Multiple sequence alignment - TraesCS7B01G421600

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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 TraesCS7B01G421600 chr7B 100.000 4000 0 0 1 4000 690740039 690744038 0.000000e+00 7387.0
1 TraesCS7B01G421600 chr7A 92.388 3626 179 40 1 3594 698670017 698673577 0.000000e+00 5077.0
2 TraesCS7B01G421600 chr7A 84.296 1471 169 33 985 2421 189442753 189444195 0.000000e+00 1380.0
3 TraesCS7B01G421600 chr7A 87.963 432 27 4 3591 4000 698673622 698674050 1.670000e-133 486.0
4 TraesCS7B01G421600 chr7D 88.901 3676 265 70 1 3595 606556709 606560322 0.000000e+00 4396.0
5 TraesCS7B01G421600 chr7D 97.436 39 1 0 1547 1585 606558155 606558193 2.580000e-07 67.6
6 TraesCS7B01G421600 chr6B 83.535 1652 204 34 804 2421 288784670 288786287 0.000000e+00 1482.0
7 TraesCS7B01G421600 chr1B 83.051 1652 202 37 804 2421 642426006 642424399 0.000000e+00 1428.0
8 TraesCS7B01G421600 chr1B 84.979 486 71 2 951 1435 251884155 251884639 3.590000e-135 492.0
9 TraesCS7B01G421600 chr3B 82.296 1655 222 41 804 2421 483399595 483397975 0.000000e+00 1367.0
10 TraesCS7B01G421600 chr4A 85.031 481 70 2 946 1425 608362930 608363409 4.650000e-134 488.0
11 TraesCS7B01G421600 chr2B 83.740 492 76 4 946 1435 218470006 218470495 2.820000e-126 462.0
12 TraesCS7B01G421600 chr2B 82.961 493 80 3 946 1435 218401293 218401784 3.670000e-120 442.0
13 TraesCS7B01G421600 chrUn 83.180 327 44 2 1109 1435 480791321 480791636 5.060000e-74 289.0
14 TraesCS7B01G421600 chrUn 84.211 114 8 6 1833 1946 317059025 317059128 7.070000e-18 102.0
15 TraesCS7B01G421600 chrUn 84.211 114 8 6 1833 1946 317062569 317062672 7.070000e-18 102.0
16 TraesCS7B01G421600 chrUn 84.211 114 8 6 1833 1946 340293508 340293611 7.070000e-18 102.0
17 TraesCS7B01G421600 chr1D 93.548 62 3 1 1889 1949 16103985 16103924 1.530000e-14 91.6


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G421600 chr7B 690740039 690744038 3999 False 7387.0 7387 100.0000 1 4000 1 chr7B.!!$F1 3999
1 TraesCS7B01G421600 chr7A 698670017 698674050 4033 False 2781.5 5077 90.1755 1 4000 2 chr7A.!!$F2 3999
2 TraesCS7B01G421600 chr7A 189442753 189444195 1442 False 1380.0 1380 84.2960 985 2421 1 chr7A.!!$F1 1436
3 TraesCS7B01G421600 chr7D 606556709 606560322 3613 False 2231.8 4396 93.1685 1 3595 2 chr7D.!!$F1 3594
4 TraesCS7B01G421600 chr6B 288784670 288786287 1617 False 1482.0 1482 83.5350 804 2421 1 chr6B.!!$F1 1617
5 TraesCS7B01G421600 chr1B 642424399 642426006 1607 True 1428.0 1428 83.0510 804 2421 1 chr1B.!!$R1 1617
