genome.fa.s8512.2.7.7.80.10.50.1000.7.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: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1759229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1011 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)
1232477--1232821	84	4.1	84	95	0	602	27	14	20	37	1.91
1233551--1234228	113	6.0	113	91	2	1020	36	14	19	29	1.91
1234547--1234650	3	34.7	3	96	0	190	34	0	0	64	1.00
1235124--1235160	18	2.1	18	89	0	56	72	5	21	0	1.04
1235122--1235167	19	2.4	19	88	3	74	69	8	21	0	1.15
1235126--1235159	16	2.1	16	88	5	50	73	5	20	0	1.04
1236001--1236035	17	2.1	17	88	0	52	37	2	2	57	1.29
1238747--1238796	18	2.6	19	87	6	75	74	6	4	16	1.17
1238747--1238796	19	2.7	18	87	3	73	74	6	4	16	1.17
1246059--1246092	18	2.0	17	88	11	52	47	2	0	50	1.16
1248174--1248246	29	2.6	28	74	6	67	39	5	4	50	1.44
1249834--1249870	2	18.5	2	100	0	74	51	0	0	48	1.00
1253351--1253405	21	2.6	21	100	0	110	43	23	14	18	1.87
1255599--1256341	201	3.7	201	95	0	1333	36	14	16	32	1.89
1257815--1257885	3	23.7	3	80	0	70	42	2	30	23	1.69
1257815--1257884	12	5.8	12	85	6	79	42	2	31	22	1.68
1259009--1259052	23	1.9	23	90	0	70	27	9	15	47	1.76
1261439--1262170	200	3.6	197	76	10	592	40	14	14	30	1.86
1266264--1266417	82	1.9	82	87	2	229	31	16	20	31	1.95
1266274--1266426	41	3.7	42	71	7	152	32	17	21	28	1.96
1267254--1267484	82	2.8	82	79	5	209	33	14	19	32	1.92
1275216--1275265	20	2.5	20	100	0	100	26	18	36	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276758--1276826	23	3.0	23	76	0	75	21	27	21	28	1.99
1278785--1278882	29	3.4	28	78	7	79	25	8	23	42	1.81
1284894--1284936	18	2.4	18	88	0	68	20	51	18	9	1.74
1284950--1285046	29	3.3	29	82	1	95	25	8	24	41	1.83
1286455--1286752	164	1.8	164	98	0	578	36	7	29	27	1.83
1289157--1289193	17	2.2	17	90	4	58	21	0	21	56	1.42
1290277--1290338	23	2.7	23	78	9	72	19	25	22	32	1.97
1292978--1293028	21	2.4	21	96	0	93	41	15	37	5	1.72
1293346--1293457	43	2.6	43	83	4	145	31	24	16	28	1.96
1293520--1293778	43	6.0	43	81	0	232	33	23	15	27	1.95
1293520--1293735	85	2.5	85	82	0	243	34	22	14	27	1.94
1293520--1293762	85	2.8	86	81	1	218	33	22	16	26	1.96
1296249--1296282	7	4.7	7	85	7	50	41	0	0	58	0.98
1297173--1297240	24	2.9	23	82	12	68	16	7	16	60	1.57
1297397--1297435	10	3.9	10	82	0	51	20	12	7	58	1.58
1297416--1297471	23	2.4	23	87	3	76	12	12	16	58	1.62
1297416--1297494	24	3.3	23	82	5	86	10	11	16	62	1.55
1312416--1312487	32	2.2	32	95	0	126	27	13	25	33	1.94
1321544--1321611	19	3.5	20	82	11	72	29	27	26	16	1.97
1321574--1321623	20	2.4	22	87	12	79	30	24	28	18	1.97
1327978--1328042	22	3.0	22	90	0	94	9	20	47	23	1.78
1328052--1328120	19	3.5	20	84	13	81	30	23	27	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328067--1328119	20	2.7	19	85	11	63	30	20	30	18	1.97
1328052--1328129	20	3.9	18	76	17	50	30	21	26	20	1.98
1335176--1335218	22	2.0	22	95	0	77	9	25	46	18	1.79
1335187--1335219	17	1.9	17	100	0	66	9	24	48	18	1.76
1338780--1338805	4	6.5	4	100	0	52	23	0	0	76	0.78
1340709--1340761	2	27.0	2	96	3	99	50	0	0	49	1.00
1344026--1344095	3	23.7	3	82	2	88	38	1	0	60	1.06
1346765--1347062	148	2.0	149	99	0	589	22	9	15	53	1.70
1347576--1347621	19	2.4	19	96	0	83	39	21	26	13	1.90
1348672--1348757	19	4.4	18	78	11	73	17	11	10	60	1.58
1348672--1348757	20	4.3	21	80	8	74	17	11	10	60	1.58
1350664--1350724	23	2.7	23	92	0	104	29	27	26	16	1.97
1351248--1351328	2	41.5	2	90	9	132	51	1	0	46	1.08
1352299--1352336	20	1.9	20	94	0	67	26	23	18	31	1.97
