New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3101756	NA (NA)	6 (0.020)	5/276	NT	NA	noncoding (61/79 nt)	REP218 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP218 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	= 4470461	NA (NA)					noncoding (81/88 nt)	RIP339 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP339 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site

CACCAGATTGCCGTTTTCGCCCTTCACCTGCACGGTTTGCGGGCTGACAATCACA‑TCGTCACGCGGCGTGACGCTGCACTGGTAGTCGGCGTGAGCGGTCATTGCCGTCACTGAAAGTGCTGCCGCCAGCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3101477‑3101756 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcctgatGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTGCCAGCCGTAACGACGGCTATAGAACCCTTTCACCAACTGGGTTAATGTCATATACCCTGCCAGAATCGCAACCAGCCACGGGAAATAGCTTAACGGCAGCGCCTGTAATTGCAGATAACTGGC  <  NC_000913/4470461‑4470193                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        gaccgatTTGCCGTTTTCGCCCTCCACCTCCACGGTTTGCGGG‑TAACCACCACACTGGTC‑CCCGGCGTGACCCTGCACTGGTAGTCGGCGTGAGCGGTCATGGCCGTCACTGAAAGTGCTGCCGCCAGCAGCATTTTGCGCATCATAGTCTTCCCGCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGC                                                                                                                                                                                                                                                                                    <  4:515340/267‑1                                                                                                                                 AGCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCC                                                                                                                                                                                                                                                                                   >  8:954396/1‑149                                                                                                                                  GCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCT                                                                                                                                                                                                                                                                                  <  8:878601/149‑1                                                                                                                                  GCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCT                                                                                                                                                                                                                                                                                  <  7:143462/149‑1                                                                                                                                  GCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCT                                                                                                                                                                                                                                                                                  <  6:1583364/149‑1                                                                                                                                  GCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCT                                                                                                                                                                                                                                                                                  <  7:1343412/149‑1                                                                                                                                    AGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGA                                                                                                                                                                                                                                                                                >  8:1295514/1‑149                                                                                                                                    AGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGA                                                                                                                                                                                                                                                                                <  7:954396/149‑1                                                                                                                                    AGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGAATGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGA                                                                                                                                                                                                                                                                                <  8:1579339/149‑1                                                                                                                                                       TCTTCCCTCAAGAAAAAATTAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGATGCGCTACGCTTATCAGGC                                                                                                                                                                                                                                                             <  8:1150044/149‑1                                                                                                                                                         TTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGATGCGCTACGCTTATCAGGCCT                                                                                                                                                                                                                                                           <  5:696642/149‑1                                                                                                                                                                AAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGG                                                                                                                                                                                                                                                                                     <  2:715995/116‑1                                                                                                                                                                                                                       TTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCC                                                                                                                                                                                                                                                                                   >  4:7763/1‑63                                                                                                                                                                                                                         CCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGATGCGCTACGCTTATCAGGC                                                                                                                                                                                                                                                             >  5:22912/1‑83                                                                                                                                                                                                                         CCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGATGCGCTACGCTTATCAGGC                                                                                                                                                                                                                                                             <  6:22912/83‑1                                                                                                                                                                                                                           ATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGAT                                                                                                                                                                                                                                                                               <  2:7763/63‑1                                                                                                                                                                                                                                            AACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGATGCGCTACGCTTATC                                                                                                                                                                                                                                                                 >  6:7886/1‑60                                                                                                                                                                                                                                            AACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGATGCGCTACGCTTATC                                                                                                                                                                                                                                                                 <  5:7886/60‑1                                                                                                                                                                                                                                                                                    CCTGATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTA                                                                                                                                >  5:818163/1‑149                                                                                                                                                                                                                                                                                    CCTGATGCGCTACGCTTATCAGGCCTACGTGATTCCTCCAATTTATTTAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACGTTGTCTACAATCTGAATCGGGGCTATCTTGCCCAGTTGATTCTTTATTGCCATCCGTCACAACAGCTATCCAACCCTTTCACCAACAGGGTTAATGTCATATACCCTGCCAGAAACGCGACCAGACAAGGGAACTAACTTAACGGCAACACCCGTAATTGCAGATAACCGGC  >  4:268808/1‑275                                                                                                                                                                                                                                                                                     CTGATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTAT                                                                                                                               <  7:1006345/149‑1                                                                                                                                                                                                                                                                                      tggTGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCTGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATT                                                                                                                              <  5:1493303/146‑1                                                                                                                                                                                                                                                                                      TGATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATT                                                                                                                              >  6:1378976/1‑149                                                                                                                                                                                                                                                                                      TGATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATT                                                                                                                              >  8:512389/1‑149                                                                                                                                                                                                                                                                                      TGATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATGTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATT                                                                                                                              <  7:170119/149‑1                                                                                                                                                                                                                                                                                       GATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTG                                                                                                                             >  6:1446837/1‑149                                                                                                                                                                                                                                                                                       GATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTG                                                                                                                             >  6:6592/1‑149                                                                                                                                                                                                                                                                                       GATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTG                                                                                                                             >  5:486118/1‑149                                                                                                                                                                                                                                                                                       GATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTG                                                                                                                             >  8:885192/1‑149                                                                                                                                                                                                                                                                                       GATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTC                                                                                                                                                                         >  8:1294788/1‑105                                                                                                                                                                                                                                                                                       GATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTC                                                                                                                                                                         <  7:1294788/105‑1                                                                                                                                                                                                                                                                                        ATGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTGC                                                                                                                            <  7:696253/149‑1                                                                                                                                                                                                                                                                                         TGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTGC                                                                                                                            <  7:1399738/148‑1                                                                                                                                                                                                                                                                                         TGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTGC                                                                                                                            >  8:1399738/1‑148                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CACCAGATTGCCGTTTTCGCCCTTCACCTGCACGGTTTGCGGGCTGACAATCACA‑TCGTCACGCGGCGTGACGCTGCACTGGTAGTCGGCGTGAGCGGTCATTGCCGTCACTGAAAGTGCTGCCGCCAGCAGCATTTTGCGCATCATAGTCTTCCCTCAAGAAAAAATCAGGCCAGCATTTGCTGGCCCCAGATTGATAACAAAGTACGCGTTTTCCATGCCGGATGCGGCGTAAACACCTTATCCCGCCTACTCGATCGTGCATCTTTCCAGGCCTGAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3101477‑3101756 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcctgatGCGCTACGCTTATCAGGCCTACGTGATTCCTGCAATTTATTGAATTTGTTGGCCGGATAAGGCATTTACGCCGCATCCGGCATGAACAAAACTCACTTTGTCTACAATCTGAATCGGGGCTATCGTGCCCAGTTTATTCTTTATTGCCAGCCGTAACGACGGCTATAGAACCCTTTCACCAACTGGGTTAATGTCATATACCCTGCCAGAATCGCAACCAGCCACGGGAAATAGCTTAACGGCAGCGCCTGTAATTGCAGATAACTGGC  <  NC_000913/4470461‑4470193

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.