6 TraesCS7B01G421600 chr3B 483397975 483399595 1620 True 1367.0 1367 82.2960 804 2421 1 chr3B.!!$R1 1617

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
906 950 0.531974 TCTTTGGTGTGACGCTGACC 60.532 55.0 0.0 0.0 0.00 4.02 F
1218 1293 0.449388 GCTCTGGCATCTTTGGTTCG 59.551 55.0 0.0 0.0 38.54 3.95 F
1464 1539 0.606604 TTCTTACACCGTCCAGCCTC 59.393 55.0 0.0 0.0 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2772 2889 0.871057 GCTCTCTGCCAAAGTGTCAC 59.129 55.000 0.00 0.0 35.15 3.67 R
2998 3123 2.703007 TGCTGGCCCTTGTACAAATTTT 59.297 40.909 10.03 0.0 0.00 1.82 R
3295 3428 4.097286 ACAGTGAAAGTACGGCACAAAAAT 59.903 37.500 14.96 0.0 35.08 1.82 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
42 44 1.338105 TGCTCCTTTCACACAGATCCG 60.338 52.381 0.00 0.00 0.00 4.18
153 159 5.306394 TCACGTCTCTCCGATCAGTATATT 58.694 41.667 0.00 0.00 0.00 1.28
163 169 6.621613 TCCGATCAGTATATTGATTCTTCCG 58.378 40.000 11.60 9.80 37.90 4.30
168 174 6.513180 TCAGTATATTGATTCTTCCGTGTCC 58.487 40.000 0.00 0.00 0.00 4.02
170 176 2.420058 ATTGATTCTTCCGTGTCCCC 57.580 50.000 0.00 0.00 0.00 4.81
198 204 2.364970 TCTCGTTCGGGTCCTTTTGTTA 59.635 45.455 0.00 0.00 0.00 2.41
200 206 2.364970 TCGTTCGGGTCCTTTTGTTAGA 59.635 45.455 0.00 0.00 0.00 2.10
217 239 6.928979 TGTTAGATTTGTTTTCCGAACTGA 57.071 33.333 0.00 0.00 0.00 3.41
222 244 2.721425 TGTTTTCCGAACTGAGGGTT 57.279 45.000 0.00 0.00 41.40 4.11
223 245 2.294074 TGTTTTCCGAACTGAGGGTTG 58.706 47.619 0.00 0.00 38.41 3.77
224 246 1.607148 GTTTTCCGAACTGAGGGTTGG 59.393 52.381 0.00 0.00 38.41 3.77
225 247 1.133363 TTTCCGAACTGAGGGTTGGA 58.867 50.000 0.00 0.00 38.41 3.53
226 248 1.358152 TTCCGAACTGAGGGTTGGAT 58.642 50.000 0.00 0.00 38.41 3.41
279 301 4.201920 GGTTTTTATCTTGACTCGGCATCC 60.202 45.833 0.00 0.00 0.00 3.51
297 319 2.260434 GCCGCTCCGTCTTGTGTA 59.740 61.111 0.00 0.00 0.00 2.90
381 406 1.746517 CTGGCCAGGTATACGTCCC 59.253 63.158 26.14 0.50 0.00 4.46
382 407 0.759436 CTGGCCAGGTATACGTCCCT 60.759 60.000 26.14 0.00 0.00 4.20
429 457 5.452078 TTCCCTGCTGTTGTTTTATCTTG 57.548 39.130 0.00 0.00 0.00 3.02
603 633 1.542472 GCTATAGAAGAGAGGACGGGC 59.458 57.143 3.21 0.00 0.00 6.13
630 660 6.849085 AAAATGGGTGCTATGAACACAATA 57.151 33.333 0.00 0.00 39.87 1.90
831 869 4.437239 TGTGTCGTCCATTTTGCAAATTT 58.563 34.783 13.65 0.68 0.00 1.82
901 945 3.559238 AAATCATCTTTGGTGTGACGC 57.441 42.857 0.00 0.00 0.00 5.19
902 946 2.479566 ATCATCTTTGGTGTGACGCT 57.520 45.000 0.00 0.00 0.00 5.07
903 947 1.511850 TCATCTTTGGTGTGACGCTG 58.488 50.000 0.00 0.00 0.00 5.18
904 948 1.069978 TCATCTTTGGTGTGACGCTGA 59.930 47.619 0.00 0.00 0.00 4.26
