genome.fa.s334.2.7.7.80.10.50.1000.5.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  5  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)
1321000--1321025	11	2.4	11	100	0	52	57	7	26	7	1.54
1333387--1333446	12	4.7	13	80	19	65	35	0	0	65	0.93
1333392--1333447	22	2.5	22	77	5	60	35	0	0	64	0.94
1333405--1333443	16	2.4	16	82	0	51	35	0	0	64	0.94
1340233--1340257	2	12.5	2	100	0	50	48	0	0	52	1.00
1346998--1347046	22	2.2	22	88	0	71	48	6	0	44	1.27
1347497--1347535	19	2.1	19	85	9	53	38	0	2	58	1.12
1347545--1347601	28	2.0	29	80	16	66	59	7	3	29	1.40
1348421--1348457	10	3.6	10	88	3	56	2	13	0	83	0.74
1350028--1350093	11	5.9	11	75	8	62	3	16	1	78	0.95
1351397--1351423	3	9.0	3	100	0	54	33	0	33	33	1.58
1361056--1361093	2	19.0	2	100	0	76	50	0	0	50	1.00
1361338--1361370	2	17.0	2	93	6	59	48	0	0	51	1.00
1382034--1382058	2	12.5	2	100	0	50	48	0	0	52	1.00
1385297--1385398	51	2.0	51	98	0	195	34	15	24	25	1.95
1389254--1389292	19	2.1	19	85	9	53	38	0	2	58	1.12
1390169--1390205	10	3.6	10	88	3	56	2	13	0	83	0.74
1391775--1391840	11	5.9	11	75	8	62	3	16	1	78	0.95
1399659--1399869	105	2.0	105	100	0	422	35	16	18	30	1.92
1402267--1402306	21	1.9	21	84	0	53	32	40	7	20	1.80
1403132--1403170	2	20.0	2	94	5	71	48	0	0	51	1.00
1411141--1411165	9	2.8	9	100	0	50	20	36	12	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424765--1424801	15	2.5	15	90	0	65	29	5	8	56	1.51
1433430--1433490	30	2.0	30	100	0	122	45	27	3	22	1.68
1442130--1442180	22	2.4	22	81	12	61	54	1	0	43	1.11
1442962--1443059	48	2.0	48	84	7	128	24	30	11	33	1.90
1444078--1444139	24	2.6	22	79	16	70	50	8	6	35	1.58
1444239--1444281	21	2.0	21	86	8	61	48	13	11	25	1.77
1444270--1444311	21	2.0	20	86	4	57	54	9	7	28	1.59
1444258--1444334	33	2.4	33	82	6	86	51	11	7	28	1.66
1444316--1444398	32	2.6	32	81	14	100	53	10	7	28	1.62
1444333--1444592	56	4.7	55	77	10	246	52	11	6	29	1.62
1444494--1444536	23	1.9	23	90	4	70	48	11	6	32	1.66
1444356--1444592	55	4.3	54	79	6	260	51	12	6	29	1.65
1444556--1444611	23	2.4	23	93	0	94	53	14	5	26	1.62
1444579--1444642	31	2.1	31	90	0	101	51	14	6	28	1.66
1445224--1445261	12	2.9	13	80	11	51	73	7	0	18	1.06
1445591--1445719	37	3.4	37	84	6	161	41	20	11	27	1.86
1445587--1445749	75	2.2	75	87	4	231	38	20	11	28	1.88
1445591--1445749	37	4.2	36	79	10	149	39	20	11	27	1.88
1445752--1445852	42	2.4	43	85	8	136	46	15	10	26	1.79
1446766--1446790	12	2.1	12	100	0	50	16	16	8	60	1.58
1448321--1448360	18	2.2	19	83	16	50	22	22	2	52	1.59
1455010--1455100	20	4.7	20	75	12	59	48	10	6	34	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454963--1455048	20	4.4	20	73	14	72	47	9	6	36	1.63
1455023--1455096	20	3.7	20	74	13	71	50	13	8	28	1.70
1455201--1455252	24	2.2	24	89	6	79	51	11	3	32	1.56
1455388--1455429	21	2.0	20	90	4	66	57	7	4	30	1.47
1455471--1455707	55	4.3	55	83	5	302	52	11	6	29	1.62
1455490--1455727	23	12.4	20	67	25	99	52	11	6	29	1.62
1455491--1455707	109	2.0	110	90	2	348	52	11	6	29	1.62
1455498--1455743	109	2.3	108	86	5	327	53	10	6	29	1.60
1455498--1455781	109	2.6	107	82	10	296	53	10	5	29	1.59
1456317--1456363	11	4.1	11	83	10	51	78	2	0	19	0.85
1456323--1456381	31	1.9	31	85	0	82	74	3	0	22	0.96
1459067--1459096	2	15.0	2	100	0	60	50	0	0	50	1.00
1461865--1461929	5	12.4	5	77	19	62	21	1	3	73	1.05
1461865--1461922	24	2.5	24	86	10	77	20	1	3	74	1.06
1462312--1462350	21	1.9	20	84	5	51	46	5	0	48	1.24
