genome.fa.s445.2.7.7.80.10.50.1000.29.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_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  27802247

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   

This is table  29  of  147  ( 17591 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)
5952976--5953012	11	3.4	11	100	0	74	51	0	0	48	1.00
5952976--5953019	22	2.0	22	90	4	70	54	2	0	43	1.12
5953170--5953202	12	2.6	13	85	9	50	78	3	0	18	0.87
5953738--5953810	35	2.1	35	97	0	137	35	17	9	36	1.83
5954993--5955018	2	13.0	2	100	0	52	50	0	0	50	1.00
5957771--5957814	22	1.9	24	86	9	65	43	0	0	56	0.99
5957843--5957888	10	4.7	10	81	5	58	65	0	0	34	0.93
5957845--5957888	20	2.2	20	92	4	72	68	0	0	31	0.90
5957934--5957964	2	16.0	2	93	6	55	51	0	0	48	1.00
5972943--5972981	18	2.1	18	85	4	51	66	2	0	30	1.05
5973910--5973953	20	2.3	19	92	4	70	31	0	0	68	0.90
5973910--5973955	10	4.7	10	81	5	58	34	0	0	65	0.93
5973984--5974029	13	3.5	13	81	3	56	63	0	0	36	0.95
5974066--5974106	19	2.1	20	86	13	59	43	14	9	31	1.78
5977828--5977864	15	2.6	15	83	8	51	48	0	0	51	1.00
5980660--5980703	20	2.3	19	92	4	70	31	0	0	68	0.90
5980660--5980705	10	4.7	10	81	5	58	34	0	0	65	0.93
5982001--5982267	136	2.0	135	86	5	378	22	17	14	45	1.85
5991139--5991204	11	5.8	12	72	10	50	57	0	3	39	1.14
5991148--5991204	23	2.5	23	77	2	62	59	0	1	38	1.08
5992135--5992183	22	2.2	23	88	3	73	59	0	2	38	1.09
5992192--5992250	21	2.8	21	69	7	57	47	1	5	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5992636--5992731	27	3.5	27	69	18	74	40	4	0	55	1.19
6001297--6001629	41	8.1	41	87	1	416	24	12	20	42	1.87
6001301--6001609	166	1.9	165	88	2	467	23	12	19	44	1.85
6001642--6001680	11	3.5	11	82	6	51	84	7	0	7	0.77
6002871--6003142	109	2.5	110	78	9	286	50	9	12	27	1.70
6004557--6004617	31	2.0	30	81	15	72	55	0	1	42	1.09
6006059--6006127	36	1.9	36	93	0	120	46	0	5	47	1.26
6006165--6006366	112	1.8	112	81	4	255	38	8	7	45	1.63
6012391--6012428	18	2.1	18	95	0	67	31	0	0	68	0.90
6013661--6013714	25	2.1	27	82	6	67	64	0	3	31	1.11
6013724--6013809	16	5.1	16	67	20	50	62	1	0	36	1.03
6027412--6027450	20	2.0	20	85	10	53	48	0	0	51	1.00
6029694--6029773	37	2.2	37	90	4	126	40	0	7	52	1.30
6029757--6029792	7	5.1	7	89	0	54	22	0	2	75	0.94
6035645--6035738	30	3.1	30	75	13	86	61	3	4	30	1.31
6036339--6036387	23	2.0	25	88	7	75	44	0	0	55	0.99
6036417--6036463	10	4.4	11	78	21	55	72	0	0	27	0.85
6037160--6037237	18	4.4	18	72	15	65	61	1	0	37	1.04
6037187--6037264	32	2.3	34	82	6	88	56	1	0	42	1.07
6040054--6040092	19	2.1	18	85	4	51	33	10	10	46	1.72
6041720--6041766	20	2.4	20	82	10	62	46	0	0	53	1.00
6042626--6042651	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6042591--6042686	48	2.0	48	97	0	183	34	16	10	38	1.83
6045055--6045101	24	2.0	24	95	0	85	44	12	8	34	1.73
6046619--6046657	19	2.1	19	85	0	51	28	0	0	71	0.86
6046709--6046754	10	4.7	10	81	5	58	65	0	0	34	0.93
6046711--6046754	20	2.2	20	92	4	72	68	0	0	31	0.90
6048342--6048386	22	2.0	23	86	4	65	35	8	0	55	1.31
6063551--6063593	19	2.4	17	81	11	50	65	2	4	27	1.25
6063643--6063671	2	14.5	2	100	0	58	51	0	0	48	1.00
6064528--6064571	19	2.2	20	88	11	65	34	0	0	65	0.93
6064536--6064573	10	3.9	10	82	6	51	34	0	0	65	0.93
6064560--6064612	25	2.3	22	84	12	63	60	3	0	35	1.15
6064602--6064647	13	3.5	13	82	5	58	63	0	0	36	0.95
6064626--6064662	18	2.1	18	89	0	56	70	2	0	27	1.01
6064683--6064724	19	2.2	20	87	12	61	45	11	9	33	1.73
