genome.fa.s885.2.7.7.80.10.50.1000.6.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: VEPZ01000885.1 Hibiscus syriacus cultivar Beakdansim tig00001728_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1639497

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 787 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)
1270893--1271149	21	13.4	20	62	20	68	41	0	12	45	1.42
1270675--1271642	169	5.8	169	93	4	1613	41	0	12	46	1.42
1270969--1271523	49	10.3	45	76	19	210	40	0	11	47	1.42
1270671--1271695	445	2.3	444	91	5	1634	40	0	12	46	1.42
1271663--1271710	14	3.6	14	81	16	66	35	0	16	47	1.47
1271458--1271695	119	2.1	118	89	8	327	40	0	11	47	1.44
1270735--1271695	109	8.7	109	80	13	1120	40	0	11	46	1.42
1272702--1272749	23	2.1	23	84	0	60	60	2	2	35	1.20
1273925--1273959	8	4.4	8	96	0	61	62	14	0	22	1.31
1274142--1274248	40	2.6	40	79	11	110	48	12	0	38	1.47
1274259--1274299	22	1.9	21	85	5	55	53	19	0	26	1.45
1274398--1274444	14	3.5	13	77	11	51	2	40	0	57	1.11
1274439--1274502	26	2.4	28	84	12	89	6	34	7	51	1.56
1274748--1274821	29	2.6	29	86	0	103	14	21	40	22	1.90
1275819--1275885	2	33.5	2	100	0	134	50	0	0	49	1.00
1279015--1279062	3	16.3	3	86	4	71	29	2	2	66	1.14
1284379--1284567	74	2.8	63	70	22	166	28	14	20	37	1.92
1284668--1284774	36	2.9	36	88	1	151	31	17	13	37	1.88
1284656--1284770	37	3.1	36	86	3	149	33	18	13	35	1.89
1284721--1284919	102	2.0	99	82	4	238	30	19	12	38	1.88
1284900--1285020	37	3.5	36	71	15	119	27	18	15	38	1.91
1284847--1285087	67	3.7	67	88	5	332	30	17	13	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284937--1285051	30	3.6	30	68	15	86	30	17	13	38	1.89
1285633--1285673	3	14.0	3	84	5	57	29	2	2	65	1.18
1285634--1285676	20	2.2	20	91	0	68	27	2	2	67	1.15
1285637--1285670	17	2.0	17	88	0	50	26	2	2	67	1.19
1288197--1288398	100	2.0	103	90	4	322	29	26	17	26	1.97
1293200--1293250	20	2.5	20	96	0	93	47	17	9	25	1.78
1293200--1293250	10	5.1	10	85	0	75	47	17	9	25	1.78
1294823--1294866	13	3.4	13	77	0	52	9	34	4	52	1.54
1296035--1296119	27	3.1	27	94	0	143	38	8	14	38	1.76
1298910--1299015	36	2.9	36	84	4	133	32	20	12	34	1.90
1298901--1299009	37	3.0	36	82	4	137	31	22	12	33	1.91
1299062--1299133	36	2.0	36	81	10	85	30	19	9	40	1.84
1299086--1299362	67	4.4	63	76	16	231	29	18	13	38	1.88
1299179--1299294	52	2.2	52	85	0	160	29	17	14	38	1.89
1299123--1299362	119	2.0	120	91	0	392	29	17	13	39	1.88
1299402--1299737	131	2.5	131	78	2	341	27	32	15	24	1.96
1299925--1299965	3	14.0	3	84	5	57	29	2	2	65	1.18
1299926--1299968	20	2.2	20	91	0	68	27	2	2	67	1.15
1299929--1299962	17	2.0	17	88	0	50	26	2	2	67	1.19
1303420--1303497	16	5.6	16	65	28	61	37	6	17	38	1.76
1303417--1303501	27	3.1	27	98	0	161	38	8	16	36	1.79
1305811--1305884	19	3.5	22	73	16	84	59	9	6	24	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305838--1305901	19	3.3	19	74	8	74	57	12	6	23	1.57
1305819--1305905	40	2.2	40	100	0	174	55	12	6	25	1.62
1305831--1305905	19	3.8	19	74	6	69	57	13	5	24	1.57
1308367--1308655	46	6.3	46	87	1	409	21	21	10	46	1.82
1308443--1308530	12	7.3	12	67	23	51	22	22	10	44	1.83
1315271--1315408	46	3.0	46	88	0	213	20	25	9	44	1.81
1315303--1315386	26	3.5	26	67	18	81	19	26	10	44	1.83
1315331--1315474	66	2.2	66	87	2	200	21	26	9	43	1.82
1315284--1315519	112	2.1	112	90	3	368	20	25	9	44	1.82
1315416--1315579	20	7.0	26	67	23	130	18	23	10	46	1.80
1315397--1315580	46	4.0	46	90	2	280	19	23	10	45	1.82
1315271--1315566	158	1.9	158	89	1	468	19	25	10	44	1.82
1315975--1316068	22	4.5	21	67	24	56	25	25	13	35	1.93