905 949 1.195448 CATCTTTGGTGTGACGCTGAC 59.805 52.381 0.00 0.00 0.00 3.51
906 950 0.531974 TCTTTGGTGTGACGCTGACC 60.532 55.000 0.00 0.00 0.00 4.02
1015 1059 4.384647 CCATTTCTCAAGCTACTAGCCCTT 60.385 45.833 4.32 0.00 43.77 3.95
1152 1227 4.813296 AGAAGTTTCGAAGAAATTGCGT 57.187 36.364 0.00 0.00 45.90 5.24
1158 1233 3.347958 TCGAAGAAATTGCGTGCTTTT 57.652 38.095 0.00 0.00 0.00 2.27
1194 1269 1.408340 CCACACACAATCTTTGGCACA 59.592 47.619 0.00 0.00 34.12 4.57
1218 1293 0.449388 GCTCTGGCATCTTTGGTTCG 59.551 55.000 0.00 0.00 38.54 3.95
1260 1335 3.770040 ACACTGCCCGATGCGCTA 61.770 61.111 9.73 0.00 45.60 4.26
1275 1350 5.618056 ATGCGCTATTTCTTATGTGGATG 57.382 39.130 9.73 0.00 0.00 3.51
1436 1511 9.169468 CAATTGGCAATATACGTAGTCATTTTC 57.831 33.333 14.05 0.00 43.93 2.29
1460 1535 6.816640 TCATAAGAATTTCTTACACCGTCCAG 59.183 38.462 18.65 4.10 41.27 3.86
1461 1536 3.335579 AGAATTTCTTACACCGTCCAGC 58.664 45.455 0.00 0.00 0.00 4.85
1462 1537 2.109425 ATTTCTTACACCGTCCAGCC 57.891 50.000 0.00 0.00 0.00 4.85
1463 1538 1.053424 TTTCTTACACCGTCCAGCCT 58.947 50.000 0.00 0.00 0.00 4.58
1464 1539 0.606604 TTCTTACACCGTCCAGCCTC 59.393 55.000 0.00 0.00 0.00 4.70
1503 1581 1.100463 TCTTTGTGCGCAGGCTTTGA 61.100 50.000 12.22 1.55 40.82 2.69
1697 1776 3.362040 CCAGGTCTTCCATTGGCAA 57.638 52.632 0.68 0.68 35.89 4.52
1769 1848 9.116080 TCCTGATCATGGTATATTAGGTTCAAT 57.884 33.333 0.00 0.00 32.22 2.57
1958 2037 6.529125 CACTTACCATGATGAGAATTGCAAAC 59.471 38.462 1.71 0.47 0.00 2.93
1959 2038 6.435277 ACTTACCATGATGAGAATTGCAAACT 59.565 34.615 1.71 6.20 0.00 2.66
1960 2039 7.611467 ACTTACCATGATGAGAATTGCAAACTA 59.389 33.333 1.71 0.00 0.00 2.24
1961 2040 6.839124 ACCATGATGAGAATTGCAAACTAA 57.161 33.333 1.71 0.00 0.00 2.24
2093 2176 6.440647 CCTGTATCCTATTTGTGAGGGCTATA 59.559 42.308 0.00 0.00 34.56 1.31
2464 2563 4.080526 GGGGCCACAAAGAGTAAGAATAGA 60.081 45.833 4.39 0.00 0.00 1.98
2472 2571 8.258007 CACAAAGAGTAAGAATAGACCCACATA 58.742 37.037 0.00 0.00 0.00 2.29
2477 2576 7.785028 AGAGTAAGAATAGACCCACATATCACA 59.215 37.037 0.00 0.00 0.00 3.58
2666 2776 5.637810 CACTGTGAGCTATCCGTTTTAAAGA 59.362 40.000 0.32 0.00 0.00 2.52
2772 2889 4.143333 GCCATGGCCTGCTTGCTG 62.143 66.667 27.24 0.00 34.56 4.41
2857 2974 9.705290 ATTTTACATGTTCATTTGGAAGGTAAC 57.295 29.630 2.30 0.00 35.82 2.50
2901 3022 8.696043 ATATTGTGCATTCTCTAAGCCATTAA 57.304 30.769 0.00 0.00 0.00 1.40
2987 3112 7.827701 TCTATGCAGAGTATTTCCTTATACCG 58.172 38.462 8.44 0.00 32.54 4.02
2998 3123 4.804868 TCCTTATACCGTTTGTGCAGTA 57.195 40.909 0.00 0.00 0.00 2.74
