genome.fa.s124.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  19848060

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   

This is table  3  of  138  ( 16447 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335407--335447	17	2.5	16	80	7	55	19	19	4	56	1.60
339963--340014	24	2.2	24	85	0	68	78	0	11	9	0.95
342946--342999	2	27.0	2	92	7	92	0	48	1	50	1.11
342999--343023	2	12.5	2	100	0	50	48	0	0	52	1.00
343037--343081	3	15.0	3	90	9	74	35	31	0	33	1.58
349002--349042	2	20.5	2	100	0	82	0	51	0	48	1.00
353602--353664	30	2.1	29	88	2	90	25	12	7	53	1.65
354841--354878	2	19.5	2	83	5	51	55	0	44	0	0.99
358353--358386	3	11.3	3	93	0	59	67	2	0	29	1.05
358937--358987	26	2.0	26	100	0	102	45	11	0	43	1.40
359238--359353	61	1.9	61	80	7	137	38	5	9	46	1.59
359964--359999	18	2.1	17	89	5	54	47	2	0	50	1.15
361995--362032	2	20.0	2	84	10	53	47	2	0	50	1.15
378283--378311	2	14.5	2	100	0	58	48	0	0	51	1.00
381038--381064	2	13.5	2	100	0	54	0	51	0	48	1.00
383562--383587	2	13.0	2	100	0	52	50	0	0	50	1.00
388714--388756	21	2.0	21	100	0	86	37	13	9	39	1.78
393799--393832	4	8.5	4	93	0	59	0	26	2	70	1.01
398453--398478	2	13.0	2	100	0	52	50	0	0	50	1.00
407444--407481	19	2.1	19	95	5	69	10	0	13	76	1.02
415057--415098	22	1.9	22	90	0	66	42	30	7	19	1.78
415186--415273	31	2.7	34	74	15	103	20	23	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415182--415497	65	4.9	65	78	0	265	19	23	12	43	1.86
415167--415472	130	2.3	129	79	2	299	19	25	13	42	1.87
417278--417372	38	2.5	38	89	0	136	40	14	14	30	1.87
419809--419848	19	2.1	19	85	0	53	42	7	2	47	1.45
424544--424569	2	13.0	2	100	0	52	50	0	0	50	1.00
430300--430329	3	10.0	3	100	0	60	66	0	0	33	0.92
438537--438564	2	14.0	2	100	0	56	50	0	0	50	1.00
439394--439423	2	15.0	2	100	0	60	50	0	0	50	1.00
441618--441654	2	18.5	2	100	0	74	51	0	0	48	1.00
447311--447337	4	6.8	4	100	0	54	77	0	0	22	0.76
456630--456696	31	2.2	30	87	10	93	50	1	0	47	1.10
461783--461810	2	14.0	2	100	0	56	50	0	0	50	1.00
463243--463267	2	12.5	2	100	0	50	52	0	48	0	1.00
469469--469499	2	16.0	2	93	6	55	51	0	0	48	1.00
470271--470329	18	3.3	18	65	13	50	13	28	5	52	1.61
470260--470341	35	2.3	35	95	0	146	9	34	6	50	1.60
493302--493362	32	1.9	32	100	0	122	47	19	9	22	1.79
493294--493375	33	2.5	34	88	11	134	46	18	14	20	1.84
493860--493909	25	2.0	25	100	0	100	20	4	36	40	1.71
498159--498208	25	2.0	25	96	0	91	22	4	34	40	1.72
504874--504898	2	12.5	2	100	0	50	52	0	48	0	1.00
506943--506973	2	15.5	2	100	0	62	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507383--507430	3	16.0	3	100	0	96	33	0	0	66	0.92
509417--509457	21	2.0	21	85	9	57	29	7	26	36	1.83
513612--513822	115	1.8	114	84	5	291	31	27	14	25	1.95
513612--513951	114	3.0	114	81	5	350	30	26	16	26	1.97
513909--514100	100	1.9	100	81	10	230	30	29	13	27	1.94
519511--519910	209	1.9	209	88	2	597	35	15	16	33	1.90
528641--528673	17	2.0	17	94	5	59	48	12	12	27	1.76
534020--534223	103	2.0	103	95	0	363	41	6	10	42	1.64
534190--534242	27	1.9	28	92	3	90	26	0	3	69	1.05
534863--534910	16	2.9	16	80	17	53	41	2	2	54	1.24
534908--534974	30	2.3	30	84	5	84	61	0	7	31	1.24
539145--539205	18	3.6	17	71	13	54	59	1	1	37	1.17
539664--539711	20	2.4	21	79	10	64	68	2	2	27	1.11
540262--540389	17	7.4	17	75	18	70	14	5	0	78	0.96
540291--540389	6	16.8	6	81	12	109	18	2	1	78	0.90
