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
A17 F48 I1 R1	90	35.3	1199032	98.5%	1181046	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,929,556	C→A	E16D (GAG→GAT)	viaA ←	protein ViaA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,929,556	0	C	A	100.0%	95.4 / NA	28	E16D (GAG→GAT)	viaA	protein ViaA
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (10/18); total (10/18)

GACTGCGCAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCCTCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGCCAGGGATAAACAGACATTTTT  >  NC_000913/3929426‑3929691

gACTGCGCAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTg                                                                                                                                <  2:142583/140‑1 (MQ=255)

     cgcAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGc                                                                                                                           <  1:244176/140‑1 (MQ=255)

     cgcAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGc                                                                                                                           <  1:380934/140‑1 (MQ=255)

      gcAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGcc                                                                                                                          <  2:342251/140‑1 (MQ=255)

       cAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCa                                                                                                                         >  2:158153/1‑140 (MQ=255)

          cgcTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCa                                                                                                                      <  1:164099/140‑1 (MQ=255)

           gcTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCAt                                                                                                                     <  2:124592/140‑1 (MQ=255)

                    cAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAg                                                                                                            >  1:285386/1‑140 (MQ=255)

                                tcatcaGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGt                                                                                                <  1:395354/140‑1 (MQ=255)

                                     aGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCa                                                                                           <  2:60278/140‑1 (MQ=255)

                                      gTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCAt                                                                                          >  1:324224/1‑140 (MQ=255)

                                        gATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCAttg                                                                                        >  1:239018/1‑140 (MQ=255)

                                             ccgccTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTtgtg                                                                                   >  1:132757/1‑140 (MQ=255)

                                                ccTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCt                                                                                >  2:56476/1‑140 (MQ=255)

                                                  ttCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTgg                                                                              <  1:158153/140‑1 (MQ=255)

                                                       gCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAAt                                                                         <  2:535117/140‑1 (MQ=255)

                                                            ggAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCtgtg                                                                    <  2:55448/140‑1 (MQ=255)

                                                                   ttCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGAc                                                             <  1:466905/140‑1 (MQ=255)

                                                                   ttCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGAc                                                             <  1:414940/140‑1 (MQ=255)

                                                                   ttCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGAc                                                             <  2:306790/140‑1 (MQ=255)

                                                                   ttCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGAc                                                             <  2:324224/140‑1 (MQ=255)

                                                                                        cGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAAt                                        <  1:275750/140‑1 (MQ=255)

                                                                                                         cGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGc                       >  2:114959/1‑140 (MQ=255)

                                                                                                         cGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGc                       <  2:383639/140‑1 (MQ=255)

                                                                                                         cGATGATCATCTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGc                       >  1:352250/1‑140 (MQ=255)

                                                                                                                 atcTCTTCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGCCAGGGATa               >  2:490678/1‑140 (MQ=255)

                                                                                                                      ttCGATCAATCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGCCAGGGATAAACAg          <  1:355243/140‑1 (MQ=255)

                                                                                                                              aTCCATCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGCCAGGGATAAACAGACAttttt  >  2:149214/1‑140 (MQ=255)

GACTGCGCAGCGCTTCACGCCAGCGGGGAACATCATCAGTGATTGCCGCCTTCAGGCGTGGGAATTTTTCAAAGAAGACCGCCAGCTGCGGTGAGGCCAGCAGTGCGATGATCATCTCTTCGATCAATCCCTCTTCGCTGACGGCCAGCATCACATTAAGCGTATCCAGCGTTAGCATTGTTGTGCCTGGCGAATCTGTGCACCGACATCCTGTAGGCTGGCTTCAATGCGACCTAACCAGTCGCCAGGGATAAACAGACATTTTT  >  NC_000913/3929426‑3929691

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A