 1.067071 GCAGTTAGTAAGCCTCGGTGT 60.067 52.381 0.00 0.00 0.00 4.16
283 301 2.352960 GCATGTGCAGTTAGTAAGCCTC 59.647 50.000 0.00 0.00 41.59 4.70
390 408 2.227388 CACCTCTGTTGCAGAATCAACC 59.773 50.000 4.46 0.00 44.15 3.77
393 411 2.771089 GTCACCTCTGTTGCAGAATCA 58.229 47.619 0.37 0.00 40.18 2.57
570 588 1.738099 CGGTGCAGACTGTAGCCAC 60.738 63.158 15.76 9.27 0.00 5.01
614 632 0.804989 CGGGCAACTGGAAGATGAAC 59.195 55.000 0.00 0.00 39.37 3.18
672 691 3.740397 GGCGTCTGCAGCAATGCA 61.740 61.111 18.30 2.57 45.35 3.96
673 692 4.487412 GGGCGTCTGCAGCAATGC 62.487 66.667 9.47 10.04 45.35 3.56
674 693 4.170062 CGGGCGTCTGCAGCAATG 62.170 66.667 9.47 0.00 45.35 2.82
675 694 4.704833 ACGGGCGTCTGCAGCAAT 62.705 61.111 9.47 0.00 45.35 3.56
676 695 4.927782 AACGGGCGTCTGCAGCAA 62.928 61.111 9.47 0.00 45.35 3.91
687 706 1.940613 GGTAAGATCATGACAACGGGC 59.059 52.381 0.00 0.00 0.00 6.13
730 764 6.794374 TGTCAATTCCATTGTATGTGTATGC 58.206 36.000 0.00 0.00 41.02 3.14
758 792 7.039504 TCCTTAAGACTCAAAACGTATGGTAGT 60.040 37.037 3.36 0.00 0.00 2.73
768 802 7.864882 ACTTACGTACTCCTTAAGACTCAAAAC 59.135 37.037 3.36 0.00 0.00 2.43
966 1003 2.099652 CTCGGGAGGCAATGGCGATA 62.100 60.000 0.00 0.00 42.47 2.92
1107 1144 1.139947 CTCCTCCGCTTCTTCGTCC 59.860 63.158 0.00 0.00 0.00 4.79
1224 1267 4.821589 GGAAGAGCGTCCAGGCGG 62.822 72.222 5.58 0.00 37.65 6.13
1251 1294 2.676822 AAGGGCTCGCTCTCGTGA 60.677 61.111 0.00 0.00 36.96 4.35
1542 1585 2.048127 AAACAGCCGTCGAGGAGC 60.048 61.111 6.70 8.46 45.00 4.70
1557 1600 3.254903 TGAGGAAGAACTCGACGATGAAA 59.745 43.478 0.00 0.00 40.39 2.69
1764 1807 4.361971 TCCTGCGGGGTCTCGACT 62.362 66.667 12.87 0.00 36.25 4.18
1818 1861 0.833834 AGTAGAGGTGCAGCAGGTGT 60.834 55.000 19.63 0.00 0.00 4.16
1894 1937 1.014044 TCGGCGATCTTGTTGCTGTC 61.014 55.000 4.99 0.00 43.13 3.51
1895 1938 1.005037 TCGGCGATCTTGTTGCTGT 60.005 52.632 4.99 0.00 43.13 4.40
1896 1939 1.699656 CCTCGGCGATCTTGTTGCTG 61.700 60.000 11.27 0.00 43.86 4.41
1906 1949 2.203422 CTCCTCCTCCTCGGCGAT 60.203 66.667 11.27 0.00 0.00 4.58
1972 2015 4.803426 CGACGCTGAGGGGAGCAC 62.803 72.222 0.51 0.00 39.07 4.40
1983 2026 4.742649 TCCTCCAGCTCCGACGCT 62.743 66.667 0.00 0.00 41.90 5.07
2124 2167 0.029167 GCTCGTACGCTAGGAGGTTC 59.971 60.000 11.24 0.00 40.16 3.62
2587 2630 8.716674 AAACGGAGGGAGTATATAAGATTGTA 57.283 34.615 0.00 0.00 0.00 2.41
2596 2639 9.916360 AAGAAAATAAAAACGGAGGGAGTATAT 57.084 29.630 0.00 0.00 0.00 0.86
2597 2640 9.743581 AAAGAAAATAAAAACGGAGGGAGTATA 57.256 29.630 0.00 0.00 0.00 1.47
