Multiple sequence alignment - TraesCS2D01G268300

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G268300 chr2D 100.000 4090 0 0 1 4090 328374057 328369968 0.000000e+00 7553.0
1 TraesCS2D01G268300 chr2D 84.158 202 26 5 396 593 602777386 602777585 1.500000e-44 191.0
2 TraesCS2D01G268300 chr2A 92.385 2285 72 41 1249 3459 434613430 434611174 0.000000e+00 3162.0
3 TraesCS2D01G268300 chr2A 93.581 592 23 4 3514 4090 434579959 434579368 0.000000e+00 869.0
4 TraesCS2D01G268300 chr2A 95.303 511 15 4 675 1177 434613947 434613438 0.000000e+00 802.0
5 TraesCS2D01G268300 chr2A 91.036 502 26 7 1 489 434616567 434616072 0.000000e+00 660.0
6 TraesCS2D01G268300 chr2A 94.500 200 11 0 477 676 434616054 434615855 3.970000e-80 309.0
7 TraesCS2D01G268300 chr2A 97.297 74 2 0 3458 3531 434580337 434580264 4.290000e-25 126.0
8 TraesCS2D01G268300 chr2A 80.838 167 20 6 407 570 746625236 746625079 2.000000e-23 121.0
9 TraesCS2D01G268300 chr2B 91.246 2296 62 59 1233 3440 397456290 397454046 0.000000e+00 2998.0
10 TraesCS2D01G268300 chr2B 90.917 1189 76 16 3 1177 397457458 397456288 0.000000e+00 1568.0
11 TraesCS2D01G268300 chr2B 87.829 608 22 14 3490 4090 397454048 397453486 0.000000e+00 665.0
12 TraesCS2D01G268300 chr2B 88.525 61 6 1 1173 1232 207721582 207721522 5.670000e-09 73.1
13 TraesCS2D01G268300 chr2B 92.500 40 2 1 1175 1213 786128362 786128323 5.710000e-04 56.5
14 TraesCS2D01G268300 chr1B 77.799 536 84 16 32 556 348485184 348485695 8.590000e-77 298.0
15 TraesCS2D01G268300 chr1D 76.623 539 76 24 70 599 9039700 9039203 6.790000e-63 252.0
16 TraesCS2D01G268300 chr1D 77.440 461 57 19 35 490 424467891 424467473 8.840000e-57 231.0
17 TraesCS2D01G268300 chr1D 78.659 164 29 2 399 561 420854355 420854197 2.010000e-18 104.0
18 TraesCS2D01G268300 chr7D 77.506 449 62 23 56 495 555185593 555186011 2.460000e-57 233.0
19 TraesCS2D01G268300 chr7D 97.436 39 1 0 2 40 56539951 56539989 2.640000e-07 67.6
20 TraesCS2D01G268300 chr7A 80.000 200 35 4 399 593 11282920 11283119 4.260000e-30 143.0
21 TraesCS2D01G268300 chr7A 82.609 138 20 3 395 532 118482159 118482292 7.180000e-23 119.0
22 TraesCS2D01G268300 chr7A 97.368 38 1 0 1173 1210 215888125 215888088 9.490000e-07 65.8
23 TraesCS2D01G268300 chr4A 81.481 189 21 10 352 538 650306638 650306462 4.260000e-30 143.0
24 TraesCS2D01G268300 chr3D 76.984 252 40 9 350 585 608567095 608566846 1.190000e-25 128.0
25 TraesCS2D01G268300 chr3D 78.495 186 34 5 411 592 566602481 566602298 2.580000e-22 117.0
26 TraesCS2D01G268300 chr3D 93.651 63 3 1 1170 1231 357643027 357643089 4.350000e-15 93.5
