genome.fa.s334.2.7.7.80.10.50.1000.4.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  4  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)
818445--818507	20	3.0	21	79	13	76	52	0	0	47	1.00
818443--818507	21	3.2	20	77	16	71	52	0	0	47	1.00
818443--818515	20	3.6	21	77	12	73	52	0	0	47	1.00
829753--829804	24	2.2	25	86	6	72	50	5	0	44	1.26
830482--830521	21	2.0	20	85	14	55	32	5	0	62	1.17
838556--838599	15	2.9	15	83	13	54	72	0	0	27	0.85
838536--838604	11	5.8	11	74	14	57	66	1	1	30	1.09
841333--841366	2	17.0	2	100	0	68	50	50	0	0	1.00
852818--852856	19	2.1	19	95	0	69	25	33	5	35	1.78
854788--854953	84	2.0	84	86	2	237	42	15	13	28	1.84
866177--866205	2	14.5	2	100	0	58	48	0	0	51	1.00
868613--868640	8	3.5	8	100	0	56	10	32	14	42	1.80
870054--870099	21	2.2	21	84	0	56	47	6	8	36	1.60
878507--878536	2	15.0	2	100	0	60	50	0	0	50	1.00
884337--884383	13	3.8	12	83	10	51	80	0	14	4	0.85
894163--894201	4	9.8	4	94	0	69	23	0	23	53	1.46
925061--925086	9	2.9	9	100	0	52	11	11	30	46	1.76
929789--929838	13	3.8	13	81	5	55	18	2	6	74	1.12
933287--933322	18	1.9	19	88	5	56	58	11	0	30	1.33
937611--937660	26	1.9	26	83	0	64	34	22	4	40	1.72
938688--938725	19	2.0	19	94	0	67	42	18	0	39	1.50
951085--951139	18	3.0	18	94	5	101	65	10	0	23	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
952962--953034	33	2.2	32	87	2	101	46	15	5	32	1.68
956217--956248	2	16.0	2	93	0	55	46	0	0	53	1.00
965326--965360	17	2.1	17	88	0	52	48	0	0	51	1.00
969614--969666	22	2.4	22	87	6	81	47	0	1	50	1.12
974069--974183	3	41.3	3	75	17	97	37	2	1	58	1.22
974072--974170	5	19.2	5	84	8	103	38	1	2	58	1.16
974069--974182	18	6.9	16	83	8	124	37	2	1	57	1.23
975092--975134	5	8.2	5	85	10	59	20	2	0	76	0.89
975099--975149	16	3.2	16	81	10	61	19	0	1	78	0.85
981356--981428	37	2.0	37	84	10	96	17	27	12	42	1.85
981697--981894	5	38.2	5	70	17	95	36	3	6	53	1.44
981707--981908	106	1.9	110	94	5	367	36	4	6	52	1.47
981700--981906	17	11.5	17	72	21	95	36	4	6	53	1.46
981694--981924	106	2.2	100	84	12	329	35	4	5	54	1.44
981951--981984	9	3.8	9	92	7	52	5	2	0	91	0.51
981951--981984	10	3.5	10	92	4	52	5	2	0	91	0.51
981949--981983	17	2.1	17	89	10	54	8	2	0	88	0.61
982798--982863	19	3.8	17	77	22	59	18	1	4	75	1.04
982798--982848	5	10.6	5	81	14	63	19	1	1	76	0.98
982798--982848	14	3.5	15	84	10	54	19	1	1	76	0.98
983334--983371	20	2.0	20	94	5	69	50	5	0	44	1.24
991240--991292	17	3.1	17	80	2	61	43	1	9	45	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991460--991537	40	2.0	40	84	5	104	48	0	0	51	1.00
991557--991595	19	2.1	18	85	4	51	61	5	0	33	1.18
997128--997179	15	3.5	15	78	21	65	46	0	0	53	1.00
997125--997179	23	2.5	22	80	14	60	47	0	0	52	1.00
997445--997480	13	2.6	14	82	8	56	41	0	8	50	1.33
997536--997575	18	2.2	18	91	8	64	35	0	0	65	0.93
997589--997657	33	2.2	33	84	5	88	50	4	0	44	1.21
998109--998143	2	17.5	2	93	0	61	51	45	0	2	1.16
1000490--1000522	13	2.3	15	90	10	52	36	0	0	63	0.95
1000607--1000638	2	16.0	2	100	0	64	50	0	0	50	1.00
1001557--1001583	2	13.5	2	100	0	54	48	0	0	51	1.00
1007785--1007827	19	2.5	16	73	20	50	44	20	0	34	1.52
1022166--1022196	7	4.4	7	91	0	53	51	0	0	48	1.00
1022166--1022210	14	3.1	14	81	9	54	48	0	2	48	1.13
1022941--1023060	64	1.9	64	81	13	149	39	14	12	34	1.83
1022805--1023344	62	8.7	61	69	8	223	40	10	12	36	1.79
1030548--1031572	160	6.4	158	75	9	636	34	9	13	42	1.77