2755 2808 3.681593 TGGAGTAAATGAAAACGGAGGG 58.318 45.455 0.00 0.00 0.00 4.30
2868 3662 3.513515 AGCCCACTTTCAGTTGTCAAAAA 59.486 39.130 0.00 0.00 0.00 1.94
2872 3666 1.679139 CAGCCCACTTTCAGTTGTCA 58.321 50.000 0.00 0.00 0.00 3.58
2898 3693 4.260656 CGTTGAAGATATTTCAAACAGCGC 59.739 41.667 0.00 0.00 39.76 5.92
2928 3723 9.890352 GCATGAATACTTCCTCTATTCATTTTC 57.110 33.333 9.83 2.15 43.93 2.29
3098 3893 9.965824 ATTACTTAATCCATCCGCTTTTATTTG 57.034 29.630 0.00 0.00 0.00 2.32
3107 3902 6.535274 ACGTTTATTACTTAATCCATCCGC 57.465 37.500 0.00 0.00 0.00 5.54
3143 3939 1.608283 GGCTCAAACTAACAGGCGTCT 60.608 52.381 0.00 0.00 0.00 4.18
3190 3986 9.632638 ATGTATAAACATGAAGGTATTGCTTCT 57.367 29.630 0.00 0.00 44.79 2.85
3213 4009 9.764363 CATAGTACAAACACTCCATGTATATGT 57.236 33.333 0.00 0.00 42.31 2.29
3214 4010 9.981114 TCATAGTACAAACACTCCATGTATATG 57.019 33.333 0.00 0.00 42.31 1.78
3217 4013 9.547753 GATTCATAGTACAAACACTCCATGTAT 57.452 33.333 0.00 0.00 42.31 2.29
3218 4014 8.536175 TGATTCATAGTACAAACACTCCATGTA 58.464 33.333 0.00 0.00 42.31 2.29
3219 4015 7.394016 TGATTCATAGTACAAACACTCCATGT 58.606 34.615 0.00 0.00 46.42 3.21
3220 4016 7.848223 TGATTCATAGTACAAACACTCCATG 57.152 36.000 0.00 0.00 0.00 3.66
3221 4017 8.049117 ACATGATTCATAGTACAAACACTCCAT 58.951 33.333 0.00 0.00 0.00 3.41
3222 4018 7.394016 ACATGATTCATAGTACAAACACTCCA 58.606 34.615 0.00 0.00 0.00 3.86
3223 4019 7.849804 ACATGATTCATAGTACAAACACTCC 57.150 36.000 0.00 0.00 0.00 3.85
3224 4020 8.532341 CGTACATGATTCATAGTACAAACACTC 58.468 37.037 23.69 8.29 37.32 3.51
3225 4021 8.248253 TCGTACATGATTCATAGTACAAACACT 58.752 33.333 23.69 0.00 37.32 3.55
3226 4022 8.318876 GTCGTACATGATTCATAGTACAAACAC 58.681 37.037 23.69 16.15 37.32 3.32
3227 4023 7.219344 CGTCGTACATGATTCATAGTACAAACA 59.781 37.037 23.69 11.88 37.32 2.83
3228 4024 7.305820 CCGTCGTACATGATTCATAGTACAAAC 60.306 40.741 23.69 20.61 37.32 2.93
3229 4025 6.693978 CCGTCGTACATGATTCATAGTACAAA 59.306 38.462 23.69 15.54 37.32 2.83
3230 4026 6.203647 CCGTCGTACATGATTCATAGTACAA 58.796 40.000 23.69 13.27 37.32 2.41
3231 4027 5.278120 CCCGTCGTACATGATTCATAGTACA 60.278 44.000 23.69 15.34 37.32 2.90
3232 4028 5.152097 CCCGTCGTACATGATTCATAGTAC 58.848 45.833 19.04 19.04 34.88 2.73
3233 4029 4.216902 CCCCGTCGTACATGATTCATAGTA 59.783 45.833 0.00 2.48 0.00 1.82
3234 4030 3.005472 CCCCGTCGTACATGATTCATAGT 59.995 47.826 0.00 3.37 0.00 2.12
3235 4031 3.575630 CCCCGTCGTACATGATTCATAG 58.424 50.000 0.00 0.00 0.00 2.23
