genome.fa.s13.2.7.7.80.10.50.1000.21.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  21  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)
4192676--4192719	21	2.1	21	95	0	79	50	4	25	20	1.67
4194787--4194815	14	2.0	15	93	6	51	41	0	17	41	1.49
4195435--4195491	30	1.9	30	82	7	71	66	0	19	14	1.25
4195780--4195839	6	9.8	6	84	10	70	83	0	1	15	0.73
4195780--4195862	7	11.7	7	84	5	80	79	0	6	14	0.91
4195780--4195863	29	2.9	28	79	13	91	79	0	5	14	0.90
4195780--4195861	14	5.9	14	86	8	96	79	0	6	14	0.92
4196997--4197062	32	2.1	33	80	8	82	21	13	10	54	1.69
4197159--4197237	32	2.4	33	77	12	83	17	27	13	40	1.88
4197271--4197364	32	2.9	32	79	0	107	22	31	11	34	1.90
4197369--4197447	33	2.5	31	79	8	77	18	20	11	49	1.78
4197514--4197599	32	2.7	32	81	1	102	24	24	9	41	1.84
4197699--4197791	33	2.8	33	72	8	89	25	16	15	43	1.86
4198055--4198177	11	10.8	11	73	17	92	21	8	0	68	1.22
4198055--4198162	17	6.5	17	70	15	66	21	10	0	67	1.26
4198055--4198162	6	18.7	6	69	18	52	21	10	0	67	1.26
4198054--4198164	28	3.9	27	72	20	75	21	9	0	67	1.25
4199204--4199254	13	4.2	12	78	12	59	66	1	1	29	1.13
4199848--4199961	53	2.1	53	87	4	158	48	8	10	32	1.68
4200783--4200884	50	2.0	50	96	0	186	41	3	7	47	1.51
4201994--4202074	7	11.1	7	71	19	51	25	2	0	71	0.98
4202038--4202074	6	6.2	6	90	9	58	18	0	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4202973--4203022	22	2.3	21	83	6	64	26	0	2	72	0.96
4202973--4203056	28	3.1	27	79	15	79	25	0	1	73	0.90
4202973--4203096	6	19.5	6	80	11	74	23	0	0	75	0.91
4202996--4203056	8	8.1	8	90	9	78	24	0	0	75	0.80
4203101--4203619	58	8.9	58	82	6	536	45	7	12	33	1.72
4203109--4203619	117	4.4	118	85	6	677	44	8	13	34	1.73
4203101--4203619	175	3.0	172	82	6	625	45	7	12	33	1.72
4204727--4204772	25	2.0	22	91	8	65	36	19	8	34	1.83
4209500--4209642	42	3.4	41	83	9	182	24	14	18	42	1.87
4209523--4209654	41	3.2	41	90	2	210	21	15	21	40	1.91
4209500--4209654	83	1.9	83	89	2	240	23	15	19	41	1.89
4209645--4209680	18	2.0	18	100	0	72	22	22	27	27	1.99
4209663--4209739	39	2.0	40	87	7	113	24	14	19	41	1.89
4209708--4209928	41	5.3	41	82	5	259	29	15	19	34	1.93
4209723--4209928	83	2.5	83	86	1	297	30	15	18	34	1.92
4209888--4210024	47	2.9	47	85	8	165	24	13	18	43	1.87
4210294--4210319	5	5.2	5	100	0	52	19	0	0	80	0.71
4210339--4210397	20	3.0	20	85	9	68	30	5	1	62	1.26
4210247--4210380	23	5.7	23	70	22	91	31	3	1	63	1.21
4210243--4210380	11	12.3	10	73	21	73	31	3	1	63	1.20
4210339--4210391	23	2.3	23	90	6	81	30	3	1	64	1.22
4210965--4211003	19	2.2	16	86	13	51	64	0	35	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4211269--4211339	21	3.5	20	71	19	58	23	0	2	73	0.97
4211259--4211379	30	4.3	28	72	15	90	23	1	1	73	1.01
4211303--4211380	5	15.2	5	74	21	65	20	2	0	76	0.90
4211259--4211380	12	9.7	13	69	24	52	22	1	1	73	1.01
4211398--4211784	58	6.7	57	80	9	367	44	6	11	36	1.67
4211393--4211784	116	3.4	115	82	7	440	44	6	11	36	1.67
4214015--4214048	11	3.1	11	82	0	50	79	0	14	5	0.91
4214299--4214328	2	15.0	2	92	0	51	50	3	0	46	1.18
4215574--4215607	16	2.2	16	89	5	52	64	5	0	29	1.17
4226308--4226384	29	2.5	31	85	12	106	40	1	3	54	1.27
4226425--4226501	29	2.6	29	83	10	84	53	2	0	44	1.14
4226439--4226501	29	2.2	29	86	8	85	55	1	0	42	1.09
4233517--4233725	55	3.8	53	77	11	179	34	5	4	55	1.44
4235116--4235178	12	5.1	12	75	19	58	44	0	0	55	0.99
4235181--4235232	24	2.2	24	89	6	79	46	0	0	53	1.00
4238508--4238616	43	2.5	43	92	2	175	31	26	16	25	1.97
