genome.fa.s2.2.7.7.80.10.50.1000.12.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_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  24162007

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   

This is table  12  of  131  ( 15626 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)
3061433--3061457	2	12.5	2	100	0	50	52	0	0	48	1.00
3067566--3067607	17	2.5	17	81	11	50	33	0	2	64	1.07
3068793--3068822	14	2.1	15	93	6	53	66	0	0	33	0.92
3070212--3070270	26	2.3	25	77	5	64	30	3	3	62	1.28
3076950--3076988	19	2.2	19	90	9	64	53	0	0	46	1.00
3082507--3082560	27	2.0	25	86	13	72	57	0	0	42	0.98
3082807--3082847	20	2.0	20	85	4	55	2	9	2	85	0.78
3083554--3083612	22	2.5	23	81	13	66	54	0	0	45	0.99
3083562--3083608	17	2.9	15	79	14	58	57	0	0	42	0.98
3083714--3083771	30	2.0	29	86	3	80	67	0	0	32	0.91
3084130--3084163	17	1.9	18	94	5	61	64	2	0	32	1.08
3085344--3085382	3	13.0	3	100	0	78	66	0	0	33	0.92
3085644--3085800	17	9.5	16	74	12	97	45	28	3	22	1.68
3085637--3085764	32	3.9	32	71	14	100	46	26	3	24	1.67
3085645--3085784	16	8.5	17	70	20	75	45	27	3	23	1.70
3085646--3085810	66	2.5	66	85	5	226	45	28	3	23	1.67
3085759--3085810	17	3.0	17	83	5	59	46	32	1	19	1.61
3097253--3097295	15	3.2	12	81	15	50	86	2	0	11	0.67
3098506--3099223	171	4.2	171	87	3	939	21	20	12	45	1.84
3099204--3099284	34	2.4	34	82	0	99	19	17	9	53	1.71
3099404--3099684	35	7.9	35	71	14	128	21	21	10	46	1.81
3099450--3099684	38	6.6	36	74	9	106	22	20	9	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3099423--3099684	109	2.4	107	86	3	364	22	21	9	46	1.81
3099450--3099663	35	5.9	36	75	11	136	22	20	9	47	1.78
3099883--3099927	16	2.8	16	81	18	58	68	0	0	31	0.89
3099891--3099926	14	2.4	15	90	9	56	72	0	0	27	0.85
3100692--3100751	28	2.1	28	81	6	68	36	18	21	23	1.95
3101148--3101186	3	13.7	3	84	10	55	66	0	2	30	1.05
3101439--3101536	17	5.9	16	77	10	90	47	34	2	15	1.57
3101613--3101664	14	3.5	13	75	25	50	48	28	1	21	1.61
3113898--3113932	2	17.5	2	100	0	70	51	0	0	48	1.00
3119983--3120077	37	2.6	35	75	17	88	37	0	1	61	1.03
3120039--3120080	17	2.5	17	81	11	50	33	0	2	64	1.07
3121256--3121286	15	2.1	15	93	0	53	67	0	0	32	0.91
3134636--3134690	27	2.0	25	86	13	74	58	0	0	41	0.98
3135678--3135751	15	4.7	15	79	9	85	54	0	0	45	1.00
3135680--3135758	33	2.4	34	83	14	103	53	0	0	46	1.00
3135851--3135911	30	2.0	30	87	0	86	63	0	0	36	0.94
3136403--3136439	19	1.9	19	88	0	56	24	54	10	10	1.67
3137514--3137572	3	19.7	3	96	0	109	66	1	0	32	1.02
3137832--3137892	32	1.9	32	83	6	79	50	27	1	19	1.57
3137908--3137991	30	2.8	30	77	12	84	46	34	0	19	1.50
3137995--3138042	14	3.3	14	77	11	51	52	25	2	20	1.58
3145875--3145915	20	2.0	20	95	0	73	17	31	9	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3150530--3150611	36	2.2	37	85	6	105	17	19	13	50	1.78
3150638--3150726	34	2.6	34	82	7	92	20	23	10	46	1.81
3150660--3151390	171	4.4	168	78	12	722	22	19	12	45	1.84
3150658--3151209	171	3.2	173	84	5	730	22	20	12	44	1.85
3151061--3151357	152	2.0	152	83	5	377	23	19	12	44	1.84
3151329--3151394	34	1.9	34	90	0	105	19	16	10	53	1.72
3151329--3151409	34	2.4	34	83	4	92	19	17	12	50	1.77
3151586--3151771	36	5.1	36	76	8	189	19	19	12	48	1.79
3151542--3151771	110	2.1	110	90	4	358	20	19	12	48	1.80
3151987--3152035	17	2.9	15	80	19	53	63	0	0	36	0.95
3153177--3153284	3	36.7	3	75	15	93	64	0	4	29	1.19
3153541--3153689	31	4.6	32	77	9	142	51	29	1	18	1.55
3153541--3153666	32	3.9	32	78	13	141	51	28	1	18	1.55
3153548--3153690	66	2.2	66	91	3	236	51	29	1	18	1.55