27 TraesCS2D01G268300 chr3B 87.952 83 4 4 505 581 710166935 710167017 4.350000e-15 93.5
28 TraesCS2D01G268300 chr6D 94.595 37 0 1 1173 1207 412775870 412775906 5.710000e-04 56.5
29 TraesCS2D01G268300 chr3A 100.000 28 0 0 1174 1201 196764158 196764185 7.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G268300 chr2D 328369968 328374057 4089 True 7553.000000 7553 100.000000 1 4090 1 chr2D.!!$R1 4089
1 TraesCS2D01G268300 chr2A 434611174 434616567 5393 True 1233.250000 3162 93.306000 1 3459 4 chr2A.!!$R3 3458
2 TraesCS2D01G268300 chr2A 434579368 434580337 969 True 497.500000 869 95.439000 3458 4090 2 chr2A.!!$R2 632
3 TraesCS2D01G268300 chr2B 397453486 397457458 3972 True 1743.666667 2998 89.997333 3 4090 3 chr2B.!!$R3 4087
4 TraesCS2D01G268300 chr1B 348485184 348485695 511 False 298.000000 298 77.799000 32 556 1 chr1B.!!$F1 524

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
190 193 2.736144 ACAGAGTACGCGGAATGAAA 57.264 45.0 12.47 0.0 0.0 2.69 F
1169 3138 0.821517 TACGGATGCGAGGAACACAT 59.178 50.0 15.49 0.0 0.0 3.21 F
2341 4369 0.620556 AACTGACGATGGCTGGGAAT 59.379 50.0 0.00 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 3763 0.179006 GGGGGTTCTCATCCAGCATC 60.179 60.0 0.0 0.0 0.00 3.91 R
2875 4937 0.177836 GCTGAGGAAGAGAGGGAAGC 59.822 60.0 0.0 0.0 0.00 3.86 R
3442 5525 0.179056 TAGGATTTAGCCTGCCACGC 60.179 55.0 0.0 0.0 39.08 5.34 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
40 41 3.851976 AGGTAGCTAGTCACTGAAACG 57.148 47.619 0.00 0.00 0.00 3.60
83 84 3.304458 GCGTTTCCTTCGTTCCTTGAAAT 60.304 43.478 0.00 0.00 0.00 2.17
190 193 2.736144 ACAGAGTACGCGGAATGAAA 57.264 45.000 12.47 0.00 0.00 2.69
330 337 3.060138 GTGCGACTCGTTTTGTTATCACA 60.060 43.478 0.00 0.00 0.00 3.58
336 343 4.202326 ACTCGTTTTGTTATCACAGGGACT 60.202 41.667 0.00 0.00 43.88 3.85
342 349 6.428083 TTTGTTATCACAGGGACTAGAACA 57.572 37.500 0.00 0.00 36.02 3.18
403 422 5.995446 AGAATAAAAGGGCCAAACAAAACA 58.005 33.333 6.18 0.00 0.00 2.83
475 495 5.348997 CAGCAAGTTAGTTGTCCTAGTTAGC 59.651 44.000 1.55 0.00 38.55 3.09
637 687 9.581289 TGGTTAAATGACCATATTACCCTTATG 57.419 33.333 0.00 0.00 44.53 1.90
883 2848 3.352648 TGCAGCCCTCTGGTTAATTAAC 58.647 45.455 18.30 18.30 40.65 2.01
920 2885 4.464008 ACCCGATCGTTCCAACTAGTATA 58.536 43.478 15.09 0.00 0.00 1.47
924 2889 6.420008 CCCGATCGTTCCAACTAGTATAAAAG 59.580 42.308 15.09 0.00 0.00 2.27
1019 2988 4.554723 GCGTATGGCCAGATTAACAATGTC 60.555 45.833 13.05 0.00 34.80 3.06
1169 3138 0.821517 TACGGATGCGAGGAACACAT 59.178 50.000 15.49 0.00 0.00 3.21
