genome.fa.s112.2.7.7.80.10.50.1000.13.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_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  35885061

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   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   

This is table  13  of  195  ( 23297 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)
2940135--2940177	18	2.5	17	84	3	59	39	0	0	60	0.97
2940198--2940246	11	4.2	12	77	15	57	61	0	0	38	0.96
2943831--2943870	14	2.9	14	80	0	53	37	10	12	40	1.77
2945094--2945134	22	2.0	22	85	9	59	53	2	17	26	1.56
2947349--2947373	2	12.5	2	100	0	50	48	0	0	52	1.00
2954787--2954913	62	2.0	63	89	1	193	37	16	10	35	1.83
2962840--2962916	38	2.0	38	100	0	154	37	20	18	23	1.94
2970690--2970725	2	18.5	2	94	5	65	50	0	50	0	1.00
2971423--2971452	15	2.0	15	100	0	60	26	0	6	66	1.16
2973029--2973058	11	2.9	10	90	9	51	50	3	0	46	1.18
2973936--2973982	23	2.1	22	88	4	67	44	0	0	55	0.99
2976027--2976111	22	4.0	21	74	12	61	21	1	27	50	1.56
2976591--2976637	19	2.5	19	86	6	60	72	2	0	25	0.96
2977890--2977985	29	3.4	28	72	12	81	27	1	25	46	1.59
2978419--2978464	16	2.8	18	78	18	55	71	4	0	23	1.03
2979789--2979825	15	2.4	16	86	13	60	27	0	24	48	1.51
2979781--2979865	22	4.0	21	72	18	61	23	0	25	50	1.49
2979789--2979825	7	4.9	8	93	6	60	27	0	24	48	1.51
2980228--2980290	21	3.2	18	78	14	54	23	3	4	68	1.24
2982909--2982946	2	19.0	2	94	0	67	50	0	2	47	1.15
2989989--2990306	160	2.0	160	91	1	512	27	16	19	36	1.93
2991791--2991853	29	2.3	27	86	10	83	50	3	1	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2995512--2995536	12	2.1	12	100	0	50	52	0	0	48	1.00
2995904--2995961	17	3.4	17	80	4	64	46	0	3	50	1.18
2996171--2996201	3	10.3	3	100	0	62	32	0	0	67	0.91
2996997--2997221	59	3.9	56	81	11	251	40	8	4	46	1.55
2996997--2997233	58	4.1	58	82	9	277	39	8	4	47	1.53
2998180--2998216	14	2.8	14	88	8	51	81	16	0	2	0.81
2999061--2999130	23	3.1	23	81	6	63	72	0	4	22	1.01
3002699--3002789	26	3.4	26	76	15	89	40	9	5	43	1.61
3002819--3002853	15	2.3	15	90	9	54	17	0	2	80	0.84
3003353--3003390	18	2.1	18	90	0	58	26	15	0	57	1.38
3003471--3003525	18	3.1	17	78	17	58	72	1	7	18	1.16
3003888--3003969	33	2.5	32	86	2	101	32	8	18	40	1.81
3003889--3003969	32	2.5	33	85	2	101	33	8	18	39	1.81
3004454--3004544	25	3.7	25	92	1	148	38	15	4	41	1.67
3004454--3004561	25	4.5	25	88	4	125	37	17	5	39	1.73
3004433--3004561	49	2.7	46	78	11	145	37	17	6	38	1.75
3005718--3005778	24	2.6	23	82	12	70	11	9	0	78	0.96
3005718--3005775	23	2.4	25	86	11	77	10	8	0	81	0.89
3009507--3009543	14	2.4	16	86	8	51	37	2	8	51	1.46
3009791--3009815	6	4.2	6	100	0	50	16	0	0	84	0.63
3009807--3009905	47	2.1	47	84	3	128	23	14	6	56	1.60
3010373--3010434	25	2.5	26	84	12	85	46	9	0	43	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3010466--3010500	15	2.4	15	90	4	54	17	0	2	80	0.84
3010543--3010573	4	7.5	4	92	7	53	54	0	0	45	0.99
3017035--3017241	109	1.9	109	80	9	244	31	10	16	42	1.81
3017673--3017701	3	9.7	3	100	0	58	31	0	0	68	0.89
3017919--3017951	13	2.6	13	85	4	50	66	18	3	12	1.36
3018599--3018650	24	2.2	23	83	10	61	23	0	3	73	1.00
3021090--3021481	58	6.8	58	85	7	501	39	12	5	42	1.65
3021095--3021481	114	3.3	115	87	7	518	39	12	5	43	1.64
3021500--3021551	5	9.6	5	80	15	59	80	0	1	17	0.80
3021500--3021551	11	4.7	11	84	15	72	80	0	1	17	0.80
3021500--3021556	17	3.4	17	81	13	73	78	0	3	17	0.88
3021500--3021553	22	2.4	23	90	6	85	79	0	3	16	0.87
3021502--3021611	28	3.9	28	70	18	75	69	3	1	25	1.15
3021582--3021610	3	9.7	3	100	0	58	68	0	0	31	0.89
