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
A1 F1 I1 R1	773	79.9	4112934	92.2%	3792125	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,031,071	G→A	P416L (CCG→CTG)	dcm ←	DNA cytosine methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,031,071	0	G	A	100.0%	109.6 / NA	35	P416L (CCG→CTG)	dcm	DNA cytosine methyltransferase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/19); total (16/19)

CGCAACGCCACCGCCTGTTTGATTTTTGGCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCGGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCCGCGAT  >  NC_000913/2030936‑2031188

cGCAACGCCACCGCCTGTTTGATTTTTGGCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAgcg                                                                                                                    <  1:872127/139‑1 (MQ=255)

      gCCACCGCCTGTTTGATTTTTGGCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCaa                                                                                                              <  1:423479/139‑1 (MQ=255)

                   tGATTTTTGGCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAgcg                                                                                                 <  2:167223/139‑1 (MQ=255)

                     aTTTTTGGCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAgcgcg                                                                                               <  1:1514559/139‑1 (MQ=255)

                           ggCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCaaaa                                                                                                            <  2:868401/120‑1 (MQ=255)

                           ggCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCaaaa                                                                                                            >  1:868401/1‑120 (MQ=255)

                                   cAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGc                                                                                 <  1:1341981/139‑1 (MQ=255)

                                               cgcgGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGt                                                                     >  1:1914144/1‑139 (MQ=255)

                                                gcgGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTg                                                                    <  2:1390815/139‑1 (MQ=255)

                                                gcgGCAAAGACCGGCACGACCACAGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAGTACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTg                                                                    >  1:752430/1‑139 (MQ=255)

                                                    cAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACg                                                                <  1:572577/139‑1 (MQ=255)

                                                                             aCCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCa                                       >  2:681259/1‑139 (MQ=255)

                                                                              ccGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCaa                                      <  2:1914144/139‑1 (MQ=255)

                                                                                      gCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTtc                              >  1:1910367/1‑139 (MQ=255)

                                                                                              ccTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAgcg                                                                                                 <  1:1716575/64‑1 (MQ=255)

                                                                                              ccTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAgcg                                                                                                 >  2:1716575/1‑64 (MQ=255)

                                                                                                tGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTgg                    >  1:470734/1‑139 (MQ=255)

                                                                                                  aGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGcc                  >  1:1387887/1‑139 (MQ=255)

                                                                                                      tCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCg                                                                                     >  1:417059/1‑68 (MQ=255)

                                                                                                      tCCGAAACCGGAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCg                                                                                     <  2:417059/68‑1 (MQ=255)

                                                                                                              cGGAATACGGAATTTCGCTTCTCCCAACGATTCAAAAGCCATTAAGGGCGCGCATTACCGAGGCGTTAACCGACGGGGAAGAGGTTGCTGGTTCAGCGGAGCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCcg      >  1:28229/1‑139 (MQ=255)

                                                                                                                gAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCa                                                                                           >  1:399240/1‑52 (MQ=255)

                                                                                                                gAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCa                                                                                           <  2:399240/52‑1 (MQ=255)

                                                                                                                gAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCGCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCcgcg    <  1:333063/139‑1 (MQ=255)

                                                                                                                gAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGa                                                                  >  2:699317/1‑77 (MQ=255)

                                                                                                                gAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGa                                                                  <  1:699317/77‑1 (MQ=255)

                                                                                                                gAATACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCcgcg    >  1:230139/1‑139 (MQ=255)

                                                                                                                  aTACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCCGcgat  <  2:470734/139‑1 (MQ=255)

                                                                                                                  aTACGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCCGcgat  <  2:317758/139‑1 (MQ=255)

                                                                                                                     cGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTccc                                                                                      >  1:1152718/1‑52 (MQ=255)

                                                                                                                     cGGAATTTCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTccc                                                                                      <  2:1152718/52‑1 (MQ=255)

                                                                                                                           ttCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTccc                                                                                      <  2:1401861/46‑1 (MQ=255)

                                                                                                                           ttCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTccc                                                                                      >  1:1401861/1‑46 (MQ=255)

                                                                                                                           ttCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAg                                                 <  2:1737760/83‑1 (MQ=255)

                                                                                                                           ttCGCTTCTCCCAGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAg                                                 >  1:1737760/1‑83 (MQ=255)

CGCAACGCCACCGCCTGTTTGATTTTTGGCTCAAGCAGTTTTGCCACCGCGGCAAAGACCGGCACGACCACCGAGTTACCGAACTGGCGATAGGCCTGAGTGTCCGAAACCGGAATACGGAATTTCGCTTCTCCCGGCGCTTCAAAACCCATTAAGCGCGCGCATTCCCGAGGCGTTAACCGACGTGGACGATGTTGCTGATTCAGCGGATCGTCAAAGTCTTTCTCACCCGTGGCCATATCCCAGCCGCGAT  >  NC_000913/2030936‑2031188

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A