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
A21 F117 I0 R1	36	24.6	540534	94.7%	511885	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,471,910	C→T	100%	E10038E (GAG→GAA)	ebh ←	extracellular matrix binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,471,910	0	C	T	100.0%	90.3 / NA	29	E10038E (GAG→GAA)	ebh	extracellular matrix binding protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (14/15); total (14/15)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CTGTTGGATTAGCTGCTTTCATTTGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTCTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCTTGTTCAATCGTAAATTGTTCTGGATTAAATTGTT  >  CP000730/1471774‑1472034

cTGTTGGATTAGCTGCTTTCATTTGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCtt                                                                                                                          >  2:31909/1‑141 (MQ=255)

          aGCTGCTTTCATTTGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTTTTAg                                                                                                                >  2:85786/1‑141 (MQ=255)

          aGCTGCTTTCATTTGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAg                                                                                                                >  1:254483/1‑141 (MQ=255)

                    aTTTGAGCTTTAAATTGTTGCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGCATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCCTCTTGCTTTTCTTTATCTGTCAGATCAGTACGa                                                                                                      >  2:151182/1‑141 (MQ=255)

                    aTTTGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGa                                                                                                      >  1:135134/1‑141 (MQ=255)

                     tttGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCGATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAg                                                                                                     >  1:95988/1‑141 (MQ=255)

                      ttGCGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGc                                                                                                    <  2:18540/141‑1 (MQ=255)

                         aGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCttt                                                                                                 <  1:8734/141‑1 (MQ=255)

                             ttAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGAtt                                                                                             <  1:234095/141‑1 (MQ=255)

                              tAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGAttt                                                                                            >  2:75493/1‑141 (MQ=255)

                                 aTTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTtcat                                                                                         <  1:81937/141‑1 (MQ=255)

                                                    tATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGc                                                                      <  1:207309/141‑1 (MQ=255)

                                                     aTTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGCTTTCATCAATCATATGTTGAATTGcc                                                                     >  2:5948/1‑140 (MQ=255)

                                                        tCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCt                                                                  >  1:240332/1‑141 (MQ=255)

                                                              gtGCTTTTCGCACTTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATc                                                            <  2:129164/140‑1 (MQ=255)

                                                                    tGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACAAGATTTGATTTCATCAATAATATGTTGAATTACAGCTGCAGTCGATTTa                                                      >  2:254044/1‑141 (MQ=255)

                                                                      cgcACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAAt                                                    >  1:222556/1‑141 (MQ=255)

                                                                         tcGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGGTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGc                                                 <  2:148443/140‑1 (MQ=255)

                                                                            ttttaTCGCTTTAATTGCTTGTTCTTTTAATTGATTTAACTGTGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGATCTTTGATTTCATCAATCATATGGTGACTTGCATCTTCAATCGATTTAATTGCAtt                                              <  2:93019/137‑1 (MQ=255)

                                                                            ttGAATCGCTTTAATTTCTTGTTCTTTTAATTTATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCAtt                                              <  2:117108/141‑1 (MQ=255)

                                                                                aTCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGAt                                          >  2:199348/1‑141 (MQ=255)

                                                                                 tCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAACCGATTTAATTGCATTTGAtt                                         <  1:199348/141‑1 (MQ=255)

                                                                                  cGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGAttt                                        <  1:82507/141‑1 (MQ=255)

                                                                                      tGAATTGCTTGTTCTTTTAATTGATTTAACTTCGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGACCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCt                                    <  1:90620/141‑1 (MQ=255)

                                                                                                         aTTGATTTAACTTAGCAATAACTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCTTGTTCAATCGTAAATTGtt                 >  1:190042/1‑141 (MQ=255)

                                                                                                          ttGATTTAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCTTGTTCAATCGTAAATTGTTc                <  2:222556/141‑1 (MQ=255)

                                                                                                                tAACTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCTTGTTCAATCGTAAATTGTTCTGGAtt          <  2:254483/141‑1 (MQ=255)

                                                                                                                   cTTAGCAATAGCTTCTTGCTTTTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCTTGTTCAATCGTAAATTGTTCTGGATTaaa       <  2:16466/141‑1 (MQ=255)

                                                                                                                        cAATAGCTATTTCCTTTTCTTTATCTGTTCGATAATGGCGAGCTTTGCTTTGATACATCTAATGTTGTGGTGCATCTTCAATCGATTTAATTGCTTTTGATTTTGCTTGTTCAATCGTGAATTGTTCTGGTTTAAATTGtt  >  2:56729/1‑141 (MQ=255)

CTGTTGGATTAGCTGCTTTCATTTGAGCTTTAAATTGTTCCAATTGCTCACTTATTTCATCGATGCTTTGCGCACGTTGAATCGCTTGAATTGCTTGTTCTTTTAATTGATTTAACTTAGCAATAGCTTCTTGCTTCTCTTTATCTGTTAGATCAGTACGAGCTTTGATTTCATCAATCATATGTTGAATTGCATCTTCAATCGATTTAATTGCATTTGATTTTGCTTGTTCAATCGTAAATTGTTCTGGATTAAATTGTT  >  CP000730/1471774‑1472034

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A