3113 3245 8.997621 TCCTTGTACTGTGTTATCTGTAATTC 57.002 34.615 0.00 0.00 0.00 2.17
3192 3324 1.135689 CAGTTTGTCCGCCACATTAGC 60.136 52.381 0.00 0.00 33.90 3.09
3216 3349 6.691388 GCGAAATTTCAGTTTGTTAGTTCAGT 59.309 34.615 17.99 0.00 0.00 3.41
3288 3421 8.700722 GACTCAGTAATATTCATGAGGCTATG 57.299 38.462 23.53 8.07 43.23 2.23
3315 3449 5.754778 AGTATTTTTGTGCCGTACTTTCAC 58.245 37.500 0.00 0.00 0.00 3.18
3320 3454 2.206750 TGTGCCGTACTTTCACTGTTC 58.793 47.619 9.38 0.00 0.00 3.18
3335 3469 6.546972 TCACTGTTCTCAGCTAGATATACG 57.453 41.667 0.00 0.00 44.77 3.06
3342 3476 6.937436 TCTCAGCTAGATATACGTGTTCAA 57.063 37.500 0.00 0.00 0.00 2.69
3343 3477 7.511959 TCTCAGCTAGATATACGTGTTCAAT 57.488 36.000 0.00 0.00 0.00 2.57
3379 3513 2.024846 TGGGCCAGAAAAATAATCGGGA 60.025 45.455 0.00 0.00 34.50 5.14
3385 3519 7.996644 GGGCCAGAAAAATAATCGGGATATATA 59.003 37.037 4.39 0.00 34.50 0.86
3386 3520 9.574516 GGCCAGAAAAATAATCGGGATATATAT 57.425 33.333 0.00 0.00 34.50 0.86
3551 3686 9.985730 ATCTAATGGCATAAATGTTGTTTATGG 57.014 29.630 17.38 5.03 40.73 2.74
3552 3687 8.976353 TCTAATGGCATAAATGTTGTTTATGGT 58.024 29.630 17.38 0.00 40.73 3.55
3595 3731 2.221169 TGGATGCTCATCGTTATTGGC 58.779 47.619 4.02 0.00 38.69 4.52
3621 3805 2.455557 TGGCAATTGAAATGGGTCGAT 58.544 42.857 10.34 0.00 0.00 3.59
3622 3806 3.625853 TGGCAATTGAAATGGGTCGATA 58.374 40.909 10.34 0.00 0.00 2.92
3640 3824 7.339721 GGGTCGATATATACTTGAGAGAATGGA 59.660 40.741 0.00 0.00 0.00 3.41
3682 3866 0.362512 GTTCGATCGCAACTCACGAC 59.637 55.000 11.09 0.00 43.23 4.34
3736 3920 2.699846 ACAAGGACAATTGCATGGTGTT 59.300 40.909 5.05 0.00 33.28 3.32
3757 3941 7.277981 GGTGTTGTATAGTCGATGTTCTTGATT 59.722 37.037 0.00 0.00 0.00 2.57
3818 4023 3.415212 TCAGCAAAATTGTCAGGAGAGG 58.585 45.455 0.00 0.00 0.00 3.69
3890 4095 6.271391 TCCTTTGAGGATGTCTTACAGGTAAA 59.729 38.462 0.00 0.00 40.06 2.01
3892 4097 7.066284 CCTTTGAGGATGTCTTACAGGTAAATG 59.934 40.741 0.00 0.00 37.67 2.32
3893 4098 5.989477 TGAGGATGTCTTACAGGTAAATGG 58.011 41.667 0.00 0.00 0.00 3.16
3908 4113 5.185056 AGGTAAATGGCCTTGTACAAATGAC 59.815 40.000 18.22 6.72 31.04 3.06
3911 4116 3.168035 TGGCCTTGTACAAATGACCAT 57.832 42.857 10.03 0.00 0.00 3.55
3940 4145 1.343478 TGCCTTTTGTGGGAGGGAAAA 60.343 47.619 0.00 0.00 33.52 2.29
3956 4162 5.865085 AGGGAAAAGTTAAGGGAATTTTGC 58.135 37.500 0.00 0.00 33.72 3.68
3983 4189 9.178758 CTATTCTATATAAGTCCAAAATGCCCC 57.821 37.037 0.00 0.00 0.00 5.80
3994 4200 1.256812 AAATGCCCCCTGAACGAAAG 58.743 50.000 0.00 0.00 0.00 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 44 1.098129 GGAGGAGAAAATCGGCCTGC 61.098 60.000 0.00 0.00 30.46 4.85
