genome.fa.s334.2.7.7.80.10.50.1000.13.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_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  33012953

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   

This is table  13  of  160  ( 19195 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)
4000875--4000899	12	2.1	12	100	0	50	32	28	16	24	1.96
4001664--4001726	20	3.1	20	74	19	67	55	0	20	23	1.43
4002372--4002440	24	2.6	27	80	17	81	37	0	2	59	1.12
4002410--4002443	17	2.0	17	88	0	50	47	0	0	52	1.00
4004233--4004444	57	3.7	57	84	4	266	36	11	6	45	1.66
4004233--4004444	115	1.8	115	85	6	295	36	11	6	45	1.66
4004456--4004487	8	3.9	8	95	4	55	84	0	3	12	0.74
4004803--4004854	12	4.2	12	76	14	52	1	38	0	59	1.08
4005417--4005533	4	30.5	4	66	16	52	65	0	3	30	1.09
4005413--4005530	24	4.7	24	79	13	105	65	0	4	30	1.12
4005697--4006032	42	8.0	41	82	6	274	40	20	13	26	1.89
4007036--4007092	25	2.3	25	93	6	98	12	10	0	77	1.00
4017443--4017622	58	3.1	57	80	7	213	38	10	6	43	1.65
4017678--4017726	15	3.2	16	91	5	75	75	0	0	24	0.80
4017689--4017727	8	4.9	8	90	9	62	76	0	0	23	0.78
4018644--4018768	8	16.9	7	72	14	58	62	0	4	32	1.22
4018702--4018754	27	2.0	27	85	7	72	60	0	5	33	1.20
4018739--4018768	4	7.8	4	92	7	53	76	0	0	23	0.78
4024540--4024572	17	1.9	17	100	0	66	12	15	0	72	1.12
4023629--4024974	638	2.1	639	89	1	2092	24	18	19	37	1.94
4024889--4024921	17	1.9	17	93	0	57	12	12	0	75	1.04
4025010--4025042	17	1.9	17	93	0	57	12	12	0	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4024665--4025334	366	1.8	360	90	3	1074	24	19	18	37	1.94
4025249--4025281	17	1.9	17	100	0	66	12	15	0	72	1.12
4025975--4026034	11	5.5	11	92	4	104	65	8	1	25	1.30
4026038--4026082	20	2.3	20	84	3	65	46	6	4	42	1.50
4026100--4026160	11	5.5	11	72	7	52	70	3	4	21	1.21
4026141--4026217	26	3.4	21	72	20	66	68	0	3	27	1.06
4026113--4026203	32	2.7	31	79	17	85	67	1	5	26	1.20
4026196--4026226	9	3.4	9	95	0	53	70	0	0	29	0.87
4026261--4026314	16	3.1	19	70	26	55	48	0	3	48	1.19
4026275--4026332	15	3.8	15	81	9	64	48	0	3	48	1.18
4035931--4036026	37	2.6	37	83	6	133	45	0	4	50	1.21
4035910--4035992	27	3.1	27	82	6	80	40	0	3	55	1.17
4036015--4036058	20	2.2	20	92	4	72	47	0	2	50	1.13
4036012--4036061	19	2.7	18	82	11	66	46	0	2	52	1.12
4043279--4043326	2	24.0	2	100	0	96	0	50	0	50	1.00
4046246--4046289	23	1.9	23	100	0	88	13	22	13	50	1.77
4048249--4048274	13	2.0	13	100	0	52	53	0	7	38	1.30
4048258--4048396	70	1.9	73	88	8	212	46	5	18	28	1.72
4061788--4061926	70	2.0	71	92	1	235	41	13	12	32	1.82
4062546--4062593	13	3.6	13	76	15	53	43	0	0	56	0.99
4062544--4062604	27	2.3	26	78	13	63	44	0	0	55	0.99
4065105--4065148	10	4.8	10	76	21	51	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4065205--4065239	13	2.7	13	86	0	52	28	11	0	60	1.32
4068940--4069012	38	1.9	38	94	0	128	28	13	5	52	1.63
4071198--4071240	14	2.9	15	79	10	52	79	0	11	9	0.95
4072725--4072753	14	2.0	15	93	6	51	41	6	6	44	1.58
4078167--4078215	23	2.1	23	88	0	71	53	2	2	42	1.24
4080978--4081019	20	2.0	21	86	13	61	57	0	2	40	1.12
4081045--4081085	20	2.0	20	86	9	57	56	2	4	36	1.34
4081054--4081139	42	2.1	41	84	6	111	48	4	4	41	1.44
4081088--4081168	18	4.0	22	72	25	70	48	4	7	39	1.53
4082166--4082231	15	4.6	14	74	18	57	69	0	1	28	0.97
4082143--4082224	10	7.5	11	68	24	50	69	1	1	28	1.03
4082143--4082230	24	3.7	24	69	19	60	69	1	1	28	1.03
4086126--4086166	20	2.0	20	86	9	57	56	7	4	31	1.48
4087595--4087656	21	3.0	21	76	6	56	19	3	0	77	0.90
