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 F1 I2 R1 777 59.2 2955938 92.5% 2734242 106.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,146,011 C→T *195* (TAG→TAA)  yceF ← m(7)GTP pyrophosphatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,146,0110CT100.0% 183.3 / NA 57*195* (TAG→TAA) yceFm(7)GTP pyrophosphatase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/28);  total (29/28)

ATATAAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAACTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTAATGCCAAATCCTTCA  >  NC_000913/1145907‑1146137
                                                                                                        |                                                                                                                              
atatAAACCTGATAATGGGCAGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTa                                                                                              >  1:1432261/1‑139 (MQ=255)
  ataAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTttcccttccc                                                                                                    >  1:1154278/1‑131 (MQ=255)
  ataAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTttcccttccc                                                                                                    <  2:1154278/131‑1 (MQ=255)
  ataAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACg                                                                                                <  1:406870/135‑1 (MQ=255)
  ataAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACg                                                                                                >  2:406870/1‑135 (MQ=255)
  ataAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAAc                                                                                            >  2:1091174/1‑139 (MQ=255)
        cTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGa                                                                                      >  2:722758/1‑139 (MQ=255)
        cTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGa                                                                                      >  2:103820/1‑139 (MQ=255)
          gATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGaca                                                                                    >  1:517159/1‑139 (MQ=255)
          gATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGaca                                                                                    >  2:423262/1‑139 (MQ=255)
          gATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGaca                                                                                    >  1:2092/1‑139 (MQ=255)
          gATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGG‑TTTTCCCTTCCCGACGTAACATCTGacac                                                                                   >  1:648092/1‑139 (MQ=255)
           aTAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGacac                                                                                   >  2:228315/1‑139 (MQ=255)
           aTAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGacac                                                                                   >  2:1268874/1‑139 (MQ=255)
                   cGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGAt                                                                           <  2:659340/139‑1 (MQ=255)
                     gTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTa                                                                         >  2:494070/1‑139 (MQ=255)
                        ggCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCg                                                                      <  1:1108132/139‑1 (MQ=255)
                                 aGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAaaccaa                                                             <  1:494070/139‑1 (MQ=255)
                                   gCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGG‑TTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAaccaacca                                                          <  2:648092/139‑1 (MQ=255)
                                    cGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAaccaacca                                                          <  2:792874/139‑1 (MQ=255)
                                    cGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAaccaacca                                                          <  1:103820/139‑1 (MQ=255)
                                     gTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAg                                                         <  1:423262/139‑1 (MQ=255)
                                     gTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAg                                                         <  1:1367143/139‑1 (MQ=255)
                                     gTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAg                                                         <  1:722758/139‑1 (MQ=255)
                                      tttACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGc                                                        <  2:2092/139‑1 (MQ=255)
                                      tttACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGc                                                        <  1:1091174/139‑1 (MQ=255)
                                      tttACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGc                                                        <  1:735804/139‑1 (MQ=255)
                                        tACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTttcccttc                                                                                                      <  1:1289795/91‑1 (MQ=255)
                                        tACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTttcccttc                                                                                                      >  2:1289795/1‑91 (MQ=255)
                                        tACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCgt                                                      >  2:736223/1‑139 (MQ=255)
                                             cgcATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAg                                                                                                                     >  2:1164242/1‑71 (MQ=255)
                                             cgcATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAg                                                                                                                     <  1:1164242/71‑1 (MQ=255)
                                                   aGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCAc                                           <  1:147946/139‑1 (MQ=255)
                                                         ccAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCct                                     >  2:275833/1‑139 (MQ=255)
                                                            gCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCa                                            <  2:695212/129‑1 (MQ=255)
                                                            gCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCa                                            >  1:695212/1‑129 (MQ=255)
                                                               ccGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAAc                               >  1:581551/1‑139 (MQ=255)
                                                                  aTTGCCGGATGCGATGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTaaa                                >  2:139536/1‑135 (MQ=255)
                                                                  aTTGCCGGATGCGATGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTaaa                                <  1:139536/135‑1 (MQ=255)
                                                                       cGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGc                                                                                                                    <  2:337359/46‑1 (MQ=255)
                                                                       cGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGc                                                                                                                    >  1:337359/1‑46 (MQ=255)
                                                                       cGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAaccaacca                                                          >  2:33838/1‑104 (MQ=255)
                                                                       cGGATGCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAaccaacca                                                          <  1:33838/104‑1 (MQ=255)
                                                                            gCGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGt                  >  1:1243187/1‑139 (MQ=255)
                                                                             cGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTa                 <  2:339686/139‑1 (MQ=255)
                                                                             cGACGTAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTa                 <  2:517159/139‑1 (MQ=255)
                                                                                  tAACCACATCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTAATGcc            <  2:581551/139‑1 (MQ=255)
                                                                                         aTCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTAATGCCAAATCCt     >  2:1174869/1‑139 (MQ=255)
                                                                                          tCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAAc                       >  2:1168827/1‑120 (MQ=255)
                                                                                          tCCGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAAc                       <  1:1168827/120‑1 (MQ=255)
                                                                                            cGGCGCAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTAATGCCAAATCCTTCa  >  1:982675/1‑139 (MQ=255)
                                                                                             ggCGCAAAAAATTATCCCATCAGCGGGTTTttccc                                                                                                         >  2:607353/1‑35 (MQ=38)
                                                                                             ggCGCAAAAAATTATCCCATCAGCGGGTTTttccc                                                                                                         <  1:607353/35‑1 (MQ=255)
                                                                                               cgcAAAAAATTATCCCATCATCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAaaccaacc                                                           >  1:1279000/1‑79 (MQ=255)
                                                                                               cgcAAAAAATTATCCCATCATCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAaaccaacc                                                           <  2:1279000/79‑1 (MQ=255)
                                                                                               cgcAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTa                                                                                              >  1:1339301/1‑44 (MQ=255)
                                                                                               cgcAAAAAATTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTa                                                                                              <  2:1339301/44‑1 (MQ=255)
                                                                                                        |                                                                                                                              
ATATAAACCTGATAATGGGCGGTTGGCCTGATAAGGCGTTTACGCCGCATCAGGCCGCCAGCACCGATTGCCGGATGCGACGTAACCACATCCGGCGCAAAAAACTATCCCATCAGCGGGTTTTTCCCTTCCCGACGTAACATCTGACACAGCGCGATTAGCGGTAAACCAACCAGCGTGTTAGGATCACGCCCCTCTAAACGCTCAAACAGCGTAATGCCAAATCCTTCA  >  NC_000913/1145907‑1146137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A