3153540--3153692	48	3.1	47	72	10	121	50	30	1	18	1.55
3153708--3153753	15	3.1	15	78	12	58	43	34	0	21	1.53
3153711--3153752	14	2.8	15	82	7	50	47	33	0	19	1.49
3153703--3153814	30	3.8	29	75	7	93	48	27	0	23	1.57
3154178--3154223	25	1.9	23	82	8	56	63	2	2	32	1.19
3160564--3160592	3	9.7	3	100	0	58	65	0	0	34	0.93
3160591--3160629	3	13.0	3	100	0	78	33	0	0	66	0.92
3167902--3167944	19	2.4	18	85	11	61	72	2	0	25	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3168462--3168529	29	2.3	30	78	12	79	41	13	7	38	1.72
3174221--3174276	27	2.1	27	89	0	85	57	5	0	37	1.22
3174912--3174973	19	2.9	22	75	22	60	58	0	1	40	1.08
3174918--3174986	19	3.7	19	70	21	56	57	0	1	40	1.07
3187853--3187893	20	2.0	20	95	0	73	9	19	7	63	1.48
3193582--3193611	3	10.0	3	92	0	51	33	33	30	3	1.74
3199994--3200020	11	2.5	11	100	0	54	77	0	0	22	0.76
3201453--3201485	3	11.0	3	100	0	66	66	0	0	33	0.92
3207451--3207507	18	3.1	20	80	16	70	52	0	0	47	1.00
3215292--3215317	7	3.7	7	100	0	52	57	0	0	42	0.98
3215292--3215326	14	2.5	14	90	0	52	54	0	2	42	1.15
3215435--3215476	21	2.0	21	90	4	68	47	0	0	52	1.00
3215623--3215681	23	2.5	24	77	5	66	52	3	1	42	1.28
3227413--3227472	31	2.0	30	83	9	77	38	0	3	58	1.15
3229788--3229844	30	1.9	30	85	0	78	45	0	1	52	1.11
3229817--3229868	22	2.5	22	93	6	90	50	0	0	50	1.00
3230870--3230982	55	2.1	55	87	0	163	33	2	8	54	1.45
3231553--3231610	28	2.1	28	83	6	73	41	0	1	56	1.09
3235931--3235984	11	4.7	11	79	6	54	51	1	1	44	1.22
3235932--3235981	23	2.1	24	81	3	57	56	2	2	40	1.22
3238105--3238167	24	2.6	24	87	9	85	52	1	4	41	1.32
3238156--3238204	14	3.5	14	78	10	64	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3242661--3242736	18	4.3	17	73	16	57	48	0	0	51	1.00
3242659--3242692	15	2.2	16	94	5	61	50	0	0	50	1.00
3242705--3242748	18	2.4	17	82	14	52	50	0	2	47	1.13
3242705--3242751	19	2.6	18	77	16	51	51	0	2	46	1.13
3242802--3242942	44	3.0	45	75	14	126	42	0	2	54	1.17
3242833--3242961	62	2.1	60	84	8	163	44	0	1	53	1.09
3242787--3242944	11	14.5	11	70	19	91	42	0	2	54	1.18
3242800--3242921	18	6.6	18	73	16	97	41	0	1	55	1.15
3251033--3251058	2	13.0	2	100	0	52	50	0	0	50	1.00
3256191--3256216	2	13.0	2	100	0	52	50	0	0	50	1.00
3256621--3256654	16	2.1	16	100	0	68	41	5	29	23	1.78
3261519--3261583	21	3.1	21	65	30	57	23	7	24	44	1.79
3261496--3261621	42	3.0	42	95	0	234	27	7	21	43	1.78
3264179--3264242	33	1.9	34	83	3	85	62	9	1	26	1.35
3274785--3274842	28	2.1	28	96	0	107	50	13	15	20	1.78
3289200--3289265	33	2.0	33	93	0	114	51	7	12	28	1.66
3293797--3293837	3	13.7	3	100	0	82	68	0	0	31	0.90
3295272--3295315	20	2.4	18	79	17	54	45	0	0	54	0.99
3296108--3296140	2	17.0	2	87	6	50	48	0	0	51	1.00
3299656--3299723	32	2.1	32	94	0	118	22	17	16	44	1.87
3305719--3305764	22	2.0	25	87	12	71	45	19	17	17	1.85
3308315--3308354	21	1.9	21	90	10	64	42	0	2	55	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3308416--3308601	34	5.4	33	72	13	101	50	6	2	40	1.42
3316445--3316521	37	2.1	37	95	0	136	23	12	20	42	1.87
3326601--3326657	28	2.0	28	86	0	78	52	10	8	28	1.65
3327853--3327885	17	1.9	17	93	0	57	69	6	0	24	1.10
3328384--3328445	26	2.3	26	83	8	72	46	4	0	48	1.23
3328549--3328577	2	15.0	2	92	7	51	51	0	0	48	1.00
3335705--3335740	17	2.1	17	89	0	54	55	13	13	16	1.69
3337192--3337484	143	2.0	143	100	0	586	43	7	8	39	1.65
3338018--3338064	21	2.2	21	85	7	60	61	0	2	36	1.08
3340013--3340038	2	13.0	2	100	0	52	50	0	0	50	1.00

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