111 113 1.651240 ATTGCCTGTTAGCAGCTGCG 61.651 55.000 31.78 18.01 45.13 5.18
112 114 0.100146 GATTGCCTGTTAGCAGCTGC 59.900 55.000 31.53 31.53 45.13 5.25
153 159 0.901114 TCGGGGACACGGAAGAATCA 60.901 55.000 0.00 0.00 0.00 2.57
182 188 5.134661 ACAAATCTAACAAAAGGACCCGAA 58.865 37.500 0.00 0.00 0.00 4.30
198 204 3.821033 CCCTCAGTTCGGAAAACAAATCT 59.179 43.478 0.00 0.00 0.00 2.40
200 206 3.562182 ACCCTCAGTTCGGAAAACAAAT 58.438 40.909 0.00 0.00 0.00 2.32
217 239 8.480501 CAAATCAAATCAAATCTATCCAACCCT 58.519 33.333 0.00 0.00 0.00 4.34
222 244 8.190122 CGAACCAAATCAAATCAAATCTATCCA 58.810 33.333 0.00 0.00 0.00 3.41
223 245 7.649306 CCGAACCAAATCAAATCAAATCTATCC 59.351 37.037 0.00 0.00 0.00 2.59
224 246 8.405531 TCCGAACCAAATCAAATCAAATCTATC 58.594 33.333 0.00 0.00 0.00 2.08
225 247 8.292444 TCCGAACCAAATCAAATCAAATCTAT 57.708 30.769 0.00 0.00 0.00 1.98
226 248 7.695480 TCCGAACCAAATCAAATCAAATCTA 57.305 32.000 0.00 0.00 0.00 1.98
279 301 2.884087 ATACACAAGACGGAGCGGCG 62.884 60.000 0.51 0.51 41.28 6.46
284 306 2.337583 CACCACATACACAAGACGGAG 58.662 52.381 0.00 0.00 0.00 4.63
294 316 2.100749 CCTCGTATCTGCACCACATACA 59.899 50.000 0.00 0.00 0.00 2.29
295 317 2.361119 TCCTCGTATCTGCACCACATAC 59.639 50.000 0.00 0.00 0.00 2.39
296 318 2.623416 CTCCTCGTATCTGCACCACATA 59.377 50.000 0.00 0.00 0.00 2.29
297 319 1.410517 CTCCTCGTATCTGCACCACAT 59.589 52.381 0.00 0.00 0.00 3.21
341 366 1.616620 TAATTTCGTCGTCGTTCCCG 58.383 50.000 1.33 0.00 38.33 5.14
346 371 2.805845 CCAGGATAATTTCGTCGTCGT 58.194 47.619 1.33 0.00 38.33 4.34
429 457 7.118680 TCTGGAATCGTTGATTTGTACCTAAAC 59.881 37.037 0.00 0.00 31.89 2.01
603 633 6.686630 TGTGTTCATAGCACCCATTTTAAAG 58.313 36.000 0.00 0.00 36.11 1.85
795 833 5.529430 TGGACGACACAACAGTTAATGAATT 59.471 36.000 4.13 0.00 0.00 2.17
831 869 0.684535 TCCACTGCAAATCGACCTGA 59.315 50.000 0.00 0.00 0.00 3.86
886 924 1.512926 GTCAGCGTCACACCAAAGAT 58.487 50.000 0.00 0.00 0.00 2.40
901 945 1.338105 TGCCAATCAACGAGAGGTCAG 60.338 52.381 0.00 0.00 0.00 3.51
902 946 0.684535 TGCCAATCAACGAGAGGTCA 59.315 50.000 0.00 0.00 0.00 4.02
903 947 1.667724 CATGCCAATCAACGAGAGGTC 59.332 52.381 0.00 0.00 0.00 3.85
904 948 1.742761 CATGCCAATCAACGAGAGGT 58.257 50.000 0.00 0.00 0.00 3.85
905 949 0.379669 GCATGCCAATCAACGAGAGG 59.620 55.000 6.36 0.00 0.00 3.69
906 950 1.089112 TGCATGCCAATCAACGAGAG 58.911 50.000 16.68 0.00 0.00 3.20
1015 1059 2.092429 ACTGCCTCCTTGTGTTTCTTCA 60.092 45.455 0.00 0.00 0.00 3.02
1152 1227 3.315191 GTCTGCAGAACTGGTAAAAAGCA 59.685 43.478 20.19 0.00 0.00 3.91
