genome.fa.s90.2.7.7.80.10.50.1000.55.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_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20765110

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   

This is table  55  of  117  ( 13967 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)
12382892--12382990	31	3.2	29	79	12	94	40	2	5	52	1.35
12382929--12383034	20	5.5	19	72	15	67	36	3	5	53	1.42
12382936--12383033	9	10.4	9	77	16	74	34	4	6	55	1.44
12383339--12383384	9	4.9	9	86	7	65	0	13	2	84	0.71
12383338--12383385	10	4.7	10	84	2	60	0	12	2	85	0.69
12386112--12386156	24	1.9	24	95	4	83	35	6	4	53	1.47
12391475--12391563	18	4.9	18	80	0	97	25	20	11	42	1.85
12391479--12391563	27	3.1	27	74	0	89	25	20	10	43	1.83
12391472--12391550	9	8.8	9	70	5	52	26	20	10	43	1.83
12391695--12391739	23	2.0	23	83	16	58	33	22	8	35	1.85
12391886--12391939	22	2.4	23	78	9	67	38	25	9	25	1.86
12391925--12392028	22	4.6	22	67	9	66	31	23	11	33	1.90
12391930--12391978	23	2.1	23	85	7	64	30	20	12	36	1.89
12392640--12392694	22	2.4	24	78	6	60	20	5	1	72	1.13
12392699--12392737	17	2.3	17	86	8	53	25	10	0	64	1.25
12401118--12401159	13	3.3	13	81	12	52	26	2	0	71	0.98
12401137--12401175	12	3.2	12	81	0	51	25	5	0	69	1.09
12401137--12401175	18	2.2	18	85	0	51	25	5	0	69	1.09
12401124--12401175	24	2.1	25	89	3	79	26	3	0	69	1.06
12401194--12401239	5	9.4	5	77	13	51	0	19	2	78	0.86
12401196--12401252	26	2.2	25	81	6	69	1	21	1	75	0.98
12401205--12401252	22	2.2	23	81	11	64	2	22	2	72	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12402991--12403045	25	2.2	24	81	12	67	67	1	1	29	1.11
12407803--12407907	30	3.5	30	85	0	156	41	32	13	12	1.81
12407803--12407960	30	5.5	29	71	13	112	42	31	13	12	1.82
12407803--12407960	60	2.7	60	86	5	202	42	31	13	12	1.82
12414177--12414202	2	13.0	2	100	0	52	0	50	0	50	1.00
12415267--12415357	45	2.0	45	100	0	182	39	8	18	32	1.82
12419704--12419747	21	2.1	21	82	0	52	15	2	34	47	1.58
12419891--12419935	20	2.2	20	96	0	81	8	0	40	51	1.33
12419899--12419942	20	2.2	20	83	0	52	11	0	34	54	1.36
12419951--12420031	15	5.9	14	73	20	64	17	0	37	45	1.48
12419920--12419991	21	3.5	20	78	14	67	12	1	33	52	1.48
12419951--12420038	7	12.7	7	71	20	60	15	0	38	45	1.47
12419983--12420052	20	3.6	20	82	5	81	15	0	41	42	1.47
12420058--12420097	21	1.9	21	85	10	55	20	2	27	50	1.61
12422968--12422997	16	1.9	16	93	6	53	43	0	3	53	1.17
12423700--12423742	17	2.6	16	85	7	50	69	2	0	27	1.00
12424010--12424041	4	8.2	4	93	6	57	75	0	0	25	0.81
12428921--12430807	160	11.8	158	75	8	1243	43	14	8	33	1.76
12429074--12430796	476	3.6	475	79	7	1498	43	14	8	33	1.77
12434212--12434257	21	2.2	22	84	11	69	34	32	6	26	1.82
12434221--12434278	21	2.8	21	91	0	89	34	32	6	25	1.83
12438329--12438384	26	2.1	27	90	3	87	28	1	0	69	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12438353--12438386	17	1.9	18	94	5	61	38	0	0	61	0.96
12437407--12439188	596	3.0	594	89	2	2657	35	10	20	33	1.87
12445943--12445968	11	2.4	11	100	0	52	65	0	0	34	0.93
12447154--12447213	30	2.0	31	90	3	95	51	0	11	36	1.38
12459558--12459590	17	1.9	17	93	0	57	36	21	24	18	1.95
12459603--12459638	18	2.0	18	88	0	54	33	0	13	52	1.41
12459764--12459834	36	2.0	36	83	2	90	35	12	14	38	1.84
12459868--12460015	65	2.3	65	82	3	176	41	15	8	34	1.77
12461211--12461235	5	5.0	5	100	0	50	0	20	0	80	0.72
12461243--12461296	18	3.1	18	81	7	67	12	12	0	74	1.08
12461243--12461290	9	5.8	8	83	9	53	12	12	0	75	1.06
12468492--12468538	25	2.0	23	83	8	58	44	23	12	19	1.85
12471198--12471230	16	2.1	16	88	5	50	21	3	9	66	1.33
12475223--12475326	30	3.5	30	85	0	154	42	31	13	12	1.81
