genome.fa.s13.2.7.7.80.10.50.1000.16.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_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  23775123

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   

This is table  16  of  129  ( 15449 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)
2909339--2909363	9	2.8	9	100	0	50	20	0	0	80	0.72
2910483--2910524	18	2.3	18	87	0	57	64	7	0	28	1.20
2915209--2915244	2	18.0	2	100	0	72	0	50	0	50	1.00
2916140--2916168	14	2.0	15	93	6	51	34	6	0	58	1.25
2928395--2928440	12	3.8	12	80	11	58	47	0	2	50	1.13
2928434--2928465	7	4.4	7	96	4	55	65	0	0	34	0.93
2928470--2928521	22	2.3	23	80	12	63	44	0	0	55	0.99
2928512--2928572	11	5.5	11	74	14	54	26	1	1	70	1.06
2928533--2928559	6	4.5	6	100	0	54	18	0	0	81	0.69
2928517--2928581	33	2.0	33	82	11	80	26	3	1	69	1.12
2931115--2931168	14	4.1	14	71	22	53	66	0	0	33	0.92
2931120--2931162	11	3.8	12	90	9	72	69	0	0	30	0.88
2932554--2932591	20	1.9	20	88	0	58	65	0	2	31	1.06
2939396--2939443	20	2.4	19	76	10	51	50	2	47	0	1.12
2939687--2939714	13	2.2	13	100	0	56	39	7	17	35	1.78
2955769--2955832	28	2.2	29	84	13	80	43	0	1	54	1.09
2955781--2955846	34	1.9	34	81	6	80	46	0	1	51	1.10
2955968--2956006	14	2.8	14	85	11	53	43	0	0	56	0.99
2955965--2956022	20	2.9	21	75	12	59	43	0	0	56	0.99
2956594--2956641	5	9.4	5	93	4	78	56	0	0	43	0.99
2957995--2958044	12	4.3	12	77	10	50	38	0	0	62	0.96
2958000--2958041	22	1.9	22	95	0	75	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2958001--2958050	14	3.7	14	79	15	52	38	0	0	62	0.96
2965475--2965576	31	3.2	32	75	12	102	49	0	0	50	1.00
2965498--2965566	28	2.3	29	82	9	77	50	0	0	49	1.00
2966441--2966481	22	2.0	20	85	9	55	46	4	2	46	1.37
2974785--2975660	437	2.0	437	99	0	1734	31	14	19	35	1.91
2975766--2975807	22	1.9	22	85	0	57	45	7	11	35	1.69
2979729--2979770	22	1.9	22	90	0	66	45	9	11	33	1.73
2986353--2986390	2	19.0	2	94	0	58	44	0	5	50	1.24
2988374--2988449	40	1.9	40	86	0	107	39	15	1	43	1.55
2991287--2991351	29	2.2	29	86	0	94	35	4	4	55	1.41
2991409--2991471	28	2.2	29	83	11	85	47	0	9	42	1.36
2993920--2993956	18	2.0	19	89	5	58	32	2	0	64	1.07
2994852--2994881	2	15.0	2	100	0	60	50	0	0	50	1.00
2999376--2999415	2	20.0	2	100	0	80	0	50	0	50	1.00
2999418--2999442	2	12.5	2	100	0	50	52	0	0	48	1.00
3008081--3008110	2	15.0	2	100	0	60	50	0	0	50	1.00
3010874--3010918	20	2.5	17	77	19	54	51	17	17	13	1.77
3010877--3010916	20	2.0	20	95	0	71	52	20	17	10	1.72
3012430--3012477	23	2.1	22	84	3	60	27	2	2	68	1.11
3013205--3013260	23	2.4	24	82	11	71	64	0	1	33	1.04
3024236--3024288	27	2.0	27	85	7	72	20	9	18	50	1.74
3024988--3025034	24	2.0	23	87	4	67	44	23	4	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3025467--3025532	23	2.7	23	81	11	62	57	7	1	33	1.36
3028403--3028456	26	2.1	25	86	3	72	57	1	1	38	1.20
3033032--3033081	2	25.0	2	100	0	100	0	50	0	50	1.00
3039802--3039836	2	17.5	2	100	0	70	0	48	0	51	1.00
3042409--3042450	22	1.9	22	95	0	75	40	0	0	59	0.97
3045226--3045250	2	12.5	2	100	0	50	48	0	0	52	1.00
3049874--3049914	19	2.2	20	86	8	59	2	17	7	73	1.17
3050885--3050935	18	2.8	18	76	8	59	49	0	3	47	1.20
3052171--3052275	52	2.0	52	98	0	201	35	9	10	44	1.71
3052994--3053019	1	26.0	1	100	0	52	100	0	0	0	0.00
3059748--3059778	6	5.2	6	100	0	62	32	32	35	0	1.58
3065386--3065415	14	2.1	14	93	0	51	40	0	0	60	0.97
3066385--3066442	19	3.1	18	76	11	55	41	1	1	55	1.20
3068729--3068841	60	1.9	60	83	0	145	46	7	8	37	1.62