3236 4032 2.288579 GCCCCGTCGTACATGATTCATA 60.289 50.000 0.00 0.00 0.00 2.15
3237 4033 1.540363 GCCCCGTCGTACATGATTCAT 60.540 52.381 0.00 0.00 0.00 2.57
3238 4034 0.179094 GCCCCGTCGTACATGATTCA 60.179 55.000 0.00 0.00 0.00 2.57
3239 4035 1.213094 CGCCCCGTCGTACATGATTC 61.213 60.000 0.00 0.00 0.00 2.52
3240 4036 1.227147 CGCCCCGTCGTACATGATT 60.227 57.895 0.00 0.00 0.00 2.57
3241 4037 2.415843 CGCCCCGTCGTACATGAT 59.584 61.111 0.00 0.00 0.00 2.45
3242 4038 3.829044 CCGCCCCGTCGTACATGA 61.829 66.667 0.00 0.00 0.00 3.07
3243 4039 4.884257 CCCGCCCCGTCGTACATG 62.884 72.222 0.00 0.00 0.00 3.21
3262 4058 4.104183 TTTGGGATCGGTCCGGGC 62.104 66.667 12.29 0.00 46.09 6.13
3263 4059 2.124860 GTTTGGGATCGGTCCGGG 60.125 66.667 12.29 0.00 46.09 5.73
3264 4060 2.124860 GGTTTGGGATCGGTCCGG 60.125 66.667 12.29 0.00 46.09 5.14
3265 4061 2.124860 GGGTTTGGGATCGGTCCG 60.125 66.667 9.04 4.39 46.09 4.79
3266 4062 1.223763 GAGGGTTTGGGATCGGTCC 59.776 63.158 6.02 6.02 44.29 4.46
3267 4063 1.153429 CGAGGGTTTGGGATCGGTC 60.153 63.158 0.00 0.00 0.00 4.79
3268 4064 1.896122 GACGAGGGTTTGGGATCGGT 61.896 60.000 0.00 0.00 39.42 4.69
3269 4065 1.153429 GACGAGGGTTTGGGATCGG 60.153 63.158 0.00 0.00 39.42 4.18
3270 4066 1.153429 GGACGAGGGTTTGGGATCG 60.153 63.158 0.00 0.00 40.86 3.69
3271 4067 1.153429 CGGACGAGGGTTTGGGATC 60.153 63.158 0.00 0.00 0.00 3.36
3272 4068 0.981277 ATCGGACGAGGGTTTGGGAT 60.981 55.000 0.00 0.00 0.00 3.85
3273 4069 1.610554 GATCGGACGAGGGTTTGGGA 61.611 60.000 0.00 0.00 0.00 4.37
3274 4070 1.153429 GATCGGACGAGGGTTTGGG 60.153 63.158 0.00 0.00 0.00 4.12
3275 4071 1.518572 CGATCGGACGAGGGTTTGG 60.519 63.158 7.38 0.00 35.09 3.28
3276 4072 2.165301 GCGATCGGACGAGGGTTTG 61.165 63.158 18.30 0.00 35.09 2.93
3277 4073 2.183555 GCGATCGGACGAGGGTTT 59.816 61.111 18.30 0.00 35.09 3.27
3278 4074 3.834799 GGCGATCGGACGAGGGTT 61.835 66.667 18.30 0.00 35.09 4.11
3281 4077 4.271816 CAGGGCGATCGGACGAGG 62.272 72.222 18.30 0.00 35.09 4.63
3282 4078 4.271816 CCAGGGCGATCGGACGAG 62.272 72.222 18.30 0.00 35.09 4.18
3288 4084 2.674563 TTTATGGGCCAGGGCGATCG 62.675 60.000 14.31 11.69 43.06 3.69
3289 4085 0.467290 TTTTATGGGCCAGGGCGATC 60.467 55.000 14.31 0.00 43.06 3.69
3290 4086 0.032615 TTTTTATGGGCCAGGGCGAT 60.033 50.000 13.78 15.25 43.06 4.58
3291 4087 1.384583 TTTTTATGGGCCAGGGCGA 59.615 52.632 13.78 2.83 43.06 5.54
3292 4088 4.026300 TTTTTATGGGCCAGGGCG 57.974 55.556 13.78 0.00 43.06 6.13
3310 4106 6.515272 AACGCATGAGAATGATAGGTTTTT 57.485 33.333 2.50 0.00 0.00 1.94