6068324--6068363	13	3.2	13	82	7	55	35	0	0	65	0.93
6071313--6071347	18	1.9	18	88	11	54	34	0	0	65	0.93
6072170--6072194	13	1.9	13	100	0	50	64	8	16	12	1.49
6078377--6078423	18	2.6	18	93	0	76	34	21	44	0	1.52
6082530--6082571	21	2.1	20	86	8	59	61	0	0	38	0.96
6083015--6083101	28	3.1	28	69	23	76	41	2	0	56	1.12
6083018--6083113	27	3.5	27	70	16	81	40	3	0	56	1.15
6092084--6092132	22	2.1	23	81	7	55	42	4	2	51	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6103655--6103679	2	12.5	2	100	0	50	48	0	0	52	1.00
6107767--6107809	21	2.0	21	95	0	77	48	9	6	34	1.62
6108839--6108890	26	2.0	26	100	0	104	26	11	11	50	1.73
6109194--6109224	14	2.2	14	94	0	53	38	0	0	61	0.96
6120903--6120946	22	2.0	22	90	0	70	36	11	11	40	1.77
6121201--6121268	25	2.7	25	81	0	82	22	30	17	29	1.97
6124982--6125025	22	2.0	22	90	0	70	29	13	13	43	1.83
6125942--6126148	110	1.9	110	94	0	369	41	14	15	27	1.87
6129165--6129208	22	2.0	22	95	0	79	31	15	13	38	1.87
6134809--6134850	2	21.0	2	100	0	84	50	0	50	0	1.00
6139143--6139173	14	2.2	14	100	0	62	6	12	38	41	1.69
6141153--6141398	126	2.0	126	92	0	411	51	13	7	28	1.67
6149760--6149812	11	5.0	11	81	9	58	28	1	1	67	1.11
6149968--6150001	18	1.9	17	88	5	50	32	5	0	61	1.20
6158667--6158732	17	4.5	15	71	27	52	66	0	1	31	1.01
6162813--6162855	16	2.4	18	88	11	63	27	0	2	69	1.00
6163413--6163451	13	3.0	13	80	0	51	41	0	0	58	0.98
6164030--6164072	19	2.2	19	83	4	50	67	2	4	25	1.22
6164801--6164857	28	2.0	28	89	0	87	19	19	36	24	1.94
6165035--6165119	31	2.8	30	75	16	84	62	2	0	35	1.08
6165059--6165134	33	2.4	31	84	10	91	60	2	0	36	1.11
6172346--6172385	15	2.6	16	88	4	64	20	5	15	60	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6172346--6172383	16	2.4	17	83	16	55	21	5	13	60	1.52
6172457--6172523	12	5.6	12	80	0	53	47	10	1	40	1.47
6172494--6172523	2	15.0	2	92	0	51	46	0	0	53	1.00
6177295--6177344	24	2.0	25	84	11	66	42	2	2	54	1.23
6177853--6177904	21	2.5	22	78	9	63	51	0	5	42	1.25
6177840--6177914	21	3.3	21	68	28	55	54	1	5	38	1.31
6178056--6178121	23	2.8	23	78	17	64	48	1	1	48	1.20
6178280--6178338	29	2.0	29	80	6	66	45	1	0	52	1.10
6179890--6179937	21	2.2	23	85	14	66	52	0	0	47	1.00
6180603--6180627	2	12.5	2	100	0	50	52	0	0	48	1.00
6180684--6180723	18	2.1	20	86	9	57	42	0	5	52	1.23
6180683--6180726	19	2.2	21	80	15	58	43	0	4	52	1.22
6181592--6182143	291	1.9	292	90	1	892	30	19	20	28	1.97
6183808--6183836	14	2.1	14	100	0	58	41	0	0	58	0.98
6183865--6183910	18	2.6	17	83	16	58	39	0	6	54	1.26
6183844--6183904	25	2.4	25	79	12	63	36	0	6	57	1.25
6184010--6184038	14	2.0	15	93	6	51	41	0	0	58	0.98
6192467--6192513	19	2.5	19	100	0	94	34	27	0	38	1.57
6195643--6195702	25	2.4	25	94	2	102	35	3	6	55	1.43
6195897--6195943	14	3.4	14	77	11	60	61	2	0	36	1.08
6196146--6196211	32	2.1	31	82	2	78	43	1	1	53	1.19
6199407--6199458	22	2.3	23	74	9	54	57	1	1	38	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6199404--6199814	152	2.7	153	86	1	547	50	4	4	39	1.43
6200429--6200604	88	2.0	88	88	0	262	31	22	16	29	1.96
6201011--6201053	2	22.0	2	85	4	61	46	0	0	53	1.00
6204012--6204043	3	10.7	3	93	0	55	65	34	0	0	0.93
6205551--6205605	22	2.5	22	72	18	53	43	9	10	36	1.72
6205934--6206055	63	1.9	63	96	3	228	49	7	4	38	1.52
6206651--6206738	13	6.8	13	69	22	51	38	0	1	60	1.04
6206656--6206723	20	3.2	20	72	17	57	36	0	0	63	0.95
6206661--6206739	13	6.0	13	72	15	56	40	0	1	58	1.06
6206651--6206714	27	2.5	27	82	12	73	37	0	0	62	0.95

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