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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,742,575	G→A	intergenic (+14/+26)	cfa → / ← ribC	cyclopropane fatty acyl phospholipid synthase, SAM‑dependent/riboflavin synthase, alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,742,575	0	G	A	100.0%	104.5 / NA	35	intergenic (+14/+26)	cfa/ribC	cyclopropane fatty acyl phospholipid synthase, SAM‑dependent/riboflavin synthase, alpha subunit
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/18); total (17/18)

TGTTTACCTATTATCTGAATGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCGCCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTATCTACCACTGCCTGAGTTTGTGGATCGATTTCAATGTTGACG  >  NC_000913/1742449‑1742706

tGTTTACCTATTATCTGAATGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCgg                                                                                                                         >  1:687566/1‑139 (MQ=255)

         attatCTGAATGCCTGTGCAGGTGCTTTCCGCGCCCGTCATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTTTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGAttt                                                                                                                <  2:195667/139‑1 (MQ=255)

               tGAATGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATc                                                                                                          >  1:640932/1‑139 (MQ=255)

                 aaTGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGa                                                                                                            <  2:104289/135‑1 (MQ=255)

                 aaTGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGa                                                                                                            >  1:104289/1‑135 (MQ=255)

                    gCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGCGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCAcccc                                                                                                                                 <  1:747493/111‑1 (MQ=255)

                    gCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGCGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCAcccc                                                                                                                                 >  2:747493/1‑111 (MQ=255)

                     ccTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCtt                                                                                                    <  2:640932/139‑1 (MQ=255)

                      cTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTG‑AAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCt                                                                                                  <  1:12294/139‑1 (MQ=255)

                        gtgCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCtg                                                                                                 >  1:492939/1‑139 (MQ=255)

                        gtgCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCtg                                                                                                 >  2:132522/1‑139 (MQ=255)

                         tgCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCtgt                                                                                                >  1:230558/1‑139 (MQ=255)

                         agCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGGTAAAGGCTATTTTAACACCCCCTCTCCGGAGGCGATTTCAGATCAGTCctctct                                                                                                >  2:609740/2‑137 (MQ=255)

                                      cgcgCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTc                                                                                   >  1:1391/1‑139 (MQ=255)

                                              tGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCtt                                                                                                    <  2:352606/114‑1 (MQ=255)

                                              tGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCtt                                                                                                    >  1:352606/1‑114 (MQ=255)

                                                    tCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCg                                                                     <  2:1391/139‑1 (MQ=255)

                                                             gCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAg                                                            >  1:300885/1‑139 (MQ=255)

                                                              cAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGc                                                           <  1:711105/139‑1 (MQ=255)

                                                                ggTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGcac                                                         <  1:132522/139‑1 (MQ=255)

                                                                ggTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGcac                                                         <  2:687566/139‑1 (MQ=255)

                                                                     tgtTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTgccgc                                                               >  2:516847/1‑128 (MQ=255)

                                                                     tgtTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTgccgc                                                               <  1:516847/128‑1 (MQ=255)

                                                                          tcACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTAcc                                               <  2:578918/139‑1 (MQ=255)

                                                                              gcgGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAGGGCTATTCTATCAGCCCCTCTCCGGTGGGGATTTCCGATCAGGCTTCTGTGCCTGGTTGGTTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTAt                                           <  1:318028/139‑1 (MQ=255)

                                                                                        aaaCGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTATCTACCACTGc                                 <  2:492939/139‑1 (MQ=255)

                                                                                            ggCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGc                                                                                              >  2:8453/1‑74 (MQ=255)

                                                                                            ggCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGc                                                                                              <  1:8453/74‑1 (MQ=255)

                                                                                            ggCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTATCTACCACTGCTTGa                             >  1:582485/1‑139 (MQ=255)

                                                                                            ggCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTACCGCCAGcac                                                         >  2:156570/1‑111 (MQ=255)

                                                                                            ggCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTACCGCCAGcac                                                         <  1:156570/111‑1 (MQ=255)

                                                                                              ccTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATg                                                                                >  2:300624/1‑86 (MQ=255)

                                                                                              ccTTCGAGTGGCTCGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATg                                                                                <  1:300624/86‑1 (MQ=255)

                                                                                                           cGCTAAAGGCTATTCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTATCTACCACTGCCTGAGTTTGTGGATCGAtt              <  2:230558/139‑1 (MQ=255)

                                                                                                                       ttCTATCACCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTATCTACCACTGCCTGAGTTTGTGGATCGATTTCAATGTTGAcg  >  2:264201/1‑139 (MQ=255)

TGTTTACCTATTATCTGAATGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCTAAAGGCTATTCTATCGCCCCCTCTCCGGGGGCGATTTCAGATCAGGCTTCTGTGCCTGGTTGATTCATGGCATTTTCTCGTGCCGCCAGCACACGTTCTACCGTATCTACCACTGCCTGAGTTTGTGGATCGATTTCAATGTTGACG  >  NC_000913/1742449‑1742706

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A