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
A15 F116 I0 R1	44	26.4	562224	96.5%	542546	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,481,355	G→T	100%	A6890E (GCA→GAA)	ebh ←	extracellular matrix binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,481,355	0	G	T	100.0%	80.3 / NA	27	A6890E (GCA→GAA)	ebh	extracellular matrix binding protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (15/12); total (15/12)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CGCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCAGC  >  CP000730/1481222‑1481488

cGCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGtt                                                                                                                                >  1:232719/1‑141 (MQ=255)

       ttCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTGGCa                                                                                                                         >  1:246956/1‑141 (MQ=255)

            ttCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGt                                                                                                                    <  2:61255/141‑1 (MQ=255)

                     ggTTTGGACGGCGTGCGTTACTTCAGCTACTGTGTTCGCTTGATTTATGTTTCCATTAACAGTACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCt                                                                                                           <  2:252799/141‑1 (MQ=255)

                                cTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTGTTTAGCATCTGTTAATTTTCAATCACCATTCa                                                                                                >  1:28774/1‑141 (MQ=255)

                                                 aCAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAgtt                                                                               >  1:212476/1‑141 (MQ=255)

                                                    gtgtGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAgttgtt                                                                            >  1:230132/1‑141 (MQ=255)

                                                        gcgcTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCAACATTCAACGCTTGTTTCGTAGTTGTTAAAg                                                                        >  2:177631/1‑141 (MQ=255)

                                                        gcgcTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGAATCCGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAg                                                                        >  2:167691/1‑141 (MQ=255)

                                                         cgcTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGt                                                                       <  2:83437/141‑1 (MQ=255)

                                                           cTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTg                                                                     >  1:46777/1‑141 (MQ=255)

                                                                  gatGTTTCCAGTAACAGCACATTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTATTCATTGTTTTTAGTATCTGTTACTTTTATATCACCATTCAAAGCTTGTTTGGTAGTTGTTAAAGTGTAACGtgc                                                              >  2:211408/1‑141 (MQ=255)

                                                                        tCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTc                                                        >  1:74263/1‑141 (MQ=255)

                                                                              aaCAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTtg                                                  <  1:54985/141‑1 (MQ=255)

                                                                               actgCACCTTTTTGTGCATTGTTTAAGTTATCGAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTtgt                                                 <  1:86223/138‑1 (MQ=255)

                                                                               aCAGCTCTTTTGTTTGCATTGTTTAGGTTATCTAACGTAGATAATGTTTGGGTTTCATTGTTTTTAGCATCTGTTTCTTTTCTATCACCATTCATCTCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTtgt                                                 <  1:61158/141‑1 (MQ=255)

                                                                               aCAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTCCAGTTGAAAGTGCTGCTTCACCTtgt                                                 >  2:63225/1‑141 (MQ=255)

                                                                                    aCCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCCTCAACTTGTGATTg                                            >  2:97816/1‑141 (MQ=255)

                                                                                           tgtgCATTGTTTAAGGTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCa                                     <  1:118249/141‑1 (MQ=255)

                                                                                              gCATTGTTGAAGTTATCTGACGGAGATAATGTTTTGTTTTCATTGTTTTTGGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCAttt                                  <  2:142376/141‑1 (MQ=255)

                                                                                                attggctAAGTTATCTAACGGAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTAGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGt                                <  1:168817/135‑1 (MQ=255)

                                                                                                  tGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTAc                              <  2:246956/141‑1 (MQ=255)

                                                                                                    tttAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCa                            <  2:230132/141‑1 (MQ=255)

                                                                                                          ttATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCt                      <  1:101616/141‑1 (MQ=255)

                                                                                                             tCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAAGGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCCTTTGTAGCATTTAGTTGa                   >  2:84460/1‑141 (MQ=255)

                                                                                                                 aCGTAGATGATGAAAGGTTTTCATTGATTTTAGCATCTGTTACCATTCTATCCCCATACAACGCGTGTTTCGTAGTTGTTACAGTCGAAAGTGCTGCTTCAACTTGTGGTCGGTTCGCATTTGTTCCATTGGCTAAATtaa               >  2:199446/1‑141 (MQ=255)

                                                                                                                   gTAGATAATGTTTGGTTTTCATTGTCTTTAGCATCTGTTACTTTGCTATCACCATTCAACGACTGTTTCGTAGTTGTTACAGTTGAAAGTTCTGCGTCCACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGacaaaat             >  2:69150/1‑135 (MQ=255)

                                                                                                                              ttggttttCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTcagc  <  2:236473/141‑1 (MQ=255)

CGCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCAGC  >  CP000730/1481222‑1481488

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A