genome.fa.s13.2.7.7.80.10.50.1000.20.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  20  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)
3945678--3945715	20	1.9	20	88	0	58	44	2	0	52	1.14
3946090--3946572	260	1.9	260	83	3	641	38	11	11	39	1.77
3953003--3953029	2	13.5	2	100	0	54	48	0	0	51	1.00
3959027--3959160	68	2.0	67	81	10	157	48	0	1	50	1.10
3959158--3959218	24	2.5	25	81	5	72	31	6	0	62	1.21
3974415--3974466	21	2.5	20	79	14	61	42	0	1	55	1.10
3974393--3974454	30	2.0	32	84	6	83	43	1	0	54	1.09
3974384--3974488	26	4.1	28	72	20	72	41	0	0	56	1.12
3974589--3974654	15	4.5	15	74	11	64	45	3	0	51	1.16
3974589--3974672	30	2.8	29	79	12	82	45	2	1	51	1.22
3974616--3974672	14	4.0	14	80	8	53	42	3	1	52	1.28
3974625--3974703	14	5.8	14	70	20	60	45	1	2	50	1.23
3974661--3974708	21	2.2	23	85	7	64	52	0	2	45	1.12
3974954--3974999	14	3.2	14	79	14	58	52	4	0	43	1.21
3975479--3975507	14	2.0	15	93	6	51	72	0	0	27	0.85
3975815--3975843	2	14.5	2	100	0	58	48	0	0	51	1.00
3984604--3984658	23	2.3	24	87	3	76	67	1	0	30	1.01
3986161--3986219	10	6.4	9	79	13	59	33	1	3	61	1.23
3986565--3986621	26	2.2	26	84	6	71	45	1	1	50	1.22
3988160--3988225	20	3.3	20	76	16	57	50	0	1	48	1.10
3988551--3988590	21	2.0	21	86	13	59	65	2	0	32	1.06
3988943--3988996	15	3.4	15	71	14	54	48	1	3	46	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3989973--3990004	15	2.1	16	88	11	50	75	3	0	21	0.95
3990272--3990309	16	2.3	17	86	4	51	60	0	0	39	0.97
3997062--3997092	2	15.5	2	100	0	62	51	0	48	0	1.00
3997229--3997281	26	1.9	28	81	11	65	28	0	1	69	0.99
3998469--3998509	20	2.0	20	90	0	64	41	0	0	58	0.98
3998617--3998653	8	4.8	8	90	6	58	40	0	0	59	0.97
3998600--3998678	29	2.8	29	74	12	83	45	0	0	54	0.99
3999099--3999139	19	2.2	19	86	0	55	63	2	4	29	1.28
3999588--3999645	9	6.3	9	77	2	53	58	1	1	37	1.18
4000814--4000840	2	13.5	2	100	0	54	0	0	48	51	1.00
4007369--4007406	19	2.0	20	84	5	51	28	0	0	71	0.87
4020910--4020952	22	2.0	22	90	0	68	55	2	2	39	1.25
4032625--4032676	25	2.1	25	89	3	79	51	0	5	42	1.25
4034813--4034840	2	14.0	2	100	0	56	50	0	0	50	1.00
4036087--4036487	58	6.8	58	76	10	305	45	6	12	35	1.69
4036145--4036602	63	7.5	62	70	14	244	47	6	11	34	1.66
4036088--4036436	120	2.9	120	85	2	450	45	6	11	36	1.66
4036666--4036696	15	2.1	15	93	0	53	58	0	9	32	1.31
4039838--4040345	121	4.1	121	79	10	487	49	6	9	34	1.62
4039839--4040183	58	5.8	58	77	9	320	47	6	9	35	1.62
4040114--4040255	72	2.0	72	79	9	157	52	7	9	31	1.60
4040185--4040328	62	2.4	61	85	9	195	53	7	7	31	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4039966--4040431	251	1.9	244	81	11	572	49	6	9	34	1.61
4059460--4059500	21	1.9	22	85	14	59	36	0	2	60	1.10
4059495--4059588	29	3.1	31	78	9	95	37	6	3	53	1.43
4059477--4059598	30	4.2	30	78	10	110	40	4	2	52	1.36
4060537--4060576	14	2.7	15	84	3	55	35	2	2	60	1.24
4061132--4061208	28	2.8	27	82	9	77	44	2	3	49	1.34
4061236--4061274	17	2.2	19	90	9	64	66	0	0	33	0.92
4061698--4061728	4	7.8	4	92	0	53	22	0	0	77	0.77
4063063--4063103	2	21.0	2	87	5	57	53	2	0	43	1.13
4066908--4066940	15	2.2	16	89	10	52	57	0	0	42	0.98
4070604--4070637	15	2.2	15	89	5	50	2	14	0	82	0.79
4070612--4070657	11	4.1	11	88	2	65	2	13	0	84	0.71
4070611--4070655	14	3.1	14	90	3	63	2	11	0	86	0.65
4070602--4070655	12	4.2	13	81	18	60	3	12	0	83	0.78
4070602--4070655	25	2.1	27	86	6	76	3	12	0	83	0.78
4070602--4070664	24	2.6	25	78	17	78	4	14	0	80	0.86
