genome.fa.s223.2.7.7.80.10.50.1000.31.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_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  33276047

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   

This is table  31  of  190  ( 22769 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)
5384176--5384235	16	3.7	15	78	12	57	6	15	1	76	1.06
5391295--5391320	13	2.0	13	100	0	52	23	15	15	46	1.83
5391437--5391539	14	7.1	14	73	9	73	18	0	30	50	1.53
5391573--5391677	17	6.5	17	79	8	105	16	0	35	47	1.53
5391577--5391677	32	3.1	32	80	12	125	16	0	32	49	1.53
5391558--5391680	49	2.5	48	83	6	149	17	1	34	46	1.58
5391631--5391671	7	5.1	8	78	21	50	19	0	31	48	1.49
5393193--5393227	17	2.1	17	94	0	61	51	0	0	48	1.00
5395018--5395054	18	2.1	18	89	0	56	48	10	16	24	1.77
5395570--5395603	13	2.6	13	86	13	52	47	0	0	52	1.00
5400923--5400957	16	2.2	16	94	0	61	31	17	2	48	1.61
5404665--5404691	3	9.0	3	100	0	54	66	33	0	0	0.92
5409105--5409152	24	2.0	24	87	0	69	35	0	0	64	0.94
5409668--5409717	20	2.5	20	93	0	82	36	2	8	54	1.42
5409822--5409876	28	2.0	28	85	3	76	54	3	1	40	1.28
5409995--5410047	28	1.9	27	84	3	70	39	0	7	52	1.30
5410032--5410070	18	2.2	18	86	9	53	38	0	2	58	1.12
5410015--5410099	19	5.1	17	72	16	52	38	1	2	57	1.19
5410140--5410180	19	2.0	20	86	9	57	46	0	2	51	1.14
5410146--5410188	20	2.2	20	83	8	52	41	0	2	55	1.12
5410165--5410234	35	2.0	35	83	10	90	35	2	1	60	1.21
5410553--5410595	18	2.4	18	88	0	59	62	4	2	30	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5413075--5413114	2	20.0	2	100	0	80	50	0	0	50	1.00
5413176--5413215	2	20.0	2	100	0	80	50	0	0	50	1.00
5413073--5413277	101	2.0	101	100	0	410	37	10	11	40	1.77
5413870--5413898	14	2.1	14	100	0	58	31	6	6	55	1.53
5421202--5421232	5	6.2	5	92	0	53	22	19	58	0	1.40
5425912--5425951	18	2.3	17	87	12	55	60	17	2	20	1.48
5427334--5427378	17	2.8	17	80	9	51	48	4	0	46	1.22
5427433--5427479	6	7.8	6	80	17	53	63	0	0	36	0.94
5427433--5427479	23	2.0	25	87	8	71	63	0	0	36	0.94
5432775--5432801	13	2.1	13	100	0	54	77	0	0	22	0.76
5433021--5433080	23	2.7	23	79	7	61	65	0	3	31	1.09
5433614--5433689	22	3.4	21	77	13	73	31	1	0	67	0.99
5433631--5433697	22	3.0	21	85	8	89	32	0	0	67	0.91
5433642--5433684	15	3.1	14	78	15	54	32	0	0	67	0.91
5433864--5433967	54	1.9	53	92	1	172	43	10	11	34	1.76
5434163--5434211	22	2.2	22	82	7	55	36	4	8	51	1.51
5438149--5438188	20	2.0	20	85	9	55	32	5	0	62	1.17
5438790--5438832	8	5.4	8	82	0	50	11	2	2	83	0.83
5438893--5438982	23	3.9	23	75	16	80	27	3	3	65	1.24
5438927--5438973	22	2.1	23	88	4	69	29	4	4	61	1.34
5438953--5438985	15	2.1	16	88	5	50	30	6	0	63	1.18
5441277--5441323	25	2.0	24	84	12	62	40	0	4	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5441273--5441325	22	2.4	23	79	20	60	41	0	3	54	1.18
5449637--5449665	2	14.5	2	100	0	58	48	0	0	51	1.00
5455755--5455789	12	2.9	12	86	0	52	22	2	0	74	0.95
5459489--5459698	106	2.0	106	98	0	402	42	6	11	39	1.67
5459816--5459898	43	1.9	43	90	0	130	40	8	9	40	1.68
5462926--5462964	18	2.0	20	85	9	55	69	2	0	28	1.02
5463369--5463449	33	2.5	31	80	11	76	54	2	1	41	1.21
5468898--5469037	33	4.2	33	77	3	129	35	20	18	25	1.95
5468886--5469040	66	2.4	65	81	5	186	36	19	18	26	1.94
5469173--5469204	14	2.3	15	84	15	50	56	0	0	43	0.99
5470312--5470703	165	2.4	165	78	6	370	44	13	8	32	1.75
5470594--5470834	126	1.9	125	82	2	304	43	11	11	33	1.76
5470715--5471319	160	3.8	160	78	7	457	41	14	10	32	1.80
5476459--5476492	15	2.3	15	94	0	59	64	20	2	11	1.39