1030517--1031048	155	3.4	156	75	8	380	35	10	12	41	1.77
1030397--1031525	161	7.1	160	74	9	610	34	9	13	43	1.76
1040009--1040048	20	2.0	20	85	0	53	55	0	2	42	1.13
1042351--1042393	21	2.0	21	86	9	59	18	9	4	67	1.36
1055017--1055052	16	2.2	17	90	5	56	22	16	2	58	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055945--1056022	26	3.1	26	74	18	67	46	0	0	53	1.00
1055982--1056034	24	2.4	22	75	9	54	54	0	0	45	0.99
1056186--1056215	13	2.2	14	94	5	53	80	0	0	20	0.72
1067680--1067706	3	9.0	3	100	0	54	33	33	0	33	1.58
1081725--1081755	2	15.5	2	93	0	53	45	0	54	0	0.99
1083131--1083159	12	2.3	13	94	5	51	41	0	3	55	1.17
1087126--1087298	87	2.0	87	89	0	265	41	20	19	18	1.90
1093295--1093324	15	1.9	16	93	6	53	30	6	13	50	1.67
1095015--1095083	28	2.4	29	79	11	81	69	0	1	28	0.97
1095031--1095077	19	2.5	19	86	6	69	72	0	0	27	0.85
1095172--1095205	7	4.7	7	88	3	50	32	0	2	64	1.08
1096121--1096147	2	13.5	2	100	0	54	48	0	0	51	1.00
1112189--1112248	32	1.9	32	93	3	104	21	16	11	50	1.77
1119251--1119288	16	2.4	16	82	4	51	57	0	0	42	0.98
1119395--1119450	24	2.3	25	81	9	62	32	3	5	58	1.37
1119413--1119469	22	2.5	23	75	11	64	36	0	1	61	1.07
1119893--1119917	7	3.6	7	100	0	50	68	0	0	32	0.90
1121645--1121677	16	2.1	16	88	11	50	48	3	0	48	1.17
1121730--1121793	26	2.4	28	79	10	71	45	1	4	48	1.32
1126404--1126446	11	3.9	11	84	0	50	20	2	6	69	1.23
1126522--1126567	14	3.1	15	76	17	51	32	0	2	65	1.05
1126528--1126614	26	3.3	26	76	16	74	33	3	2	60	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151586--1151630	21	2.1	22	87	4	65	20	15	24	40	1.91
1152150--1152362	84	2.5	84	79	4	216	33	10	35	21	1.87
1158765--1158795	9	3.4	9	90	0	53	35	9	9	45	1.70
1159240--1159321	29	2.8	29	75	3	85	21	10	15	51	1.75
1165415--1165457	13	3.3	13	80	0	50	60	2	2	34	1.22
1190345--1190376	15	2.0	17	88	11	50	50	0	0	50	1.00
1190354--1190416	18	3.7	18	73	16	53	61	0	0	38	0.96
1209161--1209212	8	6.5	8	86	6	52	63	0	0	36	0.95
1209164--1209208	12	3.7	12	82	5	54	62	0	0	37	0.96
1217390--1217418	14	2.0	15	93	6	51	41	0	0	58	0.98
1221074--1221123	24	2.1	24	100	0	100	32	20	26	22	1.98
1224253--1224316	29	2.2	30	82	5	85	42	0	3	54	1.16
1224266--1224332	29	2.3	30	86	2	91	38	2	1	56	1.24
1230515--1230666	75	2.0	75	89	2	234	30	15	15	38	1.88
1235161--1235185	9	2.8	9	100	0	50	60	12	8	20	1.57
1237918--1237950	3	11.0	3	100	0	66	66	0	0	33	0.92
1246757--1246801	18	2.5	18	81	0	54	20	20	42	17	1.90
1246724--1246781	30	1.9	30	82	6	73	17	17	50	15	1.79
1258125--1258150	2	13.0	2	100	0	52	50	0	0	50	1.00
1261241--1261278	20	1.9	20	94	0	67	57	2	0	39	1.12
1261240--1261286	5	9.6	5	77	13	53	55	2	0	42	1.12
1261961--1262004	23	1.9	23	86	9	63	47	0	4	47	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262835--1262891	22	2.7	21	71	13	53	28	1	0	70	0.98
1280911--1280941	2	15.5	2	93	0	53	51	0	0	48	1.00
1284039--1284125	15	5.3	15	68	24	59	41	1	1	56	1.14
1284032--1284125	34	2.8	35	76	12	106	41	1	1	56	1.13
1298235--1298267	3	11.0	3	100	0	66	66	0	0	33	0.92
1300520--1300576	30	1.9	30	82	3	71	43	1	10	43	1.49
1300641--1300683	7	6.3	7	81	5	52	69	0	2	27	1.00
1302128--1302190	24	2.5	26	87	5	85	52	0	0	47	1.00
1302128--1302209	24	3.2	26	81	6	80	51	0	1	47	1.08
1304944--1305102	85	1.9	85	90	5	259	45	10	8	35	1.70

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