genome.fa.s223.2.7.7.80.10.50.1000.10.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  10  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)
1434594--1434640	12	3.9	12	75	8	51	46	0	6	46	1.28
1434601--1434656	23	2.5	23	91	2	87	53	1	3	41	1.29
1434615--1434756	30	4.8	28	70	16	92	53	2	6	38	1.38
1436237--1436308	24	3.0	24	85	6	83	29	4	0	66	1.10
1436223--1436362	15	10.3	13	73	23	89	27	3	0	69	1.05
1436244--1436367	4	31.8	4	68	18	66	27	4	0	68	1.07
1436265--1436350	37	2.3	39	88	7	126	29	4	0	66	1.12
1436222--1436367	61	2.6	59	85	13	200	26	4	0	69	1.07
1436296--1436366	24	3.0	24	83	8	90	28	2	0	69	1.03
1447570--1447607	16	2.4	17	91	8	62	71	0	10	18	1.14
1447571--1447614	7	5.7	7	87	12	52	70	0	13	15	1.17
1447571--1447615	16	2.9	16	81	15	58	71	0	13	15	1.15
1448991--1449213	41	5.4	41	87	0	284	29	11	18	40	1.86
1449104--1449232	41	3.1	41	85	3	116	28	12	19	39	1.88
1449242--1449344	44	2.4	44	86	1	136	26	13	14	45	1.82
1449564--1449661	20	4.8	20	76	17	80	28	3	0	68	1.05
1449575--1449638	17	3.6	17	76	17	67	31	4	0	64	1.14
1449563--1449663	4	24.8	4	68	18	57	27	2	0	69	1.03
1449554--1449650	38	2.7	35	83	12	133	27	3	0	69	1.04
1450417--1450464	3	16.0	3	82	8	53	35	0	4	60	1.16
1450431--1450472	12	3.5	12	86	0	57	38	0	7	54	1.28
1450476--1450513	18	2.1	19	85	5	51	21	0	2	76	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450509--1450625	56	2.1	56	82	7	141	53	7	7	30	1.57
1451275--1451623	132	2.6	128	79	9	360	34	12	4	47	1.62
1451641--1451756	59	1.9	61	89	3	182	37	11	3	48	1.56
1451627--1451763	59	2.3	58	85	6	175	38	9	4	47	1.56
1451773--1451799	12	2.2	12	100	0	54	70	0	0	29	0.88
1451766--1451810	17	2.7	17	89	3	65	71	0	0	28	0.87
1451836--1451873	3	12.3	3	88	5	58	65	2	0	31	1.06
1455320--1455347	2	14.0	2	100	0	56	50	0	0	50	1.00
1457493--1457526	2	17.0	2	100	0	68	50	0	0	50	1.00
1460304--1460329	2	13.0	2	100	0	52	50	0	0	50	1.00
1460329--1460356	6	4.7	6	100	0	56	0	17	0	82	0.68
1461073--1461131	29	2.1	27	81	9	66	44	6	1	47	1.39
1461580--1461646	33	2.0	35	82	5	84	16	7	8	67	1.40
1462497--1462552	17	3.3	17	78	9	53	19	1	1	76	0.96
1462494--1462542	9	5.6	8	81	15	53	20	2	0	77	0.87
1462494--1462545	13	4.1	13	80	11	54	21	1	0	76	0.87
1462497--1462552	26	2.2	25	83	3	67	19	1	1	76	0.96
1462834--1463303	175	2.7	175	85	4	617	40	6	12	40	1.69
1464219--1464377	2	79.5	2	100	0	318	49	50	0	0	1.00
1471029--1471076	18	2.7	19	84	9	59	45	0	8	45	1.33
1471041--1471075	18	1.9	18	100	0	70	40	0	11	48	1.39
1478365--1478391	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502812--1502864	23	2.3	24	83	9	74	54	0	0	45	0.99
1502820--1502872	23	2.5	22	87	9	74	52	0	0	47	1.00
1502835--1502908	30	2.5	30	77	4	78	59	1	0	39	1.06
1503636--1503683	18	2.6	18	83	6	51	50	2	2	45	1.25
1507948--1507991	19	2.2	20	80	15	56	36	2	0	61	1.09
1514916--1514948	14	2.4	14	90	5	50	0	54	0	45	0.99
1524280--1524330	25	2.1	24	85	3	66	60	1	5	31	1.31
1524348--1524434	31	2.8	29	78	14	77	48	0	1	50	1.08
1524667--1524719	26	2.0	27	85	10	74	43	0	1	54	1.11
1525574--1525623	13	3.9	13	78	2	57	50	0	4	46	1.20
1525694--1525762	18	4.0	16	66	23	50	49	0	1	49	1.09
1526616--1526650	13	2.6	14	90	4	54	54	2	0	42	1.15
1529236--1529296	30	2.0	30	83	0	77	32	8	18	40	1.80
1529281--1529579	167	1.8	163	92	2	508	31	12	22	33	1.91
1529768--1529835	27	2.6	26	79	4	66	36	8	1	52	1.42