3021591--3021642	12	4.5	11	79	11	50	73	1	1	23	1.04
3021578--3021645	15	4.2	15	74	12	55	72	1	1	25	1.02
3022011--3022041	12	2.6	12	100	0	62	32	6	19	41	1.77
3025610--3025885	58	4.7	58	80	6	310	39	10	5	44	1.62
3025958--3026007	3	16.3	3	95	4	91	66	0	0	34	0.92
3026755--3026852	27	3.6	28	83	5	112	60	4	5	30	1.37
3026846--3026895	15	3.2	15	88	5	64	72	2	0	26	0.96
3029518--3029566	22	2.2	23	85	10	66	59	4	0	36	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3030505--3030542	6	6.2	6	87	6	58	65	2	0	31	1.06
3033214--3033243	8	3.8	8	95	0	51	23	0	6	70	1.11
3033662--3033726	3	21.3	3	76	14	62	29	1	0	69	0.98
3033707--3033745	19	2.1	19	85	0	51	10	7	0	82	0.86
3034551--3034591	20	2.1	19	86	13	57	14	4	2	78	1.03
3034581--3034621	3	13.7	3	84	0	55	26	2	4	65	1.25
3034653--3034695	5	8.4	5	80	14	52	16	4	0	79	0.90
3034647--3034703	21	2.6	22	86	8	73	15	8	0	75	1.04
3034716--3034988	58	4.7	58	89	5	408	45	5	11	37	1.65
3034715--3035049	58	5.7	59	86	6	398	45	5	11	37	1.64
3046584--3046828	41	5.9	40	79	10	183	26	13	17	42	1.87
3046584--3046911	124	2.6	124	85	4	365	26	13	17	42	1.87
3046633--3047037	86	4.8	84	84	6	371	26	13	16	43	1.85
3046633--3046997	41	8.7	40	80	9	315	26	13	16	43	1.85
3047292--3047405	3	34.7	3	73	18	68	33	2	0	64	1.08
3047292--3047405	16	6.9	16	72	19	83	33	2	0	64	1.08
3047309--3047375	24	2.8	24	80	17	93	37	4	0	58	1.19
3047357--3047409	13	4.1	13	80	9	63	26	0	0	73	0.83
3048188--3048331	5	27.8	5	73	15	75	24	1	2	72	1.04
3048190--3048246	29	2.0	28	86	10	80	26	0	3	70	1.03
3048255--3048339	41	2.1	41	88	4	127	18	4	0	76	0.96
3048350--3048680	58	5.7	57	82	9	397	45	6	11	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3048351--3048684	117	2.9	116	88	6	475	45	6	11	36	1.66
3048350--3048684	175	1.9	171	84	10	439	45	6	11	36	1.67
3049335--3049409	3	25.7	3	94	5	136	68	0	0	32	0.90
3051739--3051768	11	2.7	11	94	0	51	0	13	0	86	0.57
3054546--3054570	4	6.2	4	100	0	50	52	0	0	48	1.00
3061947--3062011	28	2.3	28	84	10	80	40	9	4	46	1.57
3063133--3063352	59	3.8	57	79	8	237	44	6	13	36	1.69
3064012--3064043	3	10.7	3	100	0	64	68	0	0	31	0.90
3076693--3076757	28	2.3	28	84	10	80	40	9	4	46	1.57
3077614--3077673	17	3.6	18	80	13	65	50	1	1	46	1.21
3077596--3077673	17	4.6	17	80	13	56	48	1	1	48	1.17
3081017--3081088	36	2.0	36	97	0	135	33	18	13	34	1.90
3080933--3081172	120	2.0	120	90	0	381	30	20	12	35	1.91
3082293--3082334	21	2.0	21	100	0	84	19	19	28	33	1.96
3088272--3088310	19	2.1	19	85	0	51	43	7	7	41	1.62
3088336--3088389	16	3.2	16	80	10	63	53	1	3	40	1.29
3088331--3088461	34	4.0	32	74	11	104	43	3	3	48	1.39
3089036--3089086	26	2.0	26	84	0	66	33	5	15	45	1.71
3089409--3089519	56	2.0	57	94	1	197	34	17	18	30	1.93
3103715--3103833	54	2.2	54	82	5	143	26	24	17	31	1.97
3114070--3114138	35	2.0	35	88	0	102	39	8	0	52	1.33
3114343--3114386	23	1.9	24	86	9	65	34	2	4	59	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115021--3115053	18	1.9	17	88	11	50	24	0	0	75	0.80
3116145--3116215	24	3.0	23	71	18	58	38	4	2	54	1.34
3121847--3121916	35	2.0	36	97	2	133	48	5	2	42	1.41
3130279--3130320	14	3.0	14	76	10	50	59	0	0	40	0.97
3144833--3144896	16	3.7	17	70	14	51	43	0	0	56	0.99
3158831--3158857	1	27.0	1	100	0	54	0	0	100	0	0.00
3173281--3173312	2	16.0	2	93	0	55	46	3	0	50	1.17
3180288--3180334	2	23.5	2	87	8	69	48	2	2	46	1.25
3181939--3181998	15	4.0	15	80	0	66	43	0	50	6	1.28
3187272--3187311	3	13.3	3	100	0	80	32	0	0	67	0.91

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   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195