3311 4107 7.307396 CGATAACGCATGAGAATGATAGGTTTT 60.307 37.037 2.50 0.00 0.00 2.43
3312 4108 6.146184 CGATAACGCATGAGAATGATAGGTTT 59.854 38.462 2.50 0.00 0.00 3.27
3313 4109 5.635280 CGATAACGCATGAGAATGATAGGTT 59.365 40.000 2.50 0.00 0.00 3.50
3314 4110 5.164233 CGATAACGCATGAGAATGATAGGT 58.836 41.667 2.50 0.00 0.00 3.08
3315 4111 4.564372 CCGATAACGCATGAGAATGATAGG 59.436 45.833 2.50 0.00 38.29 2.57
3316 4112 5.164233 ACCGATAACGCATGAGAATGATAG 58.836 41.667 2.50 0.00 38.29 2.08
3317 4113 5.134202 ACCGATAACGCATGAGAATGATA 57.866 39.130 2.50 0.00 38.29 2.15
3318 4114 3.990469 GACCGATAACGCATGAGAATGAT 59.010 43.478 2.50 0.00 38.29 2.45
3319 4115 3.181480 TGACCGATAACGCATGAGAATGA 60.181 43.478 2.50 0.00 38.29 2.57
3320 4116 3.123050 TGACCGATAACGCATGAGAATG 58.877 45.455 2.50 0.00 38.29 2.67
3321 4117 3.384668 CTGACCGATAACGCATGAGAAT 58.615 45.455 2.50 0.00 38.29 2.40
3322 4118 2.809446 CTGACCGATAACGCATGAGAA 58.191 47.619 2.50 0.00 38.29 2.87
3323 4119 1.536072 GCTGACCGATAACGCATGAGA 60.536 52.381 2.50 0.00 38.29 3.27
3324 4120 0.855349 GCTGACCGATAACGCATGAG 59.145 55.000 0.00 0.00 38.29 2.90
3325 4121 0.174617 TGCTGACCGATAACGCATGA 59.825 50.000 0.00 0.00 38.29 3.07
3326 4122 1.220529 ATGCTGACCGATAACGCATG 58.779 50.000 0.00 0.00 39.60 4.06
3327 4123 1.599071 CAATGCTGACCGATAACGCAT 59.401 47.619 0.00 0.00 42.56 4.73
3328 4124 1.006086 CAATGCTGACCGATAACGCA 58.994 50.000 0.00 0.00 38.29 5.24
3329 4125 0.316196 GCAATGCTGACCGATAACGC 60.316 55.000 0.00 0.00 38.29 4.84
3330 4126 1.290203 AGCAATGCTGACCGATAACG 58.710 50.000 7.07 0.00 37.57 3.18
3331 4127 2.677836 TGAAGCAATGCTGACCGATAAC 59.322 45.455 9.14 0.00 39.62 1.89
3332 4128 2.938451 CTGAAGCAATGCTGACCGATAA 59.062 45.455 9.14 0.00 39.62 1.75
3333 4129 2.168313 TCTGAAGCAATGCTGACCGATA 59.832 45.455 9.14 0.00 39.62 2.92
3334 4130 1.065926 TCTGAAGCAATGCTGACCGAT 60.066 47.619 9.14 0.00 39.62 4.18
3335 4131 0.321346 TCTGAAGCAATGCTGACCGA 59.679 50.000 9.14 5.65 39.62 4.69
3336 4132 0.725686 CTCTGAAGCAATGCTGACCG 59.274 55.000 9.14 3.21 39.62 4.79
3347 4143 2.431601 ACGCTGACGCTCTGAAGC 60.432 61.111 0.00 0.00 45.53 3.86
3348 4144 1.803519 GGACGCTGACGCTCTGAAG 60.804 63.158 0.00 0.00 45.53 3.02
3349 4145 2.258591 GGACGCTGACGCTCTGAA 59.741 61.111 0.00 0.00 45.53 3.02
3350 4146 4.103103 CGGACGCTGACGCTCTGA 62.103 66.667 0.00 0.00 45.53 3.27
3357 4153 1.349627 CATGAATGCGGACGCTGAC 59.650 57.895 18.04 9.00 42.51 3.51
3358 4154 2.463620 GCATGAATGCGGACGCTGA 61.464 57.895 18.04 0.00 44.67 4.26