1177 3146 2.094390 TGCGAGGAACACATGGTACTAC 60.094 50.000 0.00 0.00 0.00 2.73
1179 3148 3.734293 GCGAGGAACACATGGTACTACTC 60.734 52.174 0.00 0.00 0.00 2.59
1180 3149 3.181489 CGAGGAACACATGGTACTACTCC 60.181 52.174 0.00 0.00 0.00 3.85
1185 3154 1.681793 CACATGGTACTACTCCCTCCG 59.318 57.143 0.00 0.00 0.00 4.63
1186 3155 1.287146 ACATGGTACTACTCCCTCCGT 59.713 52.381 0.00 0.00 0.00 4.69
1189 3158 1.637553 TGGTACTACTCCCTCCGTCTT 59.362 52.381 0.00 0.00 0.00 3.01
1190 3159 2.846206 TGGTACTACTCCCTCCGTCTTA 59.154 50.000 0.00 0.00 0.00 2.10
1193 3162 5.132648 TGGTACTACTCCCTCCGTCTTATAA 59.867 44.000 0.00 0.00 0.00 0.98
1194 3163 6.183361 TGGTACTACTCCCTCCGTCTTATAAT 60.183 42.308 0.00 0.00 0.00 1.28
1195 3164 7.017551 TGGTACTACTCCCTCCGTCTTATAATA 59.982 40.741 0.00 0.00 0.00 0.98
1196 3165 8.052141 GGTACTACTCCCTCCGTCTTATAATAT 58.948 40.741 0.00 0.00 0.00 1.28
1199 3168 9.683870 ACTACTCCCTCCGTCTTATAATATAAG 57.316 37.037 12.58 12.58 0.00 1.73
1200 3169 9.902684 CTACTCCCTCCGTCTTATAATATAAGA 57.097 37.037 16.39 16.39 0.00 2.10
1201 3170 8.810990 ACTCCCTCCGTCTTATAATATAAGAG 57.189 38.462 19.73 14.20 34.59 2.85
1202 3171 8.392479 ACTCCCTCCGTCTTATAATATAAGAGT 58.608 37.037 19.73 10.73 34.59 3.24
1203 3172 9.245481 CTCCCTCCGTCTTATAATATAAGAGTT 57.755 37.037 19.73 0.00 34.59 3.01
1204 3173 9.597681 TCCCTCCGTCTTATAATATAAGAGTTT 57.402 33.333 19.73 0.00 34.59 2.66
1243 3212 7.125536 AGTGTCAAAAACGCTAATTACTACC 57.874 36.000 0.00 0.00 46.85 3.18
1244 3213 6.011277 GTGTCAAAAACGCTAATTACTACCG 58.989 40.000 0.00 0.00 35.42 4.02
1245 3214 5.017612 GTCAAAAACGCTAATTACTACCGC 58.982 41.667 0.00 0.00 0.00 5.68
1246 3215 4.931002 TCAAAAACGCTAATTACTACCGCT 59.069 37.500 0.00 0.00 0.00 5.52
1247 3216 5.409214 TCAAAAACGCTAATTACTACCGCTT 59.591 36.000 0.00 0.00 0.00 4.68
1265 3234 3.788766 CAGTAACCAGGCGCGTGC 61.789 66.667 24.07 13.78 41.71 5.34
1314 3283 4.698304 TGACGGAAGATTAATTTGGTGGTC 59.302 41.667 0.00 0.00 0.00 4.02
1451 3420 1.516161 CACGGCCTCATGATGGTATG 58.484 55.000 0.00 0.00 0.00 2.39
1452 3421 1.070601 CACGGCCTCATGATGGTATGA 59.929 52.381 0.00 0.00 35.83 2.15
1453 3422 1.980765 ACGGCCTCATGATGGTATGAT 59.019 47.619 0.00 0.00 36.55 2.45
1468 3440 9.474313 TGATGGTATGATACATATACTACAGCA 57.526 33.333 4.83 0.00 32.81 4.41
1469 3441 9.737427 GATGGTATGATACATATACTACAGCAC 57.263 37.037 4.83 0.00 32.81 4.40
1470 3442 8.879427 TGGTATGATACATATACTACAGCACT 57.121 34.615 4.83 0.00 32.81 4.40
1471 3443 9.969001 TGGTATGATACATATACTACAGCACTA 57.031 33.333 4.83 0.00 32.81 2.74
1530 3502 3.558829 CGATAGCAAGTGCAAGTGATGAT 59.441 43.478 6.00 0.00 45.16 2.45