3070318--3070355	17	2.1	19	90	9	62	28	2	2	65	1.19
3074447--3074499	22	2.4	22	93	6	90	49	0	0	50	1.00
3075039--3075106	22	2.8	24	82	8	68	48	1	0	50	1.10
3081315--3081352	12	3.2	12	92	0	58	42	0	7	50	1.31
3082466--3082506	22	1.9	21	85	14	57	2	26	14	56	1.51
3086908--3086978	36	2.0	36	97	0	133	45	5	5	43	1.51
3088431--3088502	12	5.9	12	72	13	58	36	0	1	62	1.04
3088454--3088525	30	2.5	30	75	4	76	40	0	1	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3088494--3088546	22	2.6	20	80	13	72	47	0	0	52	1.00
3088504--3088546	22	2.0	22	100	0	86	46	0	0	53	1.00
3089757--3089884	58	2.2	58	88	0	184	32	23	18	25	1.97
3090889--3090928	21	1.9	21	85	10	55	55	7	2	35	1.42
3097394--3097445	25	2.0	26	85	10	72	32	1	1	63	1.16
3104009--3104049	20	2.0	20	85	9	55	41	0	7	51	1.30
3104035--3104070	18	2.0	18	89	10	56	41	0	13	44	1.44
3111248--3111272	2	12.5	2	100	0	50	0	48	0	52	1.00
3114938--3114968	15	2.1	15	100	0	62	80	0	19	0	0.71
3116443--3116540	32	3.1	32	80	5	92	48	2	1	47	1.19
3116598--3116627	16	1.9	15	93	6	51	20	0	0	80	0.72
3116603--3116636	16	2.1	16	88	0	50	26	0	0	73	0.83
3135608--3135657	18	2.9	18	77	11	52	60	2	0	38	1.09
3140158--3140187	3	10.0	3	92	0	51	66	3	0	30	1.07
3153767--3153871	10	10.2	10	74	19	74	80	0	8	10	0.89
3153775--3153876	8	12.5	8	78	18	70	81	0	8	9	0.88
3153762--3153870	41	2.6	40	80	11	121	78	0	11	10	0.95
3153773--3153882	12	9.3	11	74	16	78	81	0	9	9	0.87
3154921--3155092	21	7.8	21	75	10	83	38	7	13	40	1.73
3154946--3155092	45	3.3	44	84	4	181	41	8	12	37	1.74
3154926--3155095	67	2.5	64	78	11	164	40	7	13	38	1.73
3155056--3155304	73	3.2	80	72	13	223	39	11	15	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155553--3156022	114	4.1	114	87	3	678	35	13	15	35	1.87
3155683--3155772	22	4.1	22	65	15	60	32	11	16	40	1.84
3155554--3156023	227	2.1	229	91	1	757	35	13	14	35	1.86
3156908--3156953	19	2.4	19	85	0	56	19	15	21	43	1.87
3157389--3157434	4	11.8	4	88	4	67	21	2	0	76	0.90
3157474--3157521	10	4.5	10	82	17	53	27	0	2	70	0.98
3157462--3157502	6	7.2	6	78	10	50	29	0	4	65	1.13
3157529--3157669	71	2.0	72	83	8	180	51	7	8	33	1.60
3157679--3157830	53	2.7	55	85	8	191	48	5	11	34	1.62
3157619--3157830	115	1.9	113	82	5	266	47	5	12	34	1.65
3160402--3160431	2	15.0	2	100	0	60	50	0	0	50	1.00
3162744--3162832	29	3.0	29	75	8	74	43	0	4	51	1.21
3176398--3176430	17	1.9	17	88	11	50	36	0	3	60	1.12
3176423--3176469	16	2.9	16	78	15	60	51	6	0	42	1.27
3180756--3180808	15	3.6	14	76	14	54	47	0	5	47	1.26
3192408--3192479	3	24.0	3	80	5	74	26	4	0	69	1.06
3192478--3192517	21	1.9	21	94	0	71	0	15	5	80	0.88
3192838--3192880	20	2.1	21	86	4	61	32	2	30	34	1.71
3204628--3205019	118	3.3	118	82	2	430	18	20	15	45	1.85
3204628--3205063	236	1.8	236	79	2	509	18	21	14	45	1.85
3205326--3205396	26	2.7	26	82	8	81	23	28	16	30	1.97
3205502--3205581	3	28.0	3	75	12	71	27	3	0	68	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3206103--3206145	19	2.3	19	84	8	52	30	20	20	27	1.98
3206147--3206247	51	2.0	51	82	3	123	27	6	20	44	1.77
3206417--3206458	20	2.1	20	86	8	59	11	2	2	83	0.84
3206418--3206462	15	2.9	15	86	6	54	13	2	2	82	0.86
3217379--3217429	12	4.2	12	87	5	75	31	0	1	66	1.03
3217379--3217429	25	2.1	24	92	3	84	31	0	1	66	1.03
3217375--3217465	29	3.2	28	69	15	71	37	1	2	59	1.17
3217668--3217701	11	3.2	11	87	8	52	58	0	0	41	0.98
3217668--3217701	10	3.2	10	91	8	50	58	0	0	41	0.98
3218299--3218343	22	2.2	20	88	8	63	66	2	0	31	1.04

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