3359 4155 2.023741 GCATGAATGCGGACGCTG 59.976 61.111 18.04 8.27 44.67 5.18
3368 4164 0.395311 ACTCTGGCCAGGCATGAATG 60.395 55.000 32.23 13.88 0.00 2.67
3369 4165 0.395311 CACTCTGGCCAGGCATGAAT 60.395 55.000 32.23 0.00 0.00 2.57
3370 4166 1.001764 CACTCTGGCCAGGCATGAA 60.002 57.895 32.23 11.25 0.00 2.57
3371 4167 2.672908 CACTCTGGCCAGGCATGA 59.327 61.111 32.23 12.28 0.00 3.07
3372 4168 2.439701 CCACTCTGGCCAGGCATG 60.440 66.667 32.23 24.70 0.00 4.06
3373 4169 2.937689 ACCACTCTGGCCAGGCAT 60.938 61.111 32.23 15.28 42.67 4.40
3374 4170 3.640407 GACCACTCTGGCCAGGCA 61.640 66.667 32.23 13.64 42.67 4.75
3375 4171 3.196207 TTGACCACTCTGGCCAGGC 62.196 63.158 32.23 10.74 42.67 4.85
3376 4172 1.002868 CTTGACCACTCTGGCCAGG 60.003 63.158 32.23 23.77 42.67 4.45
3377 4173 0.321122 GTCTTGACCACTCTGGCCAG 60.321 60.000 27.87 27.87 42.67 4.85
3378 4174 1.754745 GTCTTGACCACTCTGGCCA 59.245 57.895 4.71 4.71 42.67 5.36
3379 4175 1.003233 GGTCTTGACCACTCTGGCC 60.003 63.158 14.34 0.00 42.67 5.36
3380 4176 1.374758 CGGTCTTGACCACTCTGGC 60.375 63.158 18.51 0.00 42.67 4.85
3381 4177 1.374758 GCGGTCTTGACCACTCTGG 60.375 63.158 18.51 3.67 45.02 3.86
3382 4178 0.389166 GAGCGGTCTTGACCACTCTG 60.389 60.000 23.18 8.39 36.36 3.35
3383 4179 0.827925 TGAGCGGTCTTGACCACTCT 60.828 55.000 27.57 17.59 39.15 3.24
3384 4180 0.667792 GTGAGCGGTCTTGACCACTC 60.668 60.000 23.50 23.50 38.92 3.51
3385 4181 1.115930 AGTGAGCGGTCTTGACCACT 61.116 55.000 16.64 14.33 0.00 4.00
3386 4182 0.946221 CAGTGAGCGGTCTTGACCAC 60.946 60.000 16.64 9.83 0.00 4.16
3387 4183 1.367471 CAGTGAGCGGTCTTGACCA 59.633 57.895 16.64 0.00 0.00 4.02
3388 4184 1.374758 CCAGTGAGCGGTCTTGACC 60.375 63.158 16.64 9.62 0.00 4.02
3389 4185 0.946221 CACCAGTGAGCGGTCTTGAC 60.946 60.000 16.64 5.81 33.25 3.18
3390 4186 1.367471 CACCAGTGAGCGGTCTTGA 59.633 57.895 16.64 0.00 33.25 3.02
3391 4187 2.320587 GCACCAGTGAGCGGTCTTG 61.321 63.158 16.64 13.47 33.25 3.02
3392 4188 2.031163 GCACCAGTGAGCGGTCTT 59.969 61.111 16.64 1.06 33.25 3.01
3393 4189 4.008933 GGCACCAGTGAGCGGTCT 62.009 66.667 16.64 0.00 33.25 3.85
3399 4195 2.360350 AATGCCGGCACCAGTGAG 60.360 61.111 35.50 0.00 0.00 3.51
3400 4196 2.672651 CAATGCCGGCACCAGTGA 60.673 61.111 35.50 7.17 30.46 3.41
3401 4197 2.203972 CTTCAATGCCGGCACCAGTG 62.204 60.000 35.50 25.85 0.00 3.66
3402 4198 1.973281 CTTCAATGCCGGCACCAGT 60.973 57.895 35.50 14.18 0.00 4.00
3403 4199 2.879907 CTTCAATGCCGGCACCAG 59.120 61.111 35.50 24.14 0.00 4.00
3404 4200 3.372730 GCTTCAATGCCGGCACCA 61.373 61.111 35.50 16.25 0.00 4.17