1352962--1352993	15	2.2	14	94	5	55	68	0	31	0	0.90
1356147--1356250	52	2.0	52	100	0	208	34	9	23	32	1.87
1357244--1357397	77	2.0	77	97	0	290	37	18	20	24	1.94
1358048--1358129	42	2.0	42	87	0	119	26	18	19	35	1.95
1358400--1359335	123	7.7	123	90	1	1355	39	15	19	26	1.91
1359584--1359646	3	21.7	3	80	6	76	36	1	0	61	1.05
1359575--1359631	17	3.0	19	77	15	64	31	3	1	63	1.22
1359587--1359630	17	2.6	17	96	0	79	34	2	0	63	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362439--1362662	111	2.0	111	100	0	448	31	17	22	29	1.96
1363257--1363363	20	5.3	20	95	2	180	41	0	0	58	0.98
1363244--1363332	13	6.6	13	72	16	74	40	0	0	59	0.97
1363230--1363332	13	7.6	13	71	21	61	42	0	0	57	0.98
1363251--1363350	8	14.7	7	69	22	63	39	0	0	61	0.96
1366889--1366922	2	17.0	2	87	0	50	44	5	0	50	1.26
1367908--1368539	315	2.0	315	89	1	962	40	16	21	20	1.91
1392902--1392980	27	3.2	27	63	26	75	32	5	8	53	1.54
1396690--1396725	12	3.0	12	95	0	63	38	8	0	52	1.32
1396998--1397044	23	2.0	23	91	0	76	31	21	23	23	1.98
1397548--1397603	2	28.0	2	100	0	112	50	0	0	50	1.00
1398160--1398194	18	1.9	18	88	11	54	68	5	5	20	1.31
1411458--1411516	2	30.0	2	93	3	102	49	1	0	49	1.11
1411554--1411707	80	1.9	80	95	0	281	33	23	17	25	1.96
1414216--1414264	2	24.5	2	100	0	98	51	0	48	0	1.00
1423071--1423122	27	2.0	27	85	7	72	34	7	15	42	1.75
1425712--1425753	19	2.3	18	88	12	59	21	23	11	42	1.86
1427466--1427537	25	2.9	25	73	12	67	50	4	1	44	1.30
1427764--1427831	28	2.2	33	82	12	83	41	1	5	51	1.35
1427891--1428134	123	2.0	122	91	4	393	45	9	4	40	1.57
1428131--1428160	14	2.1	14	93	0	51	53	3	0	43	1.17
1430426--1430466	3	13.7	3	85	14	50	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)
1430426--1430467	8	5.1	8	86	13	59	73	0	0	26	0.83
1430441--1430503	20	3.0	21	74	17	58	73	1	7	17	1.16
1430560--1430615	15	3.7	15	73	17	53	76	1	8	12	1.08
1430583--1430617	18	2.1	16	89	10	52	74	0	11	14	1.08
1430583--1430617	8	4.1	8	89	10	52	74	0	11	14	1.08
1431833--1431881	2	24.5	2	83	8	55	51	2	0	46	1.12
1431837--1431889	26	2.0	28	92	7	92	52	3	0	43	1.19
1431875--1432021	27	5.4	27	69	12	77	47	6	3	42	1.45
1431929--1432061	35	3.9	36	71	19	124	45	6	3	44	1.45
1431858--1432011	82	1.8	85	85	9	219	49	6	3	40	1.45
1431968--1432022	27	2.0	28	89	3	85	45	5	3	45	1.44
1431974--1432034	27	2.3	27	80	5	63	45	6	1	45	1.39
1432000--1432121	39	3.3	38	78	9	101	42	9	4	43	1.56
1432701--1433571	84	10.3	85	84	3	337	24	18	23	33	1.97
1432779--1433581	169	4.8	170	87	2	1041	23	18	23	34	1.97
1432761--1433585	253	3.3	253	88	1	1165	23	18	23	34	1.96
1432800--1433580	422	1.9	422	91	0	1292	23	18	23	34	1.97
1437294--1437362	23	3.0	23	76	0	75	21	26	21	30	1.99
1437645--1437680	16	2.2	16	90	9	56	58	0	22	19	1.40
1442315--1442383	23	3.0	23	78	4	77	17	24	23	34	1.96
1446369--1446393	12	2.1	12	100	0	50	60	0	0	40	0.97
1446720--1446787	29	2.2	32	87	12	99	70	0	4	25	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1448036--1448216	38	4.8	36	82	10	202	45	7	3	43	1.47
1448141--1448165	11	2.3	11	100	0	50	44	8	8	40	1.63
1448042--1448216	77	2.3	75	86	5	228	44	7	2	45	1.46
1448984--1449030	17	2.7	17	79	20	53	36	2	0	61	1.08
1449380--1449495	42	2.8	42	93	0	196	18	15	18	47	1.83
1449704--1449777	22	3.1	22	75	14	67	52	1	0	45	1.09
1449696--1449839	31	4.8	31	70	24	96	47	0	1	50	1.14
1449676--1449753	31	2.4	34	76	20	87	51	0	0	48	1.00
1449737--1449788	21	2.4	22	81	12	63	51	1	1	44	1.23
1449806--1449869	24	2.5	26	81	18	82	43	0	1	54	1.09

Tables:   1   2   3   4   5   6   7   8   9