1757 3735 5.466728 GTGATGTGCACTCTCTTCTTTGTTA 59.533 40.000 19.41 0.00 44.27 2.41
1929 3919 5.040635 CGCTGGTAAGTCACAAAACAAAAT 58.959 37.500 0.00 0.00 0.00 1.82
1931 3921 6.141685 CGCTGGTAAGTCACAAAACAAAATAC 59.858 38.462 0.00 0.00 0.00 1.89
1932 3922 7.200455 GCTGGTAAGTCACAAAACAAAATACT 58.800 34.615 0.00 0.00 0.00 2.12
1933 3923 7.378728 GCTGGTAAGTCACAAAACAAAATACTC 59.621 37.037 0.00 0.00 0.00 2.59
1934 3924 8.282455 TGGTAAGTCACAAAACAAAATACTCA 57.718 30.769 0.00 0.00 0.00 3.41
1935 3925 8.185505 TGGTAAGTCACAAAACAAAATACTCAC 58.814 33.333 0.00 0.00 0.00 3.51
1936 3926 8.185505 GGTAAGTCACAAAACAAAATACTCACA 58.814 33.333 0.00 0.00 0.00 3.58
1937 3927 9.562583 GTAAGTCACAAAACAAAATACTCACAA 57.437 29.630 0.00 0.00 0.00 3.33
1980 3986 6.485171 AGTAGATTAAGAAACCTGTGGCATT 58.515 36.000 0.00 0.00 0.00 3.56
2012 4018 2.103538 GGGACGTTGATCGCGCTA 59.896 61.111 5.56 0.00 44.19 4.26
2109 4115 2.504274 AAGGTGTCGTCGCCCTTGA 61.504 57.895 8.69 0.00 44.61 3.02
2192 4204 5.983118 GGTATCACATCACACGACATGAATA 59.017 40.000 0.00 0.00 0.00 1.75
2278 4300 6.252995 TCCAACAGGGTAATTTAAGCATTCT 58.747 36.000 0.00 0.00 38.11 2.40
2341 4369 0.620556 AACTGACGATGGCTGGGAAT 59.379 50.000 0.00 0.00 0.00 3.01
2348 4376 3.882888 GACGATGGCTGGGAATTAATGAA 59.117 43.478 0.00 0.00 0.00 2.57
2349 4377 4.473444 ACGATGGCTGGGAATTAATGAAT 58.527 39.130 0.00 0.00 0.00 2.57
2499 4530 0.892358 ACTGAGTAACTGGTCGGCGA 60.892 55.000 4.99 4.99 0.00 5.54
2719 4770 4.062677 TCCCGTCGAAAAAGAGAAAGAA 57.937 40.909 0.00 0.00 0.00 2.52
2726 4777 7.431084 CCGTCGAAAAAGAGAAAGAAATGAAAA 59.569 33.333 0.00 0.00 0.00 2.29
3299 5375 5.234543 GCTCCCTTAGAAAATGATACGTGAC 59.765 44.000 0.00 0.00 0.00 3.67
3442 5525 5.820926 GCATAAGCTTCTATCGAACTCTG 57.179 43.478 0.00 0.00 37.91 3.35
3499 5582 0.826256 ACACACTCGACTAGGCACCA 60.826 55.000 0.00 0.00 0.00 4.17
3554 5959 2.234143 CTCCTATCTCGCACATCCTGA 58.766 52.381 0.00 0.00 0.00 3.86
3593 6003 4.704540 TGGTAATTTCGATTTGACAGCCAT 59.295 37.500 0.00 0.00 0.00 4.40
3622 6034 1.876799 CGTTTTGCCTACACACCATCA 59.123 47.619 0.00 0.00 0.00 3.07
3667 6085 4.556592 AACCTACTTGTACGGGCATAAA 57.443 40.909 0.00 0.00 0.00 1.40
3682 6100 4.098416 GGCATAAATCAGAGCGAAACAAC 58.902 43.478 0.00 0.00 0.00 3.32
3687 6105 3.729526 ATCAGAGCGAAACAACAATCG 57.270 42.857 0.00 0.00 41.81 3.34
3767 6185 2.126850 TCGTCGCTGCTCTTGTCG 60.127 61.111 0.00 0.00 0.00 4.35
3935 6356 1.346395 TCCGTCTTTGGCTTCTTGCTA 59.654 47.619 0.00 0.00 42.39 3.49
3981 6402 1.762957 GAGTCTTAGTATGGGCAGGCA 59.237 52.381 0.00 0.00 0.00 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
