genome.fa.s2.2.7.7.80.10.50.1000.17.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  17  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)
4190996--4191043	18	2.7	18	78	9	53	68	2	0	29	1.01
4194698--4194731	17	2.0	17	94	0	59	58	2	11	26	1.47
4196441--4196482	22	1.9	22	85	0	57	30	14	9	45	1.77
4200391--4200432	22	1.9	22	90	0	66	33	11	9	45	1.73
4204856--4204898	16	2.8	16	82	3	52	58	0	0	41	0.98
4210058--4210117	3	20.0	3	96	0	84	66	6	0	26	1.16
4220623--4220684	28	2.2	28	85	2	79	32	1	1	64	1.13
4220623--4220693	29	2.5	28	83	4	79	33	1	1	63	1.12
4220653--4220713	22	2.8	21	83	11	79	31	1	1	65	1.12
4223190--4223237	24	2.0	24	84	8	62	58	6	2	33	1.35
4245357--4245402	23	2.1	22	88	8	67	34	6	2	56	1.37
4252571--4252613	12	3.6	12	90	0	59	20	41	0	37	1.53
4252582--4252625	9	4.9	9	80	0	52	18	43	4	34	1.70
4254552--4254588	2	18.5	2	94	0	65	54	0	0	45	1.00
4257470--4257502	17	1.9	17	93	0	57	54	6	3	36	1.41
4257663--4257696	15	2.1	15	89	10	50	82	2	5	8	0.93
4257954--4258009	19	2.9	19	89	0	67	44	5	7	42	1.54
4258434--4258505	6	11.7	6	78	11	56	70	0	4	25	1.04
4258434--4258482	18	2.6	19	87	3	64	73	0	4	22	1.00
4258434--4258505	19	3.9	17	78	7	63	70	0	4	25	1.04
4259544--4259795	125	2.0	125	90	0	396	22	25	18	33	1.96
4265464--4265525	18	3.4	18	82	8	72	45	1	0	53	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4266285--4266326	18	2.3	19	84	8	52	54	4	0	40	1.21
4268271--4268413	30	4.9	30	73	13	102	39	6	3	50	1.47
4280302--4280334	16	2.0	17	88	5	50	42	0	57	0	0.98
4286884--4287065	93	2.0	93	96	0	337	40	18	13	28	1.87
4291751--4291783	16	2.1	16	88	5	50	42	3	0	54	1.15
4291772--4291808	19	1.9	19	88	0	56	67	5	2	24	1.25
4292175--4292221	23	2.0	24	88	8	71	34	4	6	55	1.45
4292211--4292280	29	2.6	27	79	6	79	61	0	0	38	0.96
4292211--4292286	27	2.7	29	80	12	86	60	0	0	39	0.97
4302734--4302772	21	1.9	20	84	5	51	20	33	30	15	1.94
4303599--4303644	14	3.3	13	82	14	56	58	0	0	41	0.98
4303948--4304015	28	2.4	29	82	2	75	39	1	2	55	1.24
4306121--4306191	34	2.1	34	86	5	99	50	16	11	21	1.76
4306413--4306760	184	1.9	184	81	4	425	34	14	10	39	1.81
4306412--4306820	184	2.2	184	78	4	423	34	14	11	40	1.81
4307269--4307312	19	2.2	20	84	4	54	56	2	0	40	1.11
4309532--4309556	13	1.9	13	100	0	50	24	0	4	72	1.02
4310185--4310234	17	2.9	17	76	8	57	28	8	12	52	1.66
4310214--4310302	21	4.1	21	71	13	63	33	3	8	53	1.49
4310251--4310290	20	2.0	21	95	5	73	40	2	5	52	1.37
4310233--4310373	47	3.0	45	81	11	160	34	3	8	53	1.48
4310369--4310419	12	4.3	12	75	5	59	41	3	0	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4310214--4310395	67	2.7	65	78	12	181	34	3	8	53	1.49
4310355--4310422	35	1.9	35	93	0	118	36	5	2	54	1.40
4310369--4310415	23	2.0	23	83	0	58	40	4	0	55	1.19
4310382--4310415	15	2.2	16	89	5	52	38	5	0	55	1.24
4310356--4310427	20	3.9	18	71	20	51	36	5	4	54	1.43
4313472--4313514	16	2.5	19	78	21	58	30	0	0	69	0.88
4313497--4313554	29	2.0	29	83	12	75	43	3	0	53	1.17
4314196--4314246	20	2.5	20	87	6	66	45	1	3	49	1.32
4314190--4314255	20	3.2	18	76	20	51	48	1	3	46	1.26
4322814--4322882	31	2.2	31	86	0	102	39	17	8	34	1.80
4325648--4325687	20	2.1	19	85	4	53	70	10	5	15	1.32
4334788--4334825	19	2.1	19	85	9	53	68	0	2	28	1.03
4337830--4337938	56	1.9	56	90	0	173	33	11	29	25	1.92
4347901--4347943	2	22.5	2	88	9	63	44	0	0	55	0.99
4347996--4348055	25	2.4	25	84	13	72	53	3	0	43	1.17