4087595--4087696	5	19.8	5	79	15	59	24	2	0	72	0.98
4087595--4087647	7	7.6	7	78	16	56	16	3	0	79	0.88
4087608--4087656	14	3.7	13	81	7	55	22	2	0	75	0.90
4087593--4087652	28	2.2	27	80	11	70	20	3	0	76	0.92
4087665--4087708	12	3.7	12	85	11	63	27	6	0	65	1.17
4088000--4088339	185	1.8	185	83	3	452	40	12	11	35	1.79
4089924--4089975	27	1.9	27	84	7	70	17	11	3	67	1.36
4089932--4089983	27	1.9	27	88	0	77	19	9	3	67	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4095617--4095656	17	2.4	17	91	0	62	65	2	5	27	1.27
4095617--4095669	16	3.2	16	78	2	52	64	1	5	28	1.27
4098672--4098699	11	2.5	11	100	0	56	50	0	0	50	1.00
4105423--4105456	18	1.9	18	88	5	52	17	23	17	41	1.90
4109821--4109854	8	4.4	8	88	7	52	88	11	0	0	0.52
4109821--4109854	15	2.2	16	89	5	52	88	11	0	0	0.52
4111421--4111518	49	2.0	49	97	0	187	23	18	16	41	1.89
4124034--4124073	20	2.1	19	85	4	53	40	0	0	60	0.97
4124042--4124075	18	1.9	17	88	5	50	41	0	0	58	0.98
4125553--4125596	19	2.3	20	84	11	65	45	9	6	38	1.63
4125677--4125701	2	12.5	2	100	0	50	52	0	0	48	1.00
4128701--4128749	20	2.5	19	81	15	55	51	8	2	38	1.43
4134423--4134457	13	2.8	13	91	4	54	71	2	0	25	1.00
4134423--4134456	6	5.5	6	86	6	50	70	2	0	26	1.01
4144769--4144798	9	3.3	9	95	0	51	40	0	46	13	1.43
4146341--4146377	2	18.5	2	100	0	74	48	0	0	51	1.00
4153352--4153385	9	3.7	9	92	4	50	5	0	5	88	0.64
4153612--4153652	16	2.6	16	82	17	50	48	0	2	48	1.14
4154159--4154219	22	3.1	19	70	27	54	52	0	1	45	1.10
4154271--4154304	2	17.0	2	93	0	59	50	0	2	47	1.16
4154505--4154535	16	1.9	16	93	0	53	19	3	3	74	1.10
4154603--4154666	24	2.7	24	86	9	87	6	21	4	67	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4155924--4155960	18	2.2	18	90	9	60	43	0	0	56	0.99
4159365--4159418	26	2.1	26	92	0	90	40	18	25	14	1.89
4160337--4160379	18	2.3	18	80	4	50	37	0	0	62	0.95
4162033--4162166	68	2.0	65	95	4	241	29	20	13	36	1.91
4167901--4167927	2	13.5	2	100	0	54	0	48	0	51	1.00
4194234--4194286	2	28.0	2	85	11	76	52	0	0	47	1.00
4194352--4194422	6	12.0	6	72	12	58	23	0	0	76	0.79
4194356--4194389	17	2.1	16	89	10	52	17	0	0	82	0.67
4194355--4194419	24	2.7	23	86	11	87	24	0	0	75	0.81
4194352--4194422	30	2.4	30	85	2	90	23	0	0	76	0.79
4194382--4194431	24	2.1	24	88	7	75	34	0	0	66	0.92
4194438--4194469	14	2.1	16	88	11	50	75	0	3	21	0.95
4195464--4195582	58	2.1	58	95	0	211	31	8	10	50	1.66
4195612--4195680	27	2.6	26	80	13	79	52	1	0	46	1.09
4195602--4195678	27	3.0	23	71	23	57	49	1	0	49	1.09
4195647--4195696	18	2.6	19	84	15	68	50	0	0	50	1.00
4201150--4201203	24	2.2	25	80	9	67	57	0	0	42	0.98
4204778--4204881	10	9.9	10	69	20	54	63	4	0	31	1.15
4204830--4204894	3	20.7	3	76	17	53	64	3	0	32	1.09
4204789--4204896	36	3.0	37	76	13	109	61	6	0	32	1.22
4204830--4204899	30	2.4	28	81	9	79	65	4	0	30	1.11
4204830--4204891	16	3.8	16	79	12	65	64	3	0	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4207006--4207045	21	1.9	21	90	10	64	62	12	2	22	1.42
4207453--4207477	4	6.2	4	100	0	50	76	0	0	24	0.80
4208138--4208203	21	3.2	21	85	6	82	53	6	6	34	1.51
4209265--4209333	31	2.3	31	85	7	97	49	4	8	37	1.54
4215906--4215937	6	5.3	6	92	0	55	3	15	50	31	1.60
4218513--4218546	16	2.1	16	88	0	50	0	5	5	88	0.64
4219711--4219758	19	2.5	20	76	10	55	41	0	0	58	0.98
4227361--4227416	29	1.9	29	96	0	103	10	14	19	55	1.68
4234523--4234814	147	2.0	147	93	2	507	41	18	14	25	1.88
4241523--4241565	12	3.6	12	83	0	50	2	37	4	55	1.33

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