Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,761,518	G→A	R92C (CGT→TGT)	sufD ←	component of SufBCD Fe‑S cluster assembly scaffold

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,761,518	0	G	A	100.0%	83.9 / NA	29	R92C (CGT→TGT)	sufD	component of SufBCD Fe‑S cluster assembly scaffold
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/17); total (12/17)

GCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACGCCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAG  >  NC_000913/1761396‑1761632

gCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGACACGTAACACCCATCGACAAACAcc                                                                                                    >  2:232783/1‑139 (MQ=255)

    tCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGcc                                                                                                >  1:979346/1‑139 (MQ=255)

       gTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACATCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCa                                                                                             <  2:1027477/139‑1 (MQ=255)

          aaaTGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACg                                                                                           >  2:691573/1‑138 (MQ=255)

          aaaTGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACg                                                                                           <  1:691573/138‑1 (MQ=255)

                   aaCACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGACACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACg                                                                                 <  1:232783/139‑1 (MQ=255)

                           cGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTGACTTCATATCCGATGCCTTCAGTTGTATCGCGCAGTACGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCt                                                                         <  2:899136/139‑1 (MQ=255)

                             ccTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTaa                                                                       <  2:425935/139‑1 (MQ=255)

                                gAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAacac                                                                                                     <  1:256998/106‑1 (MQ=255)

                                gAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAacac                                                                                                     >  2:256998/1‑106 (MQ=255)

                                 aaTAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCa                                                                   <  2:1023976/139‑1 (MQ=255)

                                      cGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACg                                                              >  2:957860/1‑139 (MQ=255)

                                      cGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACg                                                              <  1:437104/139‑1 (MQ=255)

                                      cGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACg                                                              <  1:26/139‑1 (MQ=255)

                                      cGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACg                                                              <  2:344814/139‑1 (MQ=255)

                                             tAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCtgt                                                       <  2:446429/139‑1 (MQ=255)

                                                          tcgtcgTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATAtctctc                                          >  2:962952/1‑139 (MQ=255)

                                                              cgtTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGc                                      <  1:962952/139‑1 (MQ=255)

                                                                ttAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCaa                                    <  1:232466/139‑1 (MQ=255)

                                                                         aCTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACaa                           >  2:40121/1‑139 (MQ=255)

                                                                               tatCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGc                     >  2:607118/1‑139 (MQ=255)

                                                                                     cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGa               <  2:979346/139‑1 (MQ=255)

                                                                                     cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGa               >  2:1029809/1‑139 (MQ=255)

                                                                                                tGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTcc    <  1:957860/139‑1 (MQ=255)

                                                                                                  cATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAg  >  1:147562/1‑139 (MQ=255)

                                                                                                       cacAGTGCGGGCACGTAACACCCATCGACAAACA‑CAGCCGCACGGAGTCTAACGTTAACGCt                                                                         >  2:634612/3‑62 (MQ=255)

                                                                                                       cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGatat                                               <  2:62902/89‑1 (MQ=255)

                                                                                                       cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGatat                                               >  1:62902/1‑89 (MQ=255)

                                                                                                       cTCAGTGCGGGCACGTAACACCCATCGACAAACA‑CAGCCGCACGGAGTCTAACGTTAACGCt                                                                         <  1:634612/62‑1 (MQ=255)

GCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACGCCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAG  >  NC_000913/1761396‑1761632

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A