1158 1233 1.765904 TGTGGTCTGCAGAACTGGTAA 59.234 47.619 30.87 9.05 31.73 2.85
1194 1269 1.339824 CCAAAGATGCCAGAGCTCACT 60.340 52.381 17.77 2.38 40.80 3.41
1218 1293 7.323656 GTGCATCAAAACTACATGTGTAAACTC 59.676 37.037 9.11 0.00 0.00 3.01
1275 1350 9.726438 AAGTTATGCCTATGATCTAACAATACC 57.274 33.333 0.00 0.00 0.00 2.73
1436 1511 6.456988 GCTGGACGGTGTAAGAAATTCTTATG 60.457 42.308 17.26 10.77 40.64 1.90
1444 1519 1.001633 GAGGCTGGACGGTGTAAGAAA 59.998 52.381 0.00 0.00 0.00 2.52
1447 1522 0.320374 TTGAGGCTGGACGGTGTAAG 59.680 55.000 0.00 0.00 0.00 2.34
1460 1535 9.866798 AGAGAAAATTCAGAAATTTATTGAGGC 57.133 29.630 0.00 0.00 42.82 4.70
1503 1581 6.764308 AATGTTCATACATAAAGCAGCAGT 57.236 33.333 0.00 0.00 44.14 4.40
1657 1736 4.219288 GGCTTGTTGATCTCCAAAACAGAT 59.781 41.667 0.00 0.00 36.36 2.90
1697 1776 3.806949 TGCTACTGAAAATTCCCCAGT 57.193 42.857 10.73 10.73 42.94 4.00
1728 1807 7.225538 CCATGATCAGGAATGTGACTACTAAAC 59.774 40.741 9.37 0.00 0.00 2.01
1818 1897 3.420839 AGCTCTGGAAACAACAAAACG 57.579 42.857 0.00 0.00 42.06 3.60
1960 2039 9.699410 TTGACATTTGAGGGATTTATGATACTT 57.301 29.630 0.00 0.00 0.00 2.24
1961 2040 9.347240 CTTGACATTTGAGGGATTTATGATACT 57.653 33.333 0.00 0.00 0.00 2.12
1975 2058 8.981724 AAAATGATCATCACTTGACATTTGAG 57.018 30.769 9.06 0.00 40.79 3.02
2010 2093 2.012673 CGGAGCCTGAAAAGGATCAAG 58.987 52.381 11.78 2.05 45.50 3.02
2093 2176 2.683211 AGAAAGCCAACTGGACCAAT 57.317 45.000 0.00 0.00 37.39 3.16
2506 2615 6.261381 AGTTCAAAAGCGATACCAGTTTACAA 59.739 34.615 0.00 0.00 0.00 2.41
2513 2622 7.752695 AGAATTAAGTTCAAAAGCGATACCAG 58.247 34.615 0.00 0.00 39.39 4.00
2772 2889 0.871057 GCTCTCTGCCAAAGTGTCAC 59.129 55.000 0.00 0.00 35.15 3.67
2857 2974 9.533983 CACAATATATGCGAGCAACTTAATTAG 57.466 33.333 0.57 0.00 0.00 1.73
2874 2995 8.874744 AATGGCTTAGAGAATGCACAATATAT 57.125 30.769 0.00 0.00 0.00 0.86
2938 3063 2.889045 AGCTGCATGAAAGTGACACAAT 59.111 40.909 8.59 0.00 0.00 2.71
2987 3112 7.254286 CCCTTGTACAAATTTTACTGCACAAAC 60.254 37.037 10.03 0.00 30.44 2.93
2998 3123 2.703007 TGCTGGCCCTTGTACAAATTTT 59.297 40.909 10.03 0.00 0.00 1.82
3113 3245 4.952071 TGCCTCTTTCTCTAGATCATGG 57.048 45.455 0.00 0.00 0.00 3.66
3192 3324 7.165812 CCACTGAACTAACAAACTGAAATTTCG 59.834 37.037 13.34 10.36 0.00 3.46
3239 3372 5.215252 TCAGTTCTAGCTTAACTTGCACT 57.785 39.130 10.54 0.00 34.99 4.40
3287 3420 6.380095 AGTACGGCACAAAAATACTTTTCA 57.620 33.333 0.00 0.00 32.24 2.69
3288 3421 7.432838 TGAAAGTACGGCACAAAAATACTTTTC 59.567 33.333 8.60 4.44 42.97 2.29
3295 3428 4.097286 ACAGTGAAAGTACGGCACAAAAAT 59.903 37.500 14.96 0.00 35.08 1.82
