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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,767,140	T→C	L53L (TTG→CTG)	rnlB →	CP4‑57 prophage; uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,767,140	0	T	C	100.0%	131.5 / NA	35	L53L (TTG→CTG)	rnlB	CP4‑57 prophage; uncharacterized protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/15); total (20/15)

CCGGAATTAACGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCTTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAATCAT  >  NC_000913/2766997‑2767286

ccGGAATTAACGTCTCAGGGGCTCTAAAAGCTGGCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTgcgc                                                                                                                                             >  1:484940/1‑151 (MQ=255)

 cGGAATTAACGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCt                                                                                                                                            <  2:570671/151‑1 (MQ=255)

        aaCGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTc                                                                                                                                     <  1:551191/151‑1 (MQ=255)

          cGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCa                                                                                                                                   <  1:321325/151‑1 (MQ=255)

             ctcAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCag                                                                                                                                  >  1:11354/1‑149 (MQ=255)

               cAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGt                                                                                                                               <  1:294795/150‑1 (MQ=255)

                  gggCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGa                                                                                                                            >  1:625230/1‑150 (MQ=255)

                  gggCGCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGCACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGa                                                                                                                            >  1:34498/1‑150 (MQ=255)

                    gCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAAcc                                                                                                                         <  2:624036/151‑1 (MQ=255)

                       ctAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTTATACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGCCCTCCTGTGCGCTAACGGTCCAGAGTGGAACCg                                                                                                                        <  1:463976/149‑1 (MQ=255)

                                  cGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTg                                                                                                           <  2:506825/151‑1 (MQ=255)

                                   gTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTgg                                                                                                          <  2:11353/151‑1 (MQ=255)

                                     tATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGga                                                                                                         >  2:118417/1‑150 (MQ=255)

                                     tATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGga                                                                                                         <  1:654732/150‑1 (MQ=255)

                                                  ttCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGcc                                                                                           >  1:335621/1‑151 (MQ=255)

                                                       gaACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATc                                                                                      >  2:72930/1‑151 (MQ=255)

                                                          cccTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATg                                                                                   >  2:561345/1‑151 (MQ=255)

                                                           ccTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGc                                                                                  <  2:496488/151‑1 (MQ=255)

                                                             tttGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTg                                                                                >  1:391277/1‑151 (MQ=255)

                                                                  ccTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATAc                                                                           >  2:494850/1‑151 (MQ=255)

                                                                      aGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGcc                                                                       >  2:344629/1‑151 (MQ=255)

                                                                              aaaTTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAattat                                                               >  1:191193/1‑151 (MQ=255)

                                                                                     gaCGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATtgatg                                                          >  2:509594/1‑149 (MQ=255)

                                                                                      aCGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGc                                                       <  2:420333/151‑1 (MQ=255)

                                                                                        gAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGc                                                       >  2:409980/1‑149 (MQ=255)

                                                                                               tCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGtt                                               <  1:579170/150‑1 (MQ=255)

                                                                                               tCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGtt                                               <  2:408898/150‑1 (MQ=255)

                                                                                                  gCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTc                                              <  1:408934/148‑1 (MQ=255)

                                                                                                      tACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGacac                                        >  2:487707/1‑150 (MQ=255)

                                                                                                      tACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGacac                                        >  2:278932/1‑150 (MQ=255)

                                                                                                        cTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACat                                      >  1:336265/1‑150 (MQ=255)

                                                                                                                      cACTGGTGAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTg                       <  2:649946/151‑1 (MQ=255)

                                                                                                                             gAAATCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACtttt                 >  2:137234/1‑150 (MQ=255)

                                                                                                                                aTCCTTTTTGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTtttactt             >  1:250122/1‑151 (MQ=255)

                                                                                                                                        tGACCTCCTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAat     >  2:443164/1‑151 (MQ=255)

                                                                                                                                           cctcctGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAatcat  <  1:29603/151‑1 (MQ=255)

CCGGAATTAACGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTCCTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCTTGTGCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATTATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAATCAT  >  NC_000913/2766997‑2767286

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 17 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A