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
A11 F56 I1 R1	155	65.2	3164312	95.9%	3034575	99.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,541,456	A→G	I75T (ATT→ACT)	cysW ←	sulfate/thiosulfate ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,541,456	0	A	G	100.0%	143.9 / NA	41	I75T (ATT→ACT)	cysW	sulfate/thiosulfate ABC transporter permease
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/20); total (21/20)

CCAGTAGCGTCAGCAGTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAATCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGCCTGC  >  NC_000913/2541361‑2541551

ccAGTAGCGTCAGCAGTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCAAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAg                                                                                             >  1:1573755/1‑100 (MQ=255)

      gCGTCAGCAGTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGat                                                                                       <  2:1573745/100‑1 (MQ=255)

       cGTCAGCAGTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCCGTCAGCGCGatc                                                                                      <  1:1037791/100‑1 (MQ=255)

          cagcagTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCCCCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCCCCatcatc                                                                                   >  2:1265221/1‑100 (MQ=255)

          cagcagTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGatcatc                                                                                   >  2:18117/1‑100 (MQ=255)

          cagcagTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGatcatc                                                                                   >  2:1293385/1‑100 (MQ=255)

               gTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCTGTACGGCAGTCAGCGCGATCATCACCg                                                                               <  1:478955/99‑1 (MQ=255)

                      gCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAg                                                                       >  1:1128247/1‑100 (MQ=255)

                         tCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATg                                                                    <  2:720618/100‑1 (MQ=255)

                         tCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATg                                                                    >  1:490713/1‑100 (MQ=255)

                              ggAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTg                                                               >  1:382915/1‑100 (MQ=255)

                               gAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTgc                                                              >  1:43125/1‑100 (MQ=255)

                                aaGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTgca                                                             >  2:235801/1‑100 (MQ=255)

                                aaGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTgca                                                             >  2:235740/1‑100 (MQ=255)

                                    tAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCAt                                                         >  1:1093413/1‑100 (MQ=255)

                                     aaaGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATg                                                        <  1:1086512/100‑1 (MQ=255)

                                         cgcgTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCg                                                    >  1:1055408/1‑100 (MQ=255)

                                          gcgTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCgg                                                   <  2:1553861/100‑1 (MQ=255)

                                           cgTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGa                                                  <  1:235740/100‑1 (MQ=255)

                                           cgTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGa                                                  <  1:235801/100‑1 (MQ=255)

                                               aCCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCgg                                              >  1:723305/1‑100 (MQ=255)

                                                 cagccagGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGcc                                            >  2:276311/1‑100 (MQ=255)

                                                   gccaggccagCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAg                                          >  1:469796/1‑100 (MQ=255)

                                                        gccagCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCt                                     <  1:391557/100‑1 (MQ=255)

                                                        gccagCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCt                                     <  1:658175/100‑1 (MQ=255)

                                                         ccagCAGAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTg                                    <  2:618285/100‑1 (MQ=255)

                                                               gAATGCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAAc                              >  2:43077/1‑100 (MQ=255)

                                                                   gCCGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGc                          <  1:963834/100‑1 (MQ=255)

                                                                   gCCGAACACCAGGTTAACCAGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGAGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGc                          <  2:1340902/100‑1 (MQ=255)

                                                                    ccGAACACCAGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCa                         >  1:1489700/1‑100 (MQ=255)

                                                                             aGGTTTACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCt                >  2:657934/1‑100 (MQ=255)

                                                                                 ttACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCt            <  2:345439/100‑1 (MQ=255)

                                                                                  tACCGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTg           >  1:1139645/1‑100 (MQ=255)

                                                                                    ccGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGaa         <  2:1055402/100‑1 (MQ=255)

                                                                                     cGGTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAAt        <  1:276311/100‑1 (MQ=255)

                                                                                      ggTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATg       <  1:18117/100‑1 (MQ=255)

                                                                                      ggTACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATg       <  2:1046805/100‑1 (MQ=255)

                                                                                        tACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGcc     >  2:1096312/1‑100 (MQ=255)

                                                                                        tACGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGcc     <  1:647684/100‑1 (MQ=255)

                                                                                          cGGCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGAACGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGCCTg   <  2:128589/100‑1 (MQ=255)

                                                                                           ggCAGTCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGCCTGc  >  1:1337221/1‑100 (MQ=255)

CCAGTAGCGTCAGCAGTAACTGGCGTCCAGGGAAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAATGCCGAACACCAGGTTTACCGGTACGGCAATCAGCGCGATCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGCCTGC  >  NC_000913/2541361‑2541551

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A