12479804--12479828	2	12.5	2	100	0	50	0	52	0	48	1.00
12481544--12481573	2	15.0	2	100	0	60	0	50	0	50	1.00
12487148--12487219	20	3.6	20	82	0	81	12	1	34	51	1.48
12487150--12487370	20	11.5	20	66	18	78	14	0	37	47	1.48
12487211--12487301	40	2.5	35	79	17	112	15	0	39	45	1.46
12487224--12487313	40	2.3	39	86	5	135	15	0	38	45	1.46
12487239--12487331	20	4.8	20	76	9	102	10	0	43	46	1.38
12487340--12487379	21	1.9	21	85	10	55	20	2	27	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12490243--12490272	16	1.9	16	93	6	53	43	0	3	53	1.17
12490970--12491012	17	2.6	16	85	7	50	69	2	0	27	1.00
12496228--12498139	160	11.9	160	75	8	1250	43	14	9	33	1.77
12496228--12498109	322	5.9	319	77	7	1300	42	14	9	33	1.77
12496228--12498074	644	2.9	635	79	5	1752	42	14	9	33	1.78
12501561--12501621	21	2.9	21	85	0	86	34	27	9	27	1.89
12504411--12506121	582	2.9	582	87	5	2325	34	10	21	33	1.88
12513047--12513106	30	2.0	31	90	3	95	51	0	11	36	1.38
12515764--12515789	2	13.0	2	100	0	52	50	0	0	50	1.00
12520071--12520102	17	1.9	16	93	6	55	43	9	0	46	1.35
12525303--12525516	105	2.1	103	98	1	410	34	16	20	28	1.94
12529727--12529786	26	2.3	26	79	0	75	21	10	16	51	1.73
12530686--12530724	21	1.9	20	89	5	60	74	2	2	20	1.06
12531168--12531216	20	2.4	22	77	19	61	32	2	0	65	1.04
12531559--12531601	13	3.3	13	83	6	52	2	16	0	81	0.79
12534241--12534265	3	8.3	3	100	0	50	32	0	0	68	0.90
12534643--12534693	21	2.4	22	86	3	68	43	0	0	56	0.99
12534873--12534915	19	2.3	19	79	0	50	20	11	0	67	1.22
12536440--12536486	22	2.1	22	85	14	62	44	0	0	55	0.99
12556844--12556968	18	6.9	18	73	13	114	27	4	36	32	1.78
12556922--12556964	21	2.0	21	95	0	77	27	2	44	25	1.66
12557312--12557348	6	6.2	6	90	0	56	29	48	0	21	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12557314--12557349	18	2.0	18	94	0	63	27	47	0	25	1.52
12560744--12560792	25	1.9	26	91	4	82	40	10	2	46	1.49
12561017--12561053	20	1.9	20	88	5	58	56	5	2	35	1.36
12566167--12566227	32	1.9	32	89	0	95	47	4	6	40	1.51
12571310--12571375	34	1.9	34	82	11	82	63	6	0	30	1.18
12571414--12571453	14	2.7	14	88	7	53	67	0	0	32	0.91
12573344--12573487	65	2.2	65	81	9	168	45	8	22	24	1.79
12577753--12577861	42	2.6	42	82	1	130	19	10	14	55	1.67
12577770--12577927	37	4.0	38	77	12	131	24	10	15	50	1.74
12578605--12578682	32	2.4	32	91	0	120	55	5	10	29	1.55
12579385--12579473	33	2.7	33	75	0	97	43	4	31	20	1.71
12584181--12584231	11	4.5	11	80	11	59	68	17	1	11	1.29
12584181--12584238	23	2.6	23	80	2	73	67	15	3	13	1.36
12584166--12584231	23	2.8	23	79	11	71	68	16	3	12	1.33
12592825--12592855	16	1.9	16	93	0	53	58	6	6	29	1.48
12592907--12592961	3	18.3	3	100	0	110	67	0	0	32	0.91
12592957--12592998	23	1.9	21	85	9	57	71	7	4	16	1.26
12593829--12593859	3	10.3	3	100	0	62	35	0	32	32	1.58
12597370--12597443	7	10.3	7	69	16	53	78	2	2	16	0.98
12597368--12597418	22	2.3	23	80	13	61	76	1	3	17	1.03
12597411--12597451	19	2.2	19	95	0	73	80	2	2	14	0.92
12598225--12598369	3	51.3	3	65	23	66	61	5	2	31	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12598243--12598330	17	5.4	16	72	22	58	59	6	1	32	1.31
12598226--12598328	35	2.9	35	73	18	90	62	5	0	31	1.25
12598225--12598330	42	2.5	40	80	15	108	62	5	0	31	1.25
12598225--12598366	5	27.8	5	73	14	53	61	5	2	30	1.31
12598308--12598382	26	2.8	26	80	6	71	58	2	5	33	1.34
12598673--12599027	55	6.5	55	73	7	220	41	14	21	22	1.89
12598714--12599027	109	2.9	110	76	5	269	41	15	21	22	1.90
12598673--12599027	164	2.2	165	80	2	392	41	14	21	22	1.89
12600444--12600488	17	2.6	17	86	6	56	4	13	0	82	0.82
12605727--12605769	18	2.3	19	84	15	54	30	0	0	69	0.88

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