1322031--1322250	20	9.4	25	66	23	124	18	21	10	48	1.79
1322036--1322170	70	1.9	70	92	0	225	17	22	11	48	1.80
1322088--1322250	46	3.6	46	87	1	222	18	21	11	49	1.78
1322056--1322187	70	1.9	68	86	7	187	18	21	10	49	1.77
1325289--1325323	16	2.1	17	94	5	63	40	5	2	51	1.40
1325313--1325365	20	2.6	21	84	3	72	39	1	7	50	1.41
1325313--1325378	20	3.3	20	79	10	55	42	3	9	45	1.51
1325348--1325407	29	2.1	29	84	6	77	50	1	6	41	1.39
1325452--1325494	18	2.3	19	96	4	79	44	0	6	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325443--1325503	19	2.9	21	83	14	65	42	0	6	50	1.28
1325506--1325559	22	2.5	21	85	8	65	14	3	1	79	0.95
1325506--1325559	21	2.5	21	84	3	63	14	3	1	79	0.95
1325501--1325559	10	5.4	11	74	17	52	15	3	1	79	0.94
1327783--1327932	5	28.2	5	68	18	63	19	7	2	71	1.20
1327771--1327848	15	5.2	15	76	14	63	20	3	1	74	1.05
1327776--1327848	22	3.3	22	80	1	74	20	4	1	73	1.06
1327766--1327848	28	3.0	27	83	11	82	21	3	1	73	1.05
1327812--1327853	18	2.3	18	80	12	50	14	7	2	76	1.10
1328482--1328519	19	2.1	19	90	5	60	36	2	0	60	1.11
1333609--1333808	101	2.0	98	88	6	296	31	25	17	27	1.97
1336466--1336675	105	2.0	103	96	1	384	56	17	6	19	1.62
1342606--1343208	270	2.2	269	87	2	861	35	22	15	26	1.94
1344334--1344367	4	8.2	4	87	6	50	26	0	0	73	0.83
1344337--1344378	17	2.4	18	88	4	59	23	2	0	73	0.94
1344419--1344468	22	2.3	22	86	3	66	20	4	2	74	1.08
1344505--1344579	38	1.9	39	86	7	109	17	9	1	72	1.18
1349956--1350031	20	3.8	20	74	11	66	32	9	21	36	1.85
1352529--1352583	20	2.8	20	83	5	67	40	12	18	29	1.87
1355169--1355241	3	23.3	3	78	8	74	58	0	4	36	1.17
1356242--1356303	19	3.3	19	77	6	65	32	17	4	45	1.70
1356259--1356320	19	3.3	19	83	0	61	32	19	4	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357939--1357987	21	2.3	21	100	0	98	26	24	10	38	1.87
1359185--1359250	30	2.2	30	91	5	107	30	19	7	42	1.79
1362078--1362133	22	2.7	20	73	10	58	33	14	26	25	1.94
1362553--1362791	55	4.3	55	91	0	388	28	19	20	30	1.97
1363969--1364089	30	4.1	30	72	5	102	55	11	11	21	1.67
1364467--1364760	145	2.0	145	84	3	378	21	23	20	34	1.97
1365490--1365526	3	12.3	3	94	0	56	59	0	0	40	0.97
1366151--1366260	43	2.6	43	86	0	148	21	17	32	28	1.96
1366466--1366654	64	3.0	64	83	7	244	30	11	22	35	1.90
1366919--1366994	32	2.4	32	88	0	107	30	22	17	30	1.96
1371394--1371481	30	3.0	30	80	8	90	57	10	11	20	1.62
1371433--1371498	29	2.3	28	82	12	80	62	12	10	15	1.55
1384330--1384519	94	2.0	95	83	2	238	32	16	21	29	1.95
1384878--1385142	55	4.8	55	89	0	370	28	19	20	32	1.97
1398673--1398729	30	1.9	30	92	3	98	24	24	5	45	1.74
1406346--1406388	16	2.6	16	85	7	52	58	4	4	32	1.39
1408694--1408749	3	19.0	3	76	10	53	71	0	1	26	0.96
1408693--1408717	13	1.9	13	100	0	50	56	0	4	40	1.18
1408711--1408757	19	2.6	18	83	12	60	80	0	0	19	0.70
1408708--1408755	11	4.2	12	84	12	57	79	0	0	20	0.74
1419900--1419938	20	1.9	21	89	5	62	35	5	10	48	1.59
1421682--1421717	18	2.0	18	88	0	54	69	0	8	22	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422143--1422175	16	2.1	16	94	0	57	36	6	15	42	1.71
1422349--1422386	20	1.9	20	84	10	51	65	7	10	15	1.45
1425105--1425149	24	1.9	23	81	4	54	66	0	8	24	1.20
1427106--1427292	98	1.9	96	88	4	277	24	24	16	34	1.95
1428527--1428551	8	3.1	8	100	0	50	28	24	0	48	1.52
1428320--1428532	118	1.8	117	84	5	295	26	15	7	50	1.71
1428568--1428664	44	2.2	45	83	9	119	27	16	6	49	1.69
1429321--1429361	16	2.6	16	100	0	82	43	19	12	24	1.85
1432516--1432571	22	2.7	21	71	15	53	35	3	5	55	1.40
1432558--1432598	13	3.1	14	82	6	50	41	0	4	53	1.22

Tables:   1   2   3   4   5   6   7