137 140 0.109272 GGTTCTCGTCGCATGAGTCA 60.109 55.000 0.00 0.00 33.10 3.41
190 193 2.812836 TGCACAAGATGGATGGACAT 57.187 45.000 0.00 0.00 0.00 3.06
270 273 9.685828 AACACATATAGTTAACGCAAACAAAAT 57.314 25.926 0.00 0.00 0.00 1.82
271 274 9.517609 AAACACATATAGTTAACGCAAACAAAA 57.482 25.926 0.00 0.00 0.00 2.44
330 337 7.918076 TCTTCATAAAACATGTTCTAGTCCCT 58.082 34.615 12.39 0.00 0.00 4.20
403 422 5.357878 TCTTGTTGTGCATCTTCTCAGTTTT 59.642 36.000 0.00 0.00 0.00 2.43
475 495 4.688879 TCAATTTACTTCCACACGCTGTAG 59.311 41.667 0.00 0.00 0.00 2.74
487 537 5.249420 ACTCCCAAGCTCTCAATTTACTTC 58.751 41.667 0.00 0.00 0.00 3.01
553 603 0.608130 GCCGGCCCATTTTTCTTTCT 59.392 50.000 18.11 0.00 0.00 2.52
637 687 2.359975 CCCTCCCTCACAAACCGC 60.360 66.667 0.00 0.00 0.00 5.68
786 2745 4.316645 TGTGGCGCACTTAACATAGTTTA 58.683 39.130 10.83 0.00 35.11 2.01
787 2746 3.142951 TGTGGCGCACTTAACATAGTTT 58.857 40.909 10.83 0.00 35.11 2.66
788 2747 2.773487 TGTGGCGCACTTAACATAGTT 58.227 42.857 10.83 0.00 35.11 2.24
789 2748 2.465860 TGTGGCGCACTTAACATAGT 57.534 45.000 10.83 0.00 35.11 2.12
790 2749 2.473868 CGTTGTGGCGCACTTAACATAG 60.474 50.000 10.83 0.00 35.11 2.23
791 2750 1.461512 CGTTGTGGCGCACTTAACATA 59.538 47.619 10.83 0.00 35.11 2.29
793 2752 1.644372 CGTTGTGGCGCACTTAACA 59.356 52.632 10.83 2.08 35.11 2.41
794 2753 4.507794 CGTTGTGGCGCACTTAAC 57.492 55.556 10.83 7.83 35.11 2.01
883 2848 1.794222 GGGTCATTTTCGACGCAGG 59.206 57.895 3.56 0.00 45.47 4.85
920 2885 2.173569 CTCCCCGATCCATCTTCCTTTT 59.826 50.000 0.00 0.00 0.00 2.27
924 2889 0.972883 CTCTCCCCGATCCATCTTCC 59.027 60.000 0.00 0.00 0.00 3.46
1036 3005 1.880027 CACAACCAACAGGCTAAGGAC 59.120 52.381 6.11 0.00 0.00 3.85
1088 3057 3.142393 CCAGCGATTCCTCCGGAT 58.858 61.111 3.57 0.00 0.00 4.18
1169 3138 1.293062 AGACGGAGGGAGTAGTACCA 58.707 55.000 0.40 0.00 0.00 3.25
1177 3146 8.810990 ACTCTTATATTATAAGACGGAGGGAG 57.189 38.462 18.17 10.83 31.09 4.30
1211 3180 9.649167 AATTAGCGTTTTTGACACTATACTAGT 57.351 29.630 0.00 0.00 40.28 2.57
1214 3183 9.649167 AGTAATTAGCGTTTTTGACACTATACT 57.351 29.630 0.00 0.00 0.00 2.12
1217 3186 8.876790 GGTAGTAATTAGCGTTTTTGACACTAT 58.123 33.333 0.00 0.00 0.00 2.12
1218 3187 7.062138 CGGTAGTAATTAGCGTTTTTGACACTA 59.938 37.037 0.00 0.00 45.60 2.74
1219 3188 6.128742 CGGTAGTAATTAGCGTTTTTGACACT 60.129 38.462 0.00 0.00 45.60 3.55
1220 3189 6.011277 CGGTAGTAATTAGCGTTTTTGACAC 58.989 40.000 0.00 0.00 45.60 3.67
1221 3190 6.155691 CGGTAGTAATTAGCGTTTTTGACA 57.844 37.500 0.00 0.00 45.60 3.58
1231 3200 5.461407 GGTTACTGAAGCGGTAGTAATTAGC 59.539 44.000 11.88 1.72 40.36 3.09
