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
A3 F28 I1 R1	120	93.5	3664254	88.3%	3235536	136.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,428,487	G→A	A80A (GCC→GCT)	insH‑5 ←	Rac prophage; IS5 transposase and trans‑activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,428,487	0	G	A	100.0%	49.7 / NA	22	A80A (GCC→GCT)	insH‑5	Rac prophage; IS5 transposase and trans‑activator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/8); total (14/8)

CAATTGACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGGGCATCTTCCATGGCACCGTCGCTCAGGTTGTACCAATGCTGCATGC  >  NC_000913/1428364‑1428533

cAATTGACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGATATCCAGCGATAATCGGGCAAACAGGCGCATGGAGGCGATTACGTACAGAGCATCTTCCATCGc                                  <  2:1413814/138‑1 (MQ=14)

    tGACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGcca                              >  1:461499/1‑137 (MQ=255)

     gACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGccat                             >  1:1115191/1‑136 (MQ=255)

     gACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGccat                             >  1:1284302/1‑136 (MQ=255)

     gACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGccat                             >  2:749484/1‑136 (MQ=255)

     gACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGccat                             >  1:724295/1‑136 (MQ=255)

       cGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCg                           >  1:1354268/1‑138 (MQ=255)

       cGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCg                           >  1:344399/1‑138 (MQ=255)

       cGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCg                           <  2:1540349/138‑1 (MQ=11)

        gggCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGc                          <  1:613672/138‑1 (MQ=1)

          gCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTc                        <  2:325121/138‑1 (MQ=1)

            cAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAg                      >  1:600149/1‑138 (MQ=255)

             aGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAgg                     >  2:617434/1‑138 (MQ=255)

              gTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAGGt                    <  2:344399/138‑1 (MQ=255)

               ttGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAGGtt                   >  1:1238248/1‑138 (MQ=255)

               ttGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAGGtt                   >  1:157000/1‑138 (MQ=255)

               ttGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAGGtt                   >  1:1311723/1‑138 (MQ=255)

                 gATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAGGTTGt                 <  2:1354268/138‑1 (MQ=1)

                     ctgctCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCTCAGGTTGTACCa             <  2:1284302/138‑1 (MQ=1)

                          cGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATAGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCt                         >  2:1592308/1‑121 (MQ=11)

                          cGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATAGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCGCt                         <  1:1592308/121‑1 (MQ=1)

                           gAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGAGCATCTTCCATCGCGCCATCg                           >  2:98172/1‑118 (MQ=11)

                                gctGGCGCAACTTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGTGCAAACAGGCGCATGGAGTCGATTTCGTGCAGATCATCTTCCATCGCTCCATCGCTCAGGTTGTACCAATGCtgcatgc  <  2:1818365/136‑1 (MQ=11)

CAATTGACGGGCCAGTTGATGCTGCTCGAGCAGGTGGCGGAAATTCATGATGGTGGTGCGATCCGGCAGGGCGCTATCCAGGGATAATCGGGCAAACAGGCGCATGGAGGCGATTTCGTACAGGGCATCTTCCATGGCACCGTCGCTCAGGTTGTACCAATGCTGCATGC  >  NC_000913/1428364‑1428533

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A