540291--540407	19	6.5	19	81	8	122	20	1	0	76	0.92
540279--540396	5	23.0	5	74	17	84	17	3	0	77	0.95
540498--540546	21	2.3	21	86	6	64	24	6	4	65	1.33
540530--540595	34	2.0	33	81	3	78	15	6	3	75	1.11
540534--540599	9	6.9	9	71	11	51	13	6	3	77	1.08
541452--541506	5	10.8	5	79	14	51	12	1	3	81	0.89
541452--541505	10	5.2	10	80	6	63	11	1	3	83	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541452--541505	19	2.9	19	81	10	67	11	1	3	83	0.85
541506--541843	59	5.9	57	83	9	370	49	5	11	34	1.61
543499--544291	237	3.4	236	84	4	930	51	7	9	31	1.64
552709--552750	15	2.8	15	81	0	57	19	11	26	42	1.85
557259--557306	11	4.4	11	83	0	51	50	0	0	50	1.00
557247--557306	22	2.7	22	71	0	57	48	0	0	51	1.00
559808--560122	157	2.0	157	91	1	515	28	16	11	43	1.83
572325--572467	70	2.0	70	91	0	232	34	16	19	28	1.94
573299--573344	20	2.3	20	82	10	58	52	0	2	45	1.13
573691--573726	3	12.0	3	100	0	72	66	0	33	0	0.92
576917--576946	3	10.0	3	92	0	51	70	0	0	30	0.88
577397--577428	2	16.0	2	100	0	64	50	0	0	50	1.00
580479--580505	2	13.5	2	100	0	54	48	0	0	51	1.00
585314--585384	37	1.9	36	83	11	90	42	0	2	54	1.14
590907--590945	2	19.0	2	94	5	69	48	2	0	48	1.15
591090--591265	87	2.0	87	97	0	334	31	13	7	47	1.72
592665--592693	2	14.5	2	100	0	58	51	0	0	48	1.00
592665--592950	145	2.0	145	99	0	563	37	17	8	36	1.80
592802--592838	2	18.5	2	100	0	74	51	0	0	48	1.00
596445--596487	2	22.0	2	95	4	79	48	0	0	51	1.00
602868--602900	2	16.5	2	100	0	66	51	0	0	48	1.00
605344--605368	13	1.9	13	100	0	50	84	0	0	16	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606043--606067	9	2.8	9	100	0	50	88	0	0	12	0.53
615197--615229	9	3.9	9	84	15	52	36	36	18	9	1.82
615197--615228	16	2.0	16	100	0	64	37	37	18	6	1.76
629480--629636	52	3.0	52	84	3	165	25	22	8	42	1.83
629653--629699	22	2.1	22	88	0	67	51	25	2	21	1.59
629661--629702	11	3.8	11	87	0	66	50	30	0	19	1.48
629661--629703	22	2.0	22	95	0	77	48	30	0	20	1.50
630026--630110	31	2.7	31	88	0	125	23	24	22	29	1.99
630593--630716	52	2.4	52	86	2	169	29	23	7	39	1.81
630593--630749	52	3.0	52	78	10	160	26	22	7	43	1.80
630766--630812	22	2.1	22	88	0	67	51	21	2	25	1.59
630774--630815	11	3.8	11	80	0	57	50	28	0	21	1.49
635874--635903	2	15.0	2	100	0	60	50	0	0	50	1.00
635976--636014	2	19.5	2	100	0	78	51	0	0	48	1.00
637073--637117	23	2.0	23	82	8	56	68	8	2	20	1.27
643986--644016	2	15.5	2	100	0	62	51	0	48	0	1.00
646518--646555	19	2.0	19	100	0	76	21	21	15	42	1.89
647151--647185	16	2.1	18	89	10	56	28	2	0	68	1.04
648332--648370	20	1.9	21	84	5	53	35	10	28	25	1.89
650294--650495	104	1.9	105	79	6	223	30	8	6	53	1.58
650524--650817	163	1.8	163	82	5	389	40	10	7	42	1.67
651293--651330	19	2.0	19	89	0	58	65	7	0	26	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651728--651869	42	3.4	41	80	8	180	45	18	11	23	1.82
652050--652095	23	2.0	22	87	4	65	39	15	10	34	1.82
652289--652328	21	1.9	21	94	0	71	35	15	7	42	1.75
652180--652407	79	2.9	78	88	2	303	33	14	10	41	1.80
652368--652409	21	2.0	21	85	0	57	38	9	7	45	1.64
653603--653700	10	9.8	10	75	14	71	7	17	0	75	1.02
653617--653735	10	12.5	10	71	19	69	9	15	0	75	1.03
653610--653680	29	2.5	28	82	13	90	7	18	0	74	1.03
653609--653735	36	3.6	37	73	24	130	8	15	0	75	1.03
653617--653735	19	6.3	19	72	17	79	9	15	0	75	1.03

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138