3405 4201 4.481112 CGCTTCAATGCCGGCACC 62.481 66.667 35.50 14.61 0.00 5.01
3406 4202 3.430862 TCGCTTCAATGCCGGCAC 61.431 61.111 35.50 17.51 0.00 5.01
3407 4203 3.430862 GTCGCTTCAATGCCGGCA 61.431 61.111 34.80 34.80 0.00 5.69
3408 4204 4.520846 CGTCGCTTCAATGCCGGC 62.521 66.667 22.73 22.73 0.00 6.13
3409 4205 4.520846 GCGTCGCTTCAATGCCGG 62.521 66.667 10.68 0.00 0.00 6.13
3410 4206 4.851114 CGCGTCGCTTCAATGCCG 62.851 66.667 16.36 0.00 0.00 5.69
3411 4207 3.702334 GACGCGTCGCTTCAATGCC 62.702 63.158 25.19 0.00 0.00 4.40
3412 4208 2.276058 GACGCGTCGCTTCAATGC 60.276 61.111 25.19 0.00 0.00 3.56
3413 4209 1.057822 CTGACGCGTCGCTTCAATG 59.942 57.895 31.88 12.16 36.44 2.82
3414 4210 2.730672 GCTGACGCGTCGCTTCAAT 61.731 57.895 33.10 4.44 36.44 2.57
3415 4211 3.403057 GCTGACGCGTCGCTTCAA 61.403 61.111 33.10 18.21 36.44 2.69
3437 4233 3.869272 GAAGCAGTGCGGGCGATG 61.869 66.667 10.00 0.00 36.08 3.84
3451 4247 4.379243 AGTCGCCTGCACCGGAAG 62.379 66.667 9.46 0.15 0.00 3.46
3452 4248 4.680237 CAGTCGCCTGCACCGGAA 62.680 66.667 9.46 0.00 0.00 4.30
3463 4259 0.874390 TTTGAATGTGAGGCAGTCGC 59.126 50.000 0.00 0.00 44.38 5.19
3464 4260 1.872952 TGTTTGAATGTGAGGCAGTCG 59.127 47.619 0.00 0.00 44.38 4.18
3465 4261 2.030805 GGTGTTTGAATGTGAGGCAGTC 60.031 50.000 0.00 0.00 42.05 3.51
3466 4262 1.956477 GGTGTTTGAATGTGAGGCAGT 59.044 47.619 0.00 0.00 0.00 4.40
3467 4263 2.233271 AGGTGTTTGAATGTGAGGCAG 58.767 47.619 0.00 0.00 0.00 4.85
3468 4264 2.363306 AGGTGTTTGAATGTGAGGCA 57.637 45.000 0.00 0.00 0.00 4.75
3469 4265 4.437390 CGAATAGGTGTTTGAATGTGAGGC 60.437 45.833 0.00 0.00 0.00 4.70
3470 4266 4.695455 ACGAATAGGTGTTTGAATGTGAGG 59.305 41.667 0.00 0.00 0.00 3.86
3471 4267 5.163854 GGACGAATAGGTGTTTGAATGTGAG 60.164 44.000 0.00 0.00 0.00 3.51
3472 4268 4.693566 GGACGAATAGGTGTTTGAATGTGA 59.306 41.667 0.00 0.00 0.00 3.58
3473 4269 4.454161 TGGACGAATAGGTGTTTGAATGTG 59.546 41.667 0.00 0.00 0.00 3.21
3474 4270 4.647611 TGGACGAATAGGTGTTTGAATGT 58.352 39.130 0.00 0.00 0.00 2.71
3475 4271 5.586243 AGATGGACGAATAGGTGTTTGAATG 59.414 40.000 0.00 0.00 0.00 2.67
3476 4272 5.586243 CAGATGGACGAATAGGTGTTTGAAT 59.414 40.000 0.00 0.00 0.00 2.57
3477 4273 4.935205 CAGATGGACGAATAGGTGTTTGAA 59.065 41.667 0.00 0.00 0.00 2.69
3478 4274 4.020573 ACAGATGGACGAATAGGTGTTTGA 60.021 41.667 0.00 0.00 0.00 2.69
3479 4275 4.253685 ACAGATGGACGAATAGGTGTTTG 58.746 43.478 0.00 0.00 0.00 2.93
3480 4276 4.504858 GACAGATGGACGAATAGGTGTTT 58.495 43.478 0.00 0.00 0.00 2.83
