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
A7 F28 I1 R1	148	57.0	1973990	96.6%	1906874	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,041,533	C→T	P306L (CCG→CTG)	appA →	periplasmic phosphoanhydride phosphatase/multiple inositol‑polyphosphate phosphatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,041,533	0	C	T	100.0%	126.5 / NA	37	P306L (CCG→CTG)	appA	periplasmic phosphoanhydride phosphatase/multiple inositol‑polyphosphate phosphatase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/22); total (15/22)

TCACACCAGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACCGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAGCCGGATAACA  >  NC_000913/1041400‑1041661

tCACACCAGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCaaaa                                                                                                                            >  2:757700/1‑140 (MQ=255)

 cacaCCAGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCaaaaa                                                                                                                           <  1:204462/140‑1 (MQ=255)

 cacaCCAGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCaaaaa                                                                                                                           <  2:567777/140‑1 (MQ=255)

      cAGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGc                                                                                                                      >  2:158782/1‑140 (MQ=255)

       aGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCg                                                                                                                     <  1:153105/140‑1 (MQ=255)

        gTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGt                                                                                                                    <  2:648766/140‑1 (MQ=255)

         tGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCg                                                                                                                     >  2:700709/1‑138 (MQ=255)

         tGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCg                                                                                                                     <  1:700709/138‑1 (MQ=255)

         tGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTa                                                                                                                   <  2:435064/140‑1 (MQ=255)

         tGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTa                                                                                                                   <  1:757700/140‑1 (MQ=255)

         tGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTa                                                                                                                   >  1:291911/1‑140 (MQ=255)

              ctccTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCATTATTAGATTTGATCAAGACAGCGTTGTCGTGTCATCCGCTGCAAAAACAGGCGTATGgtg                                                                                                              <  2:83002/138‑1 (MQ=255)

              cacCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGgtg                                                                                                              <  2:645352/140‑1 (MQ=255)

                 cTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGa                                                                                                           >  1:448170/1‑140 (MQ=255)

                   tGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACa                                                                                                         <  2:766378/140‑1 (MQ=255)

                   tGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACa                                                                                                         <  1:361806/140‑1 (MQ=255)

                                   cgcgCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCa                                                                                             <  1:591954/136‑1 (MQ=255)

                                   cgcgCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCa                                                                                             >  2:591954/1‑136 (MQ=255)

                                               tttGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCg                                                                             <  2:448170/140‑1 (MQ=255)

                                                  gCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGac                                                                          >  2:363790/1‑140 (MQ=255)

                                                   cTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGacg                                                                         <  2:898720/140‑2 (MQ=255)

                                                           cacgcCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGcc                                                                              <  2:986054/127‑1 (MQ=255)

                                                           cacgcCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGcc                                                                              >  1:986054/1‑127 (MQ=255)

                                                              gcCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATc                                                              <  2:549290/140‑1 (MQ=255)

                                                                cAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGa                                                                           >  2:327760/1‑125 (MQ=255)

                                                                cAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGa                                                                           <  1:327760/125‑1 (MQ=255)

                                                                                ccGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGgcggcg                                            <  1:363790/140‑1 (MQ=255)

                                                                                   cgcCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCACAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCAc                                         <  2:492370/140‑1 (MQ=255)

                                                                                        ccccGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGgcggcg                                            <  1:973824/132‑1 (MQ=255)

                                                                                        ccccGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGgcggcg                                            >  2:973824/1‑132 (MQ=255)

                                                                                                  aGATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGa                          >  2:876647/1‑140 (MQ=255)

                                                                                                   gATTTGATCAAGACAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGAc                         >  2:599328/1‑140 (MQ=255)

                                                                                                                cAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAg            <  1:334724/140‑1 (MQ=255)

                                                                                                                cAGCGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAg            <  1:800767/140‑1 (MQ=255)

                                                                                                                   cGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAGCCg         >  1:559842/1‑140 (MQ=255)

                                                                                                                   cGTTGACGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAGCCg         >  1:659629/1‑140 (MQ=255)

                                                                                                                        aCGCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAGCCGGATaa    >  2:4690/1‑140 (MQ=255)

                                                                                                                          gCCCCATCCACTGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAGCCGGATAaca  <  2:559842/140‑1 (MQ=255)

TCACACCAGTGGAACACCTTGCTAAGTTTGCATAACGCGCAATTTTATTTGCTACAACGCACGCCAGAGGTTGCCCGCAGCCGCGCCACCCCGTTATTAGATTTGATCAAGACAGCGTTGACGCCCCATCCACCGCAAAAACAGGCGTATGGTGTGACATTACCCACTTCAGTGCTGTTTATCGCCGGACACGATACTAATCTGGCAAATCTCGGCGGCGCACTGGAGCTCAACTGGACGCTTCCCGGTCAGCCGGATAACA  >  NC_000913/1041400‑1041661

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A