1466807--1466847	3	13.7	3	100	0	82	34	0	0	65	0.93
1470908--1470945	20	2.0	20	89	5	60	52	13	5	28	1.61
1470918--1471031	56	2.1	52	82	10	133	57	7	2	31	1.41
1471032--1471074	21	2.0	21	86	8	61	51	13	9	25	1.71
1471030--1471159	33	4.0	33	86	5	149	54	11	5	28	1.58
1471051--1471159	32	3.4	33	88	3	150	55	11	4	28	1.54
1471053--1471227	32	5.5	31	79	7	120	54	12	5	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1471254--1471325	20	3.5	19	76	10	72	52	13	6	26	1.66
1471254--1471292	21	1.9	20	89	5	60	56	10	7	25	1.59
1471248--1471358	42	2.6	42	84	8	127	54	12	5	27	1.59
1471248--1471362	23	5.4	22	79	9	123	54	13	5	26	1.59
1471248--1471355	20	5.2	20	69	19	69	54	12	5	26	1.60
1471951--1471984	12	2.7	13	81	9	52	67	8	0	23	1.18
1472316--1472510	37	5.3	37	85	5	227	40	23	10	26	1.87
1472316--1472510	73	2.6	73	85	2	255	40	23	10	26	1.87
1472517--1472616	42	2.4	42	88	8	141	45	17	12	26	1.83
1472788--1472812	13	1.9	13	100	0	50	40	12	24	24	1.88
1482285--1482331	18	2.6	19	80	9	55	53	8	6	31	1.57
1482320--1482393	20	3.7	20	74	13	71	52	13	5	28	1.62
1482650--1482722	33	2.2	32	87	2	110	53	10	5	30	1.58
1482658--1482699	21	2.0	20	86	4	57	57	7	4	30	1.47
1482760--1482912	20	7.6	20	68	15	75	53	10	6	29	1.60
1482760--1482822	23	2.9	23	75	15	62	53	11	4	30	1.56
1482760--1482859	43	2.3	43	83	6	123	55	11	5	29	1.56
1482868--1482910	23	1.9	23	95	4	79	51	9	6	32	1.61
1482941--1482984	23	1.9	23	90	0	70	59	9	4	27	1.48
1482944--1483007	31	2.1	31	88	5	94	57	7	4	29	1.47
1482960--1483007	14	3.2	14	78	16	60	60	4	4	31	1.35
1482952--1483000	17	3.2	15	75	16	55	55	8	6	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1482952--1483015	31	2.1	31	90	0	101	54	10	6	28	1.59
1491167--1491195	2	14.5	2	100	0	58	0	51	0	48	1.00
1500545--1500618	20	3.8	20	73	8	55	54	0	0	45	1.00
1500563--1500645	37	2.5	35	81	16	97	57	0	0	42	0.98
1503628--1503663	2	18.0	2	94	0	63	47	0	2	50	1.15
1509207--1509241	16	2.2	16	89	0	52	60	0	2	37	1.12
1512603--1512655	6	8.7	6	76	12	54	64	0	0	35	0.94
1512612--1512671	12	4.7	13	80	15	63	65	0	0	35	0.93
1514783--1514842	23	2.7	23	71	14	56	70	3	3	23	1.18
1515757--1515785	3	9.7	3	100	0	58	65	0	0	34	0.93
1516157--1516287	66	2.0	66	83	5	167	46	14	22	16	1.83
1516319--1516480	65	2.5	62	79	11	159	47	10	19	22	1.79
1516578--1516741	74	2.2	74	83	2	204	45	14	9	30	1.76
1516829--1516895	34	2.0	34	81	0	80	32	7	17	41	1.78
1517087--1517181	43	2.2	43	82	14	115	42	14	7	35	1.74
1517144--1517215	36	2.0	35	86	7	101	43	9	5	41	1.61
1518318--1518387	34	2.0	35	83	10	90	11	18	1	68	1.27
1518313--1518381	27	2.7	25	73	20	70	8	15	1	73	1.14
1522095--1522162	37	1.9	36	82	11	88	29	5	16	48	1.69
1522457--1522509	6	8.8	6	87	0	61	52	0	15	32	1.42
1522457--1522505	15	3.3	15	85	0	71	53	0	14	32	1.41
1522468--1522509	9	4.7	9	84	0	57	52	0	14	33	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522537--1522583	20	2.4	19	86	10	60	87	2	4	6	0.74
1522537--1522583	24	2.0	23	87	4	67	87	2	4	6	0.74
1523448--1523481	3	11.3	3	100	0	68	67	0	0	32	0.91
1527245--1527301	28	2.0	28	100	0	114	36	21	24	17	1.94
1528412--1528437	2	13.0	2	100	0	52	50	0	0	50	1.00
1531004--1531088	24	3.5	24	72	12	75	31	14	29	24	1.94
1533595--1533629	2	17.5	2	100	0	70	51	0	0	48	1.00
1533849--1533875	6	4.5	6	100	0	54	0	0	48	51	1.00
1534833--1534937	42	2.5	42	78	17	103	42	0	2	53	1.22
1553770--1553798	11	2.5	12	88	11	51	34	0	6	58	1.25

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