1530642--1530677	12	2.9	12	87	4	54	63	0	0	36	0.94
1536061--1536145	41	2.1	41	95	0	152	61	5	8	24	1.47
1536061--1536127	18	3.4	18	70	18	62	62	5	7	23	1.44
1540945--1541008	31	1.9	35	81	12	82	50	0	1	48	1.10
1540947--1541019	37	1.9	39	83	10	98	47	0	1	50	1.09
1541439--1541505	25	2.8	23	72	16	64	64	0	0	35	0.94
1542152--1542176	7	3.6	7	100	0	50	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542277--1542314	21	1.9	20	89	10	60	36	0	2	60	1.11
1542701--1542740	6	6.7	6	88	0	53	32	15	0	52	1.43
1544047--1544140	28	3.3	28	75	11	84	45	3	1	50	1.24
1544160--1544193	17	1.9	18	88	5	52	47	0	2	50	1.16
1544282--1544306	2	12.5	2	100	0	50	52	0	0	48	1.00
1550503--1550534	13	2.4	14	85	15	50	34	0	0	65	0.93
1550954--1550999	4	12.0	4	78	17	53	50	0	2	47	1.13
1561992--1562025	14	2.4	14	90	0	50	73	0	0	26	0.83
1562045--1562090	20	2.3	20	84	0	56	60	8	2	28	1.38
1562572--1562623	16	3.2	16	78	10	61	53	1	0	44	1.11
1562574--1562613	15	2.6	16	88	4	55	57	0	0	42	0.98
1562972--1563006	14	2.5	14	85	0	52	42	0	2	54	1.15
1565667--1565700	2	17.5	2	93	6	61	47	0	0	52	1.00
1572227--1572267	8	5.1	8	87	0	64	41	0	0	58	0.98
1572230--1572285	16	3.7	16	81	11	64	46	0	0	53	1.00
1572257--1572309	23	2.5	22	87	9	74	47	0	0	52	1.00
1572724--1572775	19	2.8	19	82	2	52	51	0	0	48	1.00
1572767--1572805	17	2.2	17	90	4	60	69	0	0	30	0.89
1572771--1572811	17	2.4	17	83	0	55	65	0	0	34	0.93
1580270--1580428	79	2.0	79	96	0	291	31	20	9	38	1.84
1583925--1583958	17	2.0	17	88	0	50	55	23	20	0	1.43
1586175--1586204	13	2.2	14	94	5	53	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586219--1586303	38	2.3	37	86	9	113	54	1	0	44	1.07
1587034--1587101	21	3.0	22	77	12	68	35	5	0	58	1.22
1600271--1600320	3	16.7	3	82	0	64	26	34	4	36	1.75
1603307--1603349	19	2.2	20	84	12	63	67	0	0	32	0.91
1603319--1603353	19	1.9	18	88	11	54	68	0	0	31	0.90
1608844--1608902	30	2.0	30	89	0	91	33	10	3	52	1.52
1608852--1608919	30	2.3	30	89	5	102	38	8	1	51	1.42
1608982--1609057	29	2.6	30	87	6	102	55	1	2	40	1.22
1617667--1617775	51	2.1	52	81	3	121	48	1	4	44	1.33
1617765--1617847	31	2.7	30	81	9	80	48	0	1	50	1.08
1618888--1618930	19	2.2	20	91	4	70	39	0	0	60	0.97
1624900--1624972	22	3.0	24	80	11	78	35	0	2	61	1.10
1628401--1628450	17	2.7	18	85	14	59	16	24	6	54	1.64
1629115--1629149	2	17.5	2	100	0	70	48	0	0	51	1.00
1630814--1630859	15	3.3	15	73	17	53	36	39	19	4	1.72
1634265--1634312	19	2.5	19	77	16	53	47	2	2	47	1.25
1635056--1635080	12	2.1	12	100	0	50	32	0	16	52	1.44
1635177--1635230	15	3.7	14	92	5	81	29	0	3	66	1.09
1636739--1636934	100	2.0	100	92	0	329	18	21	37	21	1.94
1638394--1638427	16	2.1	16	94	0	59	61	5	14	17	1.52
1643194--1643236	18	2.4	19	88	11	72	69	0	0	30	0.88
1669093--1669137	23	2.0	23	90	0	72	31	13	17	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673797--1673822	2	13.0	2	100	0	52	50	0	0	50	1.00
1685160--1685213	26	2.1	26	83	10	67	46	0	3	50	1.19
1685326--1685364	18	2.1	18	85	9	51	43	7	2	46	1.46
1689806--1689841	13	2.8	13	95	0	63	66	2	8	22	1.31
1695111--1695141	2	15.5	2	100	0	62	48	0	0	51	1.00
1698639--1698666	2	14.0	2	100	0	56	50	0	0	50	1.00
1702633--1702697	29	2.2	31	81	10	82	32	3	7	56	1.43
1702947--1702983	16	2.2	17	95	4	67	35	0	0	64	0.94
1702945--1702987	17	2.5	18	85	11	63	37	0	0	62	0.95
1702947--1702992	17	2.9	17	84	9	53	39	0	0	60	0.97

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