4075250--4075340	27	3.2	26	68	22	67	38	14	5	41	1.69
4075251--4075596	59	5.9	58	83	9	427	36	12	6	45	1.67
4075250--4075880	174	3.7	169	81	11	665	35	12	6	45	1.67
4075320--4075858	279	1.9	278	90	6	860	34	12	5	46	1.66
4075600--4075859	57	4.5	57	87	9	368	33	13	5	47	1.65
4075600--4075858	117	2.2	113	90	7	398	33	13	5	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4075876--4075951	5	14.8	5	69	20	50	76	2	6	14	1.10
4075875--4075934	30	1.9	31	90	6	95	76	3	6	13	1.11
4075875--4075941	30	2.2	30	86	7	91	76	2	5	14	1.10
4076846--4076892	19	2.4	19	92	3	76	74	6	8	10	1.22
4076867--4076963	43	2.3	43	81	10	114	70	3	5	21	1.21
4076856--4076960	42	2.4	43	75	13	101	69	3	6	20	1.27
4076884--4077013	21	6.3	20	72	16	83	67	2	3	26	1.17
4076884--4076974	43	2.1	42	86	9	123	70	2	3	24	1.14
4076884--4077013	41	3.2	42	77	17	123	67	2	3	26	1.17
4076916--4077158	4	61.5	4	69	18	86	67	3	2	25	1.19
4076907--4077169	23	11.3	23	69	19	113	68	3	2	25	1.18
4077077--4077171	19	5.1	18	74	20	70	75	3	2	18	1.03
4077091--4077171	24	3.3	24	77	14	85	76	3	2	17	1.04
4077593--4077672	38	2.1	39	90	4	126	46	13	15	25	1.82
4087135--4087178	21	2.2	20	83	4	52	52	6	0	40	1.28
4087248--4087351	21	4.9	19	71	18	64	54	2	3	38	1.33
4093559--4093592	17	2.1	16	88	5	50	38	5	0	55	1.24
4098772--4098829	30	1.9	30	100	0	116	50	0	25	24	1.50
4099625--4099649	2	12.5	2	100	0	50	48	0	0	52	1.00
4100514--4100538	2	12.5	2	100	0	50	48	0	0	52	1.00
4104053--4104086	10	3.5	10	88	8	52	58	0	0	41	0.98
4106373--4106427	29	1.9	28	85	3	74	41	1	0	56	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109229--4109272	17	2.8	16	80	13	56	72	0	0	27	0.85
4112583--4112894	134	2.3	134	77	10	289	29	9	4	56	1.52
4113041--4113099	21	2.8	21	81	2	73	8	13	5	72	1.24
4113095--4113139	21	2.2	21	88	7	67	51	0	0	48	1.00
4113462--4113499	16	2.3	16	90	4	58	10	10	0	78	0.95
4114006--4114163	57	2.7	59	90	4	241	35	13	8	42	1.75
4115218--4115251	14	2.2	16	90	10	54	76	2	5	14	1.09
4115216--4115252	15	2.4	17	82	17	53	75	2	5	16	1.10
4119129--4119155	2	13.5	2	100	0	54	0	51	0	48	1.00
4124351--4124508	66	2.4	66	77	2	165	45	12	21	20	1.83
4137088--4137113	3	8.7	3	100	0	52	30	0	0	69	0.89
4141296--4141348	20	2.6	20	81	3	61	49	3	0	47	1.19
4141332--4141414	22	3.7	23	70	15	66	50	0	1	48	1.08
4143512--4143565	21	2.5	22	81	3	65	9	20	0	70	1.14
4143533--4143562	12	2.5	12	94	0	51	6	13	0	80	0.91
4144565--4144645	40	2.0	40	92	0	135	32	6	34	27	1.81
4144809--4144853	12	3.8	12	85	8	56	17	0	13	68	1.20
4144861--4144914	3	18.0	3	100	0	108	33	0	0	66	0.92
4145091--4145143	22	2.5	22	82	11	67	71	0	3	24	1.02
4145091--4145156	20	3.2	21	75	16	66	66	0	4	28	1.11
4145091--4145156	21	3.2	21	74	21	68	66	0	4	28	1.11
4145302--4145343	13	3.0	13	89	10	57	71	0	2	26	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145457--4145535	38	2.1	39	83	7	99	55	1	2	40	1.21
4147488--4147568	34	2.4	34	87	0	108	49	12	13	24	1.76
4161370--4161400	3	10.3	3	92	0	53	64	0	3	32	1.09
4165018--4165102	41	2.0	42	93	2	145	20	18	15	45	1.85
4173726--4173938	114	1.9	114	86	3	304	35	17	27	19	1.94
4189775--4189930	5	29.6	5	69	15	77	18	8	2	70	1.24
4189801--4189921	17	7.2	16	68	21	61	18	9	2	69	1.28
4190152--4190180	12	2.5	12	94	5	51	68	6	24	0	1.13
4191212--4191260	25	1.9	26	84	12	66	46	4	8	40	1.52
4191591--4191698	53	2.0	53	85	3	146	48	6	13	31	1.68

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