1232 3201 6.567050 TGGTTACTGAAGCGGTAGTAATTAG 58.433 40.000 11.88 0.00 40.36 1.73
1233 3202 6.406177 CCTGGTTACTGAAGCGGTAGTAATTA 60.406 42.308 11.88 5.31 40.36 1.40
1234 3203 5.410355 TGGTTACTGAAGCGGTAGTAATT 57.590 39.130 11.88 0.00 40.36 1.40
1235 3204 4.142004 CCTGGTTACTGAAGCGGTAGTAAT 60.142 45.833 11.88 0.00 40.36 1.89
1236 3205 3.194116 CCTGGTTACTGAAGCGGTAGTAA 59.806 47.826 6.00 6.00 37.68 2.24
1237 3206 2.756760 CCTGGTTACTGAAGCGGTAGTA 59.243 50.000 0.00 0.00 37.68 1.82
1238 3207 1.549170 CCTGGTTACTGAAGCGGTAGT 59.451 52.381 0.00 0.00 37.68 2.73
1239 3208 1.739371 GCCTGGTTACTGAAGCGGTAG 60.739 57.143 0.00 0.00 37.68 3.18
1240 3209 0.248289 GCCTGGTTACTGAAGCGGTA 59.752 55.000 0.00 0.00 37.68 4.02
1241 3210 1.003718 GCCTGGTTACTGAAGCGGT 60.004 57.895 0.00 0.00 37.68 5.68
1242 3211 2.100631 CGCCTGGTTACTGAAGCGG 61.101 63.158 0.00 0.00 39.89 5.52
1243 3212 2.740714 GCGCCTGGTTACTGAAGCG 61.741 63.158 0.00 0.00 45.91 4.68
1244 3213 2.740714 CGCGCCTGGTTACTGAAGC 61.741 63.158 0.00 0.00 0.00 3.86
1245 3214 1.374252 ACGCGCCTGGTTACTGAAG 60.374 57.895 5.73 0.00 0.00 3.02
1246 3215 1.666553 CACGCGCCTGGTTACTGAA 60.667 57.895 5.73 0.00 0.00 3.02
1247 3216 2.048597 CACGCGCCTGGTTACTGA 60.049 61.111 5.73 0.00 0.00 3.41
1265 3234 8.393366 AGTTAATCAAACATGATGAGATGAACG 58.607 33.333 0.00 0.00 40.83 3.95
1314 3283 2.788176 CGTCACCTGCATGTACGCG 61.788 63.158 3.53 3.53 33.35 6.01
1465 3437 5.424121 CAGTTGCTTTTTACTGTAGTGCT 57.576 39.130 0.00 0.00 37.56 4.40
1472 3444 5.591099 ACATCCAACAGTTGCTTTTTACTG 58.409 37.500 7.88 0.00 45.61 2.74
1473 3445 5.852282 ACATCCAACAGTTGCTTTTTACT 57.148 34.783 7.88 0.00 0.00 2.24
1474 3446 7.995463 TTAACATCCAACAGTTGCTTTTTAC 57.005 32.000 7.88 0.00 0.00 2.01
1530 3502 5.988561 GTCCTGCATTCCAACAAAACAAATA 59.011 36.000 0.00 0.00 0.00 1.40
1765 3743 6.291377 GGTTCTCATCCAGCATCAGTATTAA 58.709 40.000 0.00 0.00 0.00 1.40
1773 3763 0.179006 GGGGGTTCTCATCCAGCATC 60.179 60.000 0.00 0.00 0.00 3.91
1929 3919 3.106827 TGCCCTGAGATCATTGTGAGTA 58.893 45.455 0.00 0.00 0.00 2.59
1931 3921 2.704464 TGCCCTGAGATCATTGTGAG 57.296 50.000 0.00 0.00 0.00 3.51
1932 3922 2.158711 GGATGCCCTGAGATCATTGTGA 60.159 50.000 0.00 0.00 0.00 3.58
1933 3923 2.228059 GGATGCCCTGAGATCATTGTG 58.772 52.381 0.00 0.00 0.00 3.33
1934 3924 1.144503 GGGATGCCCTGAGATCATTGT 59.855 52.381 0.00 0.00 41.34 2.71
1935 3925 1.881072 CGGGATGCCCTGAGATCATTG 60.881 57.143 0.00 0.00 42.67 2.82
1936 3926 0.399454 CGGGATGCCCTGAGATCATT 59.601 55.000 0.00 0.00 42.67 2.57