4348479--4348506	2	14.0	2	100	0	56	50	0	0	50	1.00
4351884--4351914	15	2.1	15	100	0	62	54	12	19	12	1.70
4352495--4352648	78	2.0	78	96	0	281	26	20	19	33	1.97
4364743--4364771	2	14.5	2	100	0	58	48	0	0	51	1.00
4364827--4364886	25	2.4	25	84	13	72	53	3	0	43	1.17
4377709--4377743	2	17.5	2	100	0	70	0	51	0	48	1.00
4379687--4379731	16	2.7	17	86	3	56	46	0	13	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4398324--4398367	2	22.0	2	95	0	79	52	0	47	0	1.00
4398790--4398833	23	1.9	23	95	0	79	34	2	0	63	1.07
4400394--4400451	30	2.0	29	80	12	66	32	1	0	65	1.03
4400516--4400554	20	1.9	21	94	5	71	38	0	2	58	1.12
4400523--4400574	26	2.0	26	85	7	70	38	0	1	59	1.08
4401218--4401251	2	17.0	2	100	0	68	50	0	0	50	1.00
4403762--4403821	23	2.4	24	78	13	68	50	0	0	50	1.00
4403749--4403824	26	2.9	27	74	18	72	48	0	0	51	1.00
4403810--4403851	15	2.7	15	80	20	50	45	2	0	52	1.13
4403898--4403924	12	2.2	12	100	0	54	40	0	0	59	0.98
4404560--4404600	10	3.8	11	78	15	50	39	0	0	60	0.96
4404565--4404608	22	2.0	22	91	8	72	43	0	0	56	0.99
4404567--4404615	22	2.2	22	85	7	64	44	2	0	53	1.12
4405288--4405348	31	2.0	31	87	6	88	68	3	0	27	1.05
4405288--4405348	30	2.0	32	84	12	83	68	3	0	27	1.05
4405288--4405351	33	2.0	32	85	14	87	68	3	0	28	1.04
4406954--4407043	28	3.1	28	66	12	83	33	17	30	18	1.95
4406936--4407055	58	2.1	58	98	0	231	33	17	31	17	1.93
4407583--4407648	28	2.4	27	80	12	80	54	0	1	43	1.09
4408988--4409012	13	1.9	13	100	0	50	40	8	0	52	1.31
4409550--4409583	13	2.7	13	86	4	52	85	0	14	0	0.60
4412414--4412453	20	2.0	21	90	5	64	42	2	5	50	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416547--4416594	23	2.3	22	83	16	66	29	27	0	43	1.55
4416553--4416597	23	2.0	23	91	8	76	26	26	0	46	1.53
4416585--4416628	23	1.9	23	85	0	61	38	25	0	36	1.56
4419427--4419601	88	2.0	89	98	1	343	48	13	15	22	1.80
4433854--4433896	21	2.0	21	90	0	68	32	13	2	51	1.54
4439288--4439364	38	2.0	38	82	5	93	49	10	10	29	1.70
4447243--4447988	373	2.0	373	98	0	1429	32	17	18	31	1.95
4450585--4450690	30	3.7	28	78	13	101	59	2	2	34	1.27
4453019--4453076	28	2.1	28	100	0	116	20	6	20	51	1.70
4453125--4453172	24	2.0	24	95	0	87	35	25	4	35	1.75
4457799--4457829	6	5.2	6	100	0	62	67	0	32	0	0.91
4458158--4458201	19	2.2	20	84	11	56	81	0	11	6	0.86
4458685--4458764	37	2.2	38	78	15	87	51	1	2	45	1.22
4459467--4459492	2	13.0	2	100	0	52	50	0	0	50	1.00
4482687--4482714	13	2.2	13	100	0	56	42	0	0	57	0.99
4485453--4485586	62	2.2	62	98	0	259	26	16	13	44	1.84
4486628--4486666	2	19.5	2	94	0	69	0	46	0	53	1.00
4489545--4489580	12	3.0	12	91	0	63	30	25	2	41	1.69
4489832--4489911	13	6.1	13	75	15	67	65	0	0	35	0.93
4489839--4489911	27	2.7	26	76	12	76	65	0	0	34	0.93
4490435--4490468	12	2.9	11	87	12	50	47	0	0	52	1.00
4490509--4490566	19	3.0	20	76	16	59	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4491104--4491136	15	2.3	15	94	5	59	48	0	3	48	1.17
4492285--4492331	2	23.5	2	86	0	67	51	2	2	44	1.25
4492536--4492572	2	19.0	2	94	5	67	51	0	0	48	1.00
4497935--4497966	2	16.0	2	100	0	64	0	50	0	50	1.00
4497966--4497998	2	16.5	2	100	0	66	48	0	0	51	1.00
4498508--4498534	3	9.0	3	100	0	54	33	33	0	33	1.58
4505186--4505248	16	3.9	16	77	8	65	31	0	7	60	1.26
4505322--4505373	21	2.5	22	93	6	90	51	0	0	48	1.00
4505359--4505399	8	5.2	8	85	2	57	58	0	0	41	0.98
4505989--4506038	14	3.6	14	71	15	50	44	2	0	54	1.11

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