5477328--5477377	22	2.3	22	85	0	64	28	10	10	52	1.67
5477806--5477971	62	2.7	62	80	3	156	36	14	13	35	1.85
5479903--5479946	17	2.4	19	81	14	65	52	4	13	29	1.60
5492842--5492887	22	2.1	21	84	4	56	80	6	13	0	0.89
5504348--5504387	20	2.0	20	100	0	80	30	20	20	30	1.97
5505354--5505448	45	2.1	45	100	0	190	21	14	38	25	1.91
5514417--5514448	14	2.3	14	94	0	55	34	3	0	62	1.11
5514793--5514852	16	3.7	16	71	10	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5514770--5514844	29	2.6	30	82	18	88	54	0	0	45	0.99
5515889--5515925	10	3.5	11	82	14	51	56	0	0	43	0.99
5518593--5518651	14	4.1	14	76	20	59	50	0	1	47	1.11
5529031--5529076	23	2.0	23	100	0	92	30	4	17	47	1.67
5529222--5529284	33	1.9	32	84	9	83	33	9	14	42	1.78
5531314--5531365	21	2.5	21	78	12	61	28	19	7	44	1.78
5535378--5535422	23	2.0	22	87	12	65	48	0	0	51	1.00
5537524--5537578	23	2.5	21	77	13	58	54	0	0	45	0.99
5542637--5542706	9	7.6	9	75	15	54	45	0	4	50	1.21
5542613--5542712	26	4.1	26	76	18	108	47	0	3	50	1.16
5542648--5542722	16	4.8	16	67	18	59	45	1	2	50	1.24
5542635--5542724	46	2.0	46	95	0	162	46	1	3	48	1.25
5542733--5542771	20	1.9	21	84	5	53	58	0	0	41	0.98
5542896--5542937	22	1.9	22	90	9	68	40	0	2	57	1.12
5542854--5542937	21	3.8	22	73	17	68	41	1	3	53	1.26
5543053--5543166	45	2.5	45	76	8	124	51	0	1	45	1.17
5543077--5543190	37	3.1	36	78	3	120	50	1	1	45	1.22
5543154--5543217	24	2.7	24	76	13	69	51	1	3	43	1.26
5543267--5543317	22	2.5	20	80	6	57	45	0	0	54	0.99
5543834--5543939	54	2.0	54	96	0	194	29	18	10	41	1.84
5556645--5556675	2	15.5	2	93	0	53	45	0	3	51	1.17
5559615--5559819	100	2.0	100	96	0	374	22	8	20	49	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5560259--5560376	62	1.9	61	85	1	164	27	16	12	43	1.84
5560320--5560419	50	2.0	50	90	3	157	28	15	14	43	1.85
5560448--5560635	7	28.9	7	68	13	71	44	35	1	19	1.60
5560470--5560527	26	2.2	27	87	3	82	44	31	1	22	1.63
5560541--5560602	31	2.0	31	87	0	88	46	35	1	16	1.56
5560561--5560619	19	3.0	20	74	16	61	49	35	0	15	1.45
5560555--5560622	19	3.6	19	69	21	54	45	39	0	14	1.45
5560688--5560728	20	2.2	20	86	8	59	19	9	9	60	1.55
5561656--5561686	8	3.8	8	95	4	53	77	0	9	12	0.99
5561655--5561687	9	3.8	9	84	8	50	78	0	9	12	0.95
5561655--5561693	17	2.3	17	86	0	51	79	2	7	10	1.02
5565148--5565441	134	2.2	134	85	7	393	40	12	10	36	1.77
5566038--5566167	37	3.5	37	77	1	134	38	15	10	36	1.81
5566778--5566829	22	2.4	22	80	0	59	76	0	19	3	0.93
5566880--5566937	26	2.4	23	81	15	73	72	1	24	1	1.03
5567469--5567499	3	10.3	3	100	0	62	32	0	0	67	0.91
5578915--5578950	10	3.5	10	88	3	54	86	8	0	5	0.72
5580967--5581030	22	3.0	22	70	21	57	75	0	21	3	0.95
5583630--5583667	11	3.5	11	89	3	51	55	5	2	36	1.37
5584676--5584720	16	2.9	15	84	15	56	77	0	11	11	0.99
5584681--5584720	16	2.4	17	84	15	57	77	0	10	12	0.99
5585150--5585192	21	2.2	20	87	8	61	41	0	2	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5585452--5585504	15	3.6	14	80	9	61	79	3	9	7	1.05
5587360--5587430	37	1.9	37	94	0	124	21	22	25	30	1.98
5589202--5589258	15	3.4	16	88	11	80	35	0	0	64	0.93
5589205--5589252	3	17.3	3	83	16	68	35	0	0	64	0.94
5589202--5589258	5	10.4	5	92	7	69	35	0	0	64	0.93
5590316--5590357	20	2.0	21	90	4	68	64	2	0	33	1.07
5598666--5598756	41	2.2	41	84	0	110	30	10	20	37	1.88
5598910--5599416	119	4.2	120	80	3	531	20	22	13	43	1.86
5599613--5599667	3	19.0	3	80	14	62	36	1	0	61	1.06
5599613--5599670	21	2.8	21	85	14	77	36	1	0	62	1.06

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