New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 3139625 =NA (NA)8 (0.090) 6/164 NT NA noncoding (5/83 nt) REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences
?NC_000913 3139655 = NA (NA)noncoding (35/83 nt) REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences

TACCAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3139728‑3139625
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCAGTG  >  NC_000913/3139655‑3139753
                                                                                                                                                                                                           
TACCAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATC                                                                                                         <  2:231950/100‑1
 cgatctGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCC                                                                                                        <  1:2099923/94‑1
  CCAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCG                                                                                                       >  2:786804/1‑100
  CCAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCG                                                                                                       >  1:2480263/1‑100
   CAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCGG                                                                                                      >  2:1659873/1‑100
   CAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCGG                                                                                                      >  1:2233738/1‑100
   CAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGG                                                                                                      <  1:2244629/100‑1
    AGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGGC                                                                                                     <  1:1254083/100‑1
       GCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCagatcg                                                                                                  >  2:2099937/1‑94
       GCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGGCAAT                                                                                                  <  1:579650/100‑1
       GCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGGCAAT                                                                                                  <  1:527126/100‑1
         ggGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCG                                                                                                <  2:1561306/98‑1
          TGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGGCAAT                                                                                                  <  2:1777814/97‑1
           GATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTG                                                                                              <  1:1036298/100‑1
                                                           GCATTGTGCACGATTGCCGGATCCGGCGTGAACGCCTTATCCGGCAATCGTGCACAATGCCTGATGCGCCGCCGCCGCGTCTTATCACGCCTACGACAGC                                              >  1:102444/1‑100
                                                                   CACGATTGCCGGATGCGGCGTGAACGCCTTATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATC                                      >  1:1623915/1‑100
                                                                       ATTGCCGGATGCGGCGTGAACGGCTTATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGC                                  >  1:1499795/1‑100
                                                                       ATTGCCGGATGCGGCGTGAACGCCTTATCCGGCAATCGTTCACAATGCCTGATGCGACGCCGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGC                                  >  1:103672/1‑100
                                                                       ATTGCCGGATGCGGCGTGAACGCCTTATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCTCGTCTTATCAGGCCTACGAAAGCTAATCATCACG                                   >  2:1598666/1‑99
                                                                          GCCGGATGCGGCGTGAACGCCTTATCCGGCAATCGTGCACAATGCCTGATGCGACGGTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCT                               >  1:1659605/1‑100
                                                                          GCCGGATGCGGCGTGAACGCCTTATCCGGCAATCGTGCACAATGCCTGAGGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGC                                  >  1:1144918/1‑97
                                                                                                TATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGG         >  2:2204988/1‑100
                                                                                                 ATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGC        <  1:1956211/100‑1
                                                                                                 ATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGC        <  2:426271/100‑1
                                                                                                 ATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGC        <  2:1686089/100‑1
                                                                                                 ATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTG          >  1:1322923/1‑98
                                                                                                   CCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGC      <  1:98622/100‑1
                                                                                                   CCGGCAATCGTGCACAATGCCTGACGCGACGCTGCCGCGTCTTAGCAGGCGTACGAAAGCTTATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGC      <  1:1598657/100‑1
                                                                                                    CGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCA     >  1:2510915/1‑100
                                                                                                    CGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCA     <  1:1758918/100‑1
                                                                                                    CGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCA     >  2:243087/1‑100
                                                                                                     GGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCAG    >  1:2203011/1‑100
                                                                                                     GGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCAG    <  2:1656728/100‑1
                                                                                                     GGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGC      <  1:1472000/98‑1
                                                                                                       CAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCAGTG  <  1:1257745/100‑1
                                                                                                                                                                                                           
TACCAGCGCGTGATGATTAGCTTTCGTAGGCCTGATAAGACGCGGCAGCGTCGCATCAGGCATTGTGCACGATTGCCGGATGCGGCGTGAACGCCTTATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3139728‑3139625
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATCAGGCCTACGAAAGCTAATCATCACGCGCTGGTAATGTCGTAATCCATTTGGCGCAGTG  >  NC_000913/3139655‑3139753

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.