1937 3927 0.472543 TCGGGATGCCCTGAGATCAT 60.473 55.000 0.00 0.00 42.79 2.45
1938 3928 1.075301 TCGGGATGCCCTGAGATCA 60.075 57.895 0.00 0.00 42.79 2.92
1980 3986 0.537143 GTCCCCTGCATTCACACACA 60.537 55.000 0.00 0.00 0.00 3.72
2278 4300 5.420421 ACCTCAGAAGAAGAGAATGAATCGA 59.580 40.000 0.00 0.00 35.09 3.59
2341 4369 7.876582 CAGTCCTGCATAGAGATCATTCATTAA 59.123 37.037 0.00 0.00 0.00 1.40
2375 4403 2.419159 GCATATGTCAGTGAGCAGACCA 60.419 50.000 4.29 0.00 33.89 4.02
2499 4530 5.469084 GGTCGACCAATAGTTTCTTTCAGTT 59.531 40.000 29.75 0.00 35.64 3.16
2671 4707 3.151710 TATCGACTGTGGCCGGGG 61.152 66.667 2.18 0.00 0.00 5.73
2675 4711 0.249398 AAGGTGTATCGACTGTGGCC 59.751 55.000 0.00 0.00 0.00 5.36
2699 4735 4.806342 TTTCTTTCTCTTTTTCGACGGG 57.194 40.909 0.00 0.00 0.00 5.28
2726 4777 9.646427 AATTACATGTGCCACGTTAATTATTTT 57.354 25.926 9.11 0.00 0.00 1.82
2729 4780 8.462811 TCAAATTACATGTGCCACGTTAATTAT 58.537 29.630 9.11 0.00 0.00 1.28
2730 4781 7.751348 GTCAAATTACATGTGCCACGTTAATTA 59.249 33.333 9.11 0.00 0.00 1.40
2731 4782 6.584563 GTCAAATTACATGTGCCACGTTAATT 59.415 34.615 9.11 0.77 0.00 1.40
2732 4783 6.090129 GTCAAATTACATGTGCCACGTTAAT 58.910 36.000 9.11 0.00 0.00 1.40
2875 4937 0.177836 GCTGAGGAAGAGAGGGAAGC 59.822 60.000 0.00 0.00 0.00 3.86
3144 5206 7.882791 TCACATGATTTACAAGTATGACCACTT 59.117 33.333 0.00 0.00 39.34 3.16
3239 5309 4.026640 CACTGCGAAAACATGGAAAACTTG 60.027 41.667 0.00 0.00 0.00 3.16
3242 5312 2.794350 CCACTGCGAAAACATGGAAAAC 59.206 45.455 0.00 0.00 31.69 2.43
3254 5324 1.745115 GCTATGGTGCCACTGCGAA 60.745 57.895 0.00 0.00 41.78 4.70
3299 5375 1.323534 GTCCAGTATGCAGTTTACGCG 59.676 52.381 3.53 3.53 31.97 6.01
3442 5525 0.179056 TAGGATTTAGCCTGCCACGC 60.179 55.000 0.00 0.00 39.08 5.34
3493 5576 0.727398 GCTCAGTATCGTTTGGTGCC 59.273 55.000 0.00 0.00 0.00 5.01
3499 5582 4.267928 GCGATTTACTGCTCAGTATCGTTT 59.732 41.667 24.24 7.02 44.98 3.60
3554 5959 0.839946 ACCAAGAGAAGGCACACTGT 59.160 50.000 0.00 0.00 0.00 3.55
3593 6003 2.070783 GTAGGCAAAACGTGATCGGAA 58.929 47.619 0.00 0.00 41.85 4.30
3622 6034 2.185004 ACGGTTCAAAGCAGCACTAT 57.815 45.000 0.00 0.00 0.00 2.12
3667 6085 3.729526 CGATTGTTGTTTCGCTCTGAT 57.270 42.857 0.00 0.00 0.00 2.90
3687 6105 2.202878 TATCGTGGCGCTTCTGGC 60.203 61.111 7.64 0.00 37.64 4.85
3767 6185 3.643978 GCGCCGGCAGATGATGAC 61.644 66.667 28.98 0.68 39.62 3.06
3935 6356 4.825252 GTACCGGCGCCGTCCAAT 62.825 66.667 43.12 25.97 37.81 3.16
3951 6372 0.900647 ACTAAGACTCCTGCGCCAGT 60.901 55.000 4.18 3.82 0.00 4.00


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

AutoCloner maintained by Alex Coulton.