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	2,012,700	C→T	105 (TAG→TAA)	fliE ←	flagellar basal‑body component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,012,700	0	C	T	100.0%	96.2 / NA	31	105 (TAG→TAA)	fliE	flagellar basal‑body component
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (14/17); total (14/17)

TATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCG  >  NC_000913/2012565‑2012823

tATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTac                                                                                                                          <  1:375161/139‑1 (MQ=255)

 aTCGCGTAGACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTaca                                                                                                                         <  2:468548/139‑1 (MQ=255)

      gTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                    <  1:50418/139‑1 (MQ=255)

                  tGGATGGCAGAAAACGTTCAGGATCAGGGATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCGCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTGACACCGGCATACTAAACACt                                                                                                        >  2:623268/1‑139 (MQ=255)

                        gCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGa                                                                                                  <  1:404822/139‑1 (MQ=255)

                         cAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCGCGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGAt                                                                                                 >  1:752501/1‑139 (MQ=255)

                                   tCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                       <  2:170113/139‑1 (MQ=255)

                                    cAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                       >  1:18545/1‑138 (MQ=255)

                                    cAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                       <  2:18545/138‑1 (MQ=255)

                                                 ccATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATAcgccgc                                                                                          <  2:404951/122‑1 (MQ=255)

                                                 ccATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATAcgccgc                                                                                          >  1:404951/1‑122 (MQ=255)

                                                 ccATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCa                                                                         >  2:542784/1‑139 (MQ=255)

                                                     tttAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTg                                                                     >  2:752562/1‑139 (MQ=255)

                                                         aaCCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATc                                                                 <  1:542784/139‑1 (MQ=255)

                                                          aCCAGAAATTGAGTGAGTTTGTCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATcc                                                                >  1:704330/1‑139 (MQ=255)

                                                          aCCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATcc                                                                >  2:676576/1‑139 (MQ=255)

                                                               aaaTTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCAtt                                                           <  1:568795/139‑1 (MQ=255)

                                                               aaaTTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCAtt                                                           <  1:752562/139‑1 (MQ=255)

                                                                           tttGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACt                                               >  1:371251/1‑139 (MQ=255)

                                                                                    tccatGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACt                                                                                                        <  1:166349/73‑1 (MQ=255)

                                                                                    tccatGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACt                                                                                                        >  2:166349/1‑73 (MQ=255)

                                                                                          ccccACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCata                                <  2:704330/139‑1 (MQ=255)

                                                                                              aCGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCgg                            >  1:671383/1‑139 (MQ=255)

                                                                                               cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGt                           >  2:27855/1‑139 (MQ=255)

                                                                                                        aTCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATc                  >  1:226613/1‑139 (MQ=255)

                                                                                                              tGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGa                                                                    <  1:539761/83‑1 (MQ=255)

                                                                                                              tGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGa                                                                    >  2:539761/1‑83 (MQ=255)

                                                                                                                tAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacg          <  2:417160/139‑1 (MQ=255)

                                                                                                                    tAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacgccac      <  2:371251/139‑1 (MQ=255)

                                                                                                                        aacaGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCg  <  1:378244/139‑1 (MQ=255)

                                                                                                                          caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATccc                                                               >  2:290033/1‑76 (MQ=255)

                                                                                                                          caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATccc                                                               <  1:290033/76‑1 (MQ=255)

TATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCG  >  NC_000913/2012565‑2012823

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A