3315 3449 6.307031 ACACGTATATCTAGCTGAGAACAG 57.693 41.667 0.00 0.00 45.91 3.16
3335 3469 9.436957 CCCACCACTAAGATATATATTGAACAC 57.563 37.037 2.80 0.00 0.00 3.32
3342 3476 6.512120 TCTGGCCCACCACTAAGATATATAT 58.488 40.000 0.00 0.00 42.67 0.86
3343 3477 5.910931 TCTGGCCCACCACTAAGATATATA 58.089 41.667 0.00 0.00 42.67 0.86
3391 3525 9.999660 GGGAAAATGGGTAAATTAAGTACAAAA 57.000 29.630 0.00 0.00 0.00 2.44
3393 3527 8.959676 AGGGAAAATGGGTAAATTAAGTACAA 57.040 30.769 0.00 0.00 0.00 2.41
3396 3530 9.138596 GCATAGGGAAAATGGGTAAATTAAGTA 57.861 33.333 0.00 0.00 0.00 2.24
3420 3555 6.003326 TCATCCATGTCAAAGTAAAAGAGCA 58.997 36.000 0.00 0.00 0.00 4.26
3533 3668 8.768955 TGTTTTCACCATAAACAACATTTATGC 58.231 29.630 12.04 1.10 41.18 3.14
3538 3673 6.344500 TGCTGTTTTCACCATAAACAACATT 58.656 32.000 0.00 0.00 42.87 2.71
3547 3682 9.906660 CTTTTACTTTATGCTGTTTTCACCATA 57.093 29.630 0.00 0.00 30.02 2.74
3548 3683 8.421002 ACTTTTACTTTATGCTGTTTTCACCAT 58.579 29.630 0.00 0.00 31.87 3.55
3551 3686 8.539674 CCAACTTTTACTTTATGCTGTTTTCAC 58.460 33.333 0.00 0.00 0.00 3.18
3552 3687 8.470805 TCCAACTTTTACTTTATGCTGTTTTCA 58.529 29.630 0.00 0.00 0.00 2.69
3570 3706 5.163622 CCAATAACGATGAGCATCCAACTTT 60.164 40.000 4.98 0.00 34.40 2.66
3595 3731 5.452078 ACCCATTTCAATTGCCATATACG 57.548 39.130 0.00 0.00 0.00 3.06
3668 3852 1.154016 CTCGGTCGTGAGTTGCGAT 60.154 57.895 0.00 0.00 40.59 4.58
3669 3853 2.183858 CTCTCGGTCGTGAGTTGCGA 62.184 60.000 12.51 0.00 37.28 5.10
3691 3875 4.384208 GCCACACTCTTAATGGGACTACAT 60.384 45.833 0.00 0.00 33.81 2.29
3704 3888 0.546122 TGTCCTTGTGCCACACTCTT 59.454 50.000 0.00 0.00 35.11 2.85
3736 3920 8.141268 TGCATAATCAAGAACATCGACTATACA 58.859 33.333 0.00 0.00 0.00 2.29
3818 4023 1.838077 TGCCTAAACTTCTAGAGGGGC 59.162 52.381 11.42 11.42 38.87 5.80
3890 4095 3.168035 TGGTCATTTGTACAAGGCCAT 57.832 42.857 15.20 1.34 0.00 4.40
3892 4097 3.088532 TGATGGTCATTTGTACAAGGCC 58.911 45.455 8.56 9.79 0.00 5.19
3893 4098 4.989279 ATGATGGTCATTTGTACAAGGC 57.011 40.909 8.56 0.00 32.13 4.35
3908 4113 3.033184 ACAAAAGGCATGGGTATGATGG 58.967 45.455 0.00 0.00 36.36 3.51
3911 4116 2.455557 CCACAAAAGGCATGGGTATGA 58.544 47.619 0.00 0.00 36.36 2.15
3934 4139 5.001232 GGCAAAATTCCCTTAACTTTTCCC 58.999 41.667 0.00 0.00 0.00 3.97
3956 4162 9.178758 GGGCATTTTGGACTTATATAGAATAGG 57.821 37.037 0.00 0.00 0.00 2.57
3967 4173 1.713647 TCAGGGGGCATTTTGGACTTA 59.286 47.619 0.00 0.00 0.00 2.24
3974 4180 1.618343 CTTTCGTTCAGGGGGCATTTT 59.382 47.619 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.