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 F18 I0 R1	80	28.1	641476	93.5%	599780	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,474,639	C→G	100%	A9129P (GCA→CCA)	ebh ←	extracellular matrix binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,474,639	0	C	G	100.0%	83.4 / NA	27	A9129P (GCA→CCA)	ebh	extracellular matrix binding protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (16/11); total (16/11)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GACCTTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGCTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCATT  >  CP000730/1474504‑1474774

gACCTTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGTTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGa                                                                                                                                     >  1:220092/1‑140 (MQ=255)

 atttttAATTCTATTTTGTAGTGCATTATTTTTTTCATTAATTTTGTCGATGTTATGTTTACCATTTGTTTTATCAAGTGTTACACGTTCATCAGCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGAt                                                                                                                                    <  1:120959/137‑1 (MQ=255)

         aTCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACttgt                                                                                                                            <  1:147569/140‑1 (MQ=255)

            cATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTCCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGc                                                                                                                         >  2:126494/1‑140 (MQ=255)

                    tgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTATTTTAGCAATTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGc                                                                                                                 >  1:19699/1‑140 (MQ=255)

                       gCATTGTTTTATGCATTCAATTGGTTGATGTCATGTTTACCTTTTGTTTTAGCTTGTGCAACAGAGTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCAtt                                                                                                              <  1:314234/140‑1 (MQ=255)

                            gTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATAACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCCCTTGTTGCTTATTCGCATTTTGtt                                                                                                         >  2:248391/1‑140 (MQ=255)

                                gaTGCATTCAATTGGTCGATGGCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCaa                                                                                                     <  1:46456/139‑1 (MQ=255)

                                  tGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATCTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATa                                                                                                   <  2:238342/140‑1 (MQ=255)

                                           ttGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCATGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcag                                                                                          >  1:94434/1‑140 (MQ=255)

                                           tgggTTGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcag                                                                                          <  2:126383/138‑1 (MQ=255)

                                            gtgTCTATGTCATGTTTACCATTTGTTTTACCAAGTGCTACACGTTCATCACCCTTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagc                                                                                         <  1:70526/138‑1 (MQ=255)

                                               tCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagcatc                                                                                      >  1:234898/1‑140 (MQ=255)

                                               tCGACGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTAATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagcatc                                                                                      >  2:194334/1‑140 (MQ=255)

                                                                   tGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATGCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGtttcttag                                                                  >  2:237966/1‑135 (MQ=255)

                                                                   tGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTGTGAAGTGGTTGAGCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCACCAATAGCTTGTTTATAAg                                                                  >  2:17972/1‑140 (MQ=255)

                                                                       ttAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCAtt                                                              >  2:22246/1‑140 (MQ=255)

                                                                            aaGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGtt                                                         <  2:234898/140‑1 (MQ=255)

                                                                                gCTACGCGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATc                                                     <  2:291268/140‑1 (MQ=255)

                                                                                  tACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTCAAGCAATACATTTTCAGCATCAGCAAGACCTTGTTTATAAGAATTTAGATTATCTg                                                   >  1:73878/1‑140 (MQ=255)

                                                                                    cacGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGaa                                                 <  2:224094/140‑1 (MQ=255)

                                                                                          catcaCCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCt                                           >  1:215226/1‑140 (MQ=255)

                                                                                          catcaCCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCt                                           >  2:2810/1‑140 (MQ=255)

                                                                                             tattaTTTTATGCTTGTTTTGTTTTTAAAATAGTTTGGTGTGGTTTCGGTTCTATTTGCTTATTCGCATTTTGTTTGAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTtgt                                        <  1:150939/136‑1 (MQ=255)

                                                                                                              tttGCATTTAAAATCTTTTGAGGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCCGCAATAGCTTGTCTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTg                       >  2:219103/1‑140 (MQ=255)

                                                                                                                                tGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTc     >  1:295350/1‑140 (MQ=255)

                                                                                                                                   aGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCAtt  >  1:214574/1‑140 (MQ=255)

GACCTTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGCTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCATT  >  CP000730/1474504‑1474774

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A