3481 4277 3.428999 CGACAGATGGACGAATAGGTGTT 60.429 47.826 0.00 0.00 0.00 3.32
3482 4278 2.099263 CGACAGATGGACGAATAGGTGT 59.901 50.000 0.00 0.00 0.00 4.16
3483 4279 2.732366 CGACAGATGGACGAATAGGTG 58.268 52.381 0.00 0.00 0.00 4.00
3484 4280 1.067212 GCGACAGATGGACGAATAGGT 59.933 52.381 0.00 0.00 0.00 3.08
3485 4281 1.603172 GGCGACAGATGGACGAATAGG 60.603 57.143 0.00 0.00 0.00 2.57
3486 4282 1.603172 GGGCGACAGATGGACGAATAG 60.603 57.143 0.00 0.00 0.00 1.73
3487 4283 0.387929 GGGCGACAGATGGACGAATA 59.612 55.000 0.00 0.00 0.00 1.75
3488 4284 1.144057 GGGCGACAGATGGACGAAT 59.856 57.895 0.00 0.00 0.00 3.34
3489 4285 2.279810 TGGGCGACAGATGGACGAA 61.280 57.895 0.00 0.00 0.00 3.85
3490 4286 2.678580 TGGGCGACAGATGGACGA 60.679 61.111 0.00 0.00 0.00 4.20
3491 4287 2.509336 GTGGGCGACAGATGGACG 60.509 66.667 0.00 0.00 0.00 4.79
3492 4288 0.392998 AATGTGGGCGACAGATGGAC 60.393 55.000 8.63 0.00 38.23 4.02
3493 4289 0.392863 CAATGTGGGCGACAGATGGA 60.393 55.000 8.63 0.00 38.23 3.41
3494 4290 0.392863 TCAATGTGGGCGACAGATGG 60.393 55.000 8.63 0.00 38.23 3.51
3495 4291 1.332686 CATCAATGTGGGCGACAGATG 59.667 52.381 14.33 14.33 38.23 2.90
3496 4292 1.210234 TCATCAATGTGGGCGACAGAT 59.790 47.619 8.63 3.65 38.23 2.90
3497 4293 0.612744 TCATCAATGTGGGCGACAGA 59.387 50.000 8.63 1.18 38.23 3.41
3498 4294 1.671979 ATCATCAATGTGGGCGACAG 58.328 50.000 8.63 0.00 38.23 3.51
3499 4295 2.093235 TGTATCATCAATGTGGGCGACA 60.093 45.455 4.40 4.40 39.53 4.35
3500 4296 2.287915 GTGTATCATCAATGTGGGCGAC 59.712 50.000 0.00 0.00 0.00 5.19
3501 4297 2.560504 GTGTATCATCAATGTGGGCGA 58.439 47.619 0.00 0.00 0.00 5.54
3502 4298 1.261354 CGTGTATCATCAATGTGGGCG 59.739 52.381 0.00 0.00 0.00 6.13
3503 4299 1.603802 CCGTGTATCATCAATGTGGGC 59.396 52.381 0.00 0.00 0.00 5.36
3504 4300 2.917933 ACCGTGTATCATCAATGTGGG 58.082 47.619 0.00 0.00 0.00 4.61
3505 4301 3.487376 GCAACCGTGTATCATCAATGTGG 60.487 47.826 0.00 0.00 0.00 4.17
3506 4302 3.487376 GGCAACCGTGTATCATCAATGTG 60.487 47.826 0.00 0.00 0.00 3.21
3507 4303 2.682856 GGCAACCGTGTATCATCAATGT 59.317 45.455 0.00 0.00 0.00 2.71
3508 4304 2.286359 CGGCAACCGTGTATCATCAATG 60.286 50.000 0.00 0.00 42.73 2.82
3509 4305 1.939934 CGGCAACCGTGTATCATCAAT 59.060 47.619 0.00 0.00 42.73 2.57
3510 4306 1.364721 CGGCAACCGTGTATCATCAA 58.635 50.000 0.00 0.00 42.73 2.57
3511 4307 3.058115 CGGCAACCGTGTATCATCA 57.942 52.632 0.00 0.00 42.73 3.07


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

AutoCloner maintained by Alex Coulton.