4247909--4248136	55	4.1	53	74	9	165	32	7	8	51	1.59
4247947--4248287	187	1.8	186	83	6	447	33	7	7	51	1.58
4248134--4248342	55	3.8	55	79	6	201	35	8	4	51	1.52
4248134--4248342	110	1.9	110	81	6	253	35	8	4	51	1.52
4248774--4248815	20	2.2	20	82	4	50	47	9	21	21	1.79
4254969--4255032	26	2.6	25	82	5	76	45	7	3	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4254685--4255043	193	1.8	194	82	6	458	37	8	7	46	1.63
4254990--4255038	25	2.0	26	92	8	84	42	6	4	46	1.47
4256160--4256414	40	6.3	41	82	3	275	50	16	11	21	1.76
4256114--4256410	80	3.7	80	84	2	335	49	17	10	22	1.77
4256909--4257243	46	7.3	46	85	2	406	38	13	9	38	1.77
4256900--4257242	92	3.7	91	87	2	472	38	13	9	38	1.77
4256900--4257242	138	2.5	138	87	2	483	38	13	9	38	1.77
4258387--4258439	12	4.3	13	77	17	51	5	13	0	81	0.86
4258382--4258438	17	3.2	18	77	7	62	7	14	0	78	0.94
4258386--4258445	18	3.3	18	71	13	50	10	11	0	78	0.97
4258904--4258949	18	2.6	18	85	0	56	4	4	6	84	0.85
4258904--4258943	9	4.4	9	87	0	53	5	2	5	87	0.73
4259154--4259213	30	2.0	29	83	3	75	71	8	0	20	1.11
4264869--4265087	54	4.1	53	72	15	146	36	6	6	50	1.54
4264898--4265123	55	4.2	53	76	14	212	36	7	7	48	1.59
4264898--4265200	55	5.6	53	75	14	203	36	7	6	49	1.56
4264990--4265200	110	1.9	109	80	10	241	36	7	5	50	1.53
4265717--4265747	16	1.9	16	93	0	53	80	6	3	9	0.99
4270535--4270561	11	2.5	11	100	0	54	55	0	7	37	1.28
4271020--4271053	2	17.0	2	100	0	68	50	0	0	50	1.00
4276463--4276521	28	2.2	29	79	14	72	45	0	0	54	0.99
4276476--4276521	14	3.4	13	80	11	56	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4276513--4276569	24	2.5	22	78	13	62	40	5	0	54	1.23
4279312--4279357	19	2.3	20	85	3	58	43	17	2	36	1.61
4283102--4283156	26	2.1	26	100	0	110	45	21	14	18	1.85
4287167--4287389	110	2.0	110	98	0	428	29	13	14	43	1.83
4292896--4292927	15	2.1	15	94	0	55	31	6	34	28	1.82
4305861--4306029	85	2.0	83	90	5	270	30	14	17	37	1.90
4306647--4306724	40	2.0	40	92	0	129	42	24	11	21	1.86
4306654--4306767	37	3.0	37	82	6	122	43	22	11	21	1.85
4311290--4311338	21	2.3	22	80	16	59	57	14	18	10	1.65
4311306--4311345	21	1.9	21	94	0	71	52	12	20	15	1.74
4315779--4315851	29	2.4	30	88	6	112	54	0	0	45	0.99
4315773--4315866	29	3.2	29	83	8	104	52	0	0	47	1.00
4319192--4319243	27	1.9	26	84	7	68	55	1	3	38	1.29
4323087--4323130	23	2.0	23	86	13	65	59	0	25	15	1.37
4326320--4326352	2	16.5	2	100	0	66	48	0	51	0	1.00
4336130--4336175	20	2.5	18	86	10	58	39	0	4	56	1.19
4342543--4342575	17	1.9	17	93	0	57	42	18	3	36	1.66
4347328--4347358	2	15.5	2	93	0	53	51	3	0	45	1.17
4349766--4349798	15	2.1	16	88	5	50	36	0	6	57	1.23
4353522--4353626	52	2.0	52	96	0	192	40	15	11	32	1.83
4359875--4359919	16	2.8	16	86	0	63	17	2	20	60	1.47
4360487--4360577	30	3.2	29	67	30	70	47	2	1	49	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4360792--4361161	153	2.5	150	80	8	430	48	7	3	40	1.49
4361081--4361139	31	1.9	31	92	0	100	40	8	1	49	1.43
4361089--4361155	29	2.2	31	84	5	84	47	8	0	43	1.34
4366281--4366381	30	3.4	30	83	8	134	49	0	10	38	1.45
4366285--4366397	30	3.8	29	80	14	122	50	0	8	39	1.40
4366343--4366408	29	2.2	30	81	2	80	54	1	6	37	1.34
4366285--4366408	60	2.1	60	83	7	155	52	0	8	38	1.37
4366664--4366720	29	2.0	29	83	13	73	42	0	1	56	1.10
4366827--4366887	22	2.5	22	76	12	59	62	1	6	29	1.30
4368258--4368309	27	1.9	27	96	0	95	23	21	25	30	1.99

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