genome.fa.s8311.2.7.7.80.10.50.1000.6.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: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1790494

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 882 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)
1059530--1059576	24	2.0	24	86	0	67	59	14	10	14	1.61
1068473--1068539	34	1.9	34	85	8	91	52	11	8	26	1.68
1068487--1068552	34	1.9	34	87	6	98	48	13	10	27	1.75
1089627--1089698	19	3.7	20	77	3	67	31	33	13	20	1.92
1089690--1089761	20	3.6	20	88	0	108	43	22	15	19	1.88
1089685--1089780	40	2.4	42	81	10	119	42	21	15	19	1.88
1089765--1089901	20	7.0	20	79	12	124	31	24	13	30	1.93
1089765--1089872	38	2.8	37	77	10	119	31	25	13	29	1.94
1089884--1089953	20	3.5	20	82	3	79	31	21	11	35	1.89
1089865--1089973	20	5.5	20	76	14	75	30	22	11	35	1.90
1090741--1090774	12	2.8	12	90	0	50	55	29	0	14	1.40
1090900--1090946	24	2.0	24	91	0	76	21	19	21	38	1.94
1093667--1093714	25	1.9	25	95	0	87	20	8	25	45	1.79
1094100--1094136	18	2.1	18	89	0	56	32	5	10	51	1.60
1094092--1094144	24	2.2	24	86	0	70	35	3	13	47	1.61
1096589--1096792	111	1.8	111	91	2	338	33	14	20	31	1.92
1107372--1107434	25	2.5	25	94	2	108	26	9	30	33	1.88
1116851--1116926	10	7.3	10	71	14	64	0	9	9	81	0.87
1116862--1116908	13	3.5	13	91	2	76	0	14	8	76	1.01
1116851--1116927	17	4.3	18	67	14	61	0	9	10	80	0.91
1118544--1118748	110	1.9	111	88	5	317	33	15	19	32	1.92
1121322--1121366	21	2.1	21	95	0	81	24	24	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129598--1129631	5	6.8	5	93	0	59	82	2	0	14	0.79
1130137--1130171	17	2.1	17	89	10	54	65	5	11	17	1.43
1130389--1130474	34	2.6	32	83	10	109	52	3	15	29	1.59
1130263--1130674	201	2.0	201	87	2	587	39	11	19	29	1.87
1130590--1130686	33	2.9	32	76	14	108	54	5	13	26	1.59
1139816--1139845	2	15.5	2	93	6	53	46	0	0	53	1.00
1154380--1154579	111	1.9	107	87	6	296	34	14	20	31	1.93
1158325--1158369	21	2.1	21	91	0	72	24	22	15	37	1.93
1165788--1165831	18	2.4	18	100	0	88	38	29	4	27	1.76
1165788--1165831	9	4.9	9	80	0	52	38	29	4	27	1.76
1167177--1167219	18	2.4	19	84	11	63	62	4	6	25	1.40
1167450--1167532	34	2.5	33	81	11	96	50	2	16	30	1.58
1167331--1167733	201	2.0	201	88	1	603	38	12	20	28	1.89
1169083--1169339	120	2.1	122	86	2	358	28	14	22	34	1.93
1169429--1169856	139	3.1	138	79	4	378	23	16	27	32	1.96
1170022--1170259	104	2.3	102	82	7	279	36	11	14	37	1.82
1170620--1170667	24	2.0	23	84	4	60	33	6	18	41	1.76
1173412--1173454	13	3.4	13	90	6	70	0	16	4	79	0.90
1178867--1178936	34	2.1	33	84	7	88	52	4	12	30	1.58
1179041--1179143	33	3.1	32	79	10	102	46	2	16	33	1.62
1178748--1179127	192	2.0	190	89	2	573	36	11	20	31	1.88
1179059--1179155	33	2.9	32	80	8	115	52	3	13	30	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180364--1180430	2	33.5	2	100	0	134	49	0	0	50	1.00
1181148--1181284	59	2.3	60	76	6	136	32	18	13	35	1.90
1181490--1181626	60	2.3	60	83	2	168	35	18	14	32	1.91
1185711--1185932	108	2.0	109	87	5	317	39	11	12	36	1.79
1185711--1186010	108	2.8	107	80	9	304	39	10	11	38	1.76
1186565--1186896	75	4.4	75	85	0	423	32	12	12	42	1.80
1187754--1187788	3	11.7	3	93	0	61	28	0	0	71	0.86
1193917--1193966	17	3.0	16	80	13	57	40	2	0	58	1.10
1204459--1204559	34	3.0	35	84	8	129	24	23	14	36	1.93
1206401--1206448	19	2.5	20	82	3	62	29	12	6	52	1.63
1207363--1207399	16	2.3	16	90	0	56	21	18	21	37	1.94
1218857--1218909	15	3.4	15	71	19	54	35	0	0	64	0.94
1218847--1218923	32	2.4	33	91	8	131	41	0	0	58	0.98
1218863--1218917	17	3.4	17	75	10	69	38	0	0	61	0.96
1221374--1221498	63	2.0	63	98	0	241	36	10	25	28	1.89
1223102--1223190	3	30.3	3	75	13	60	42	0	1	56	1.06
1224198--1224233	15	2.4	15	100	0	72	30	0	8	61	1.26
1225177--1225201	13	1.9	13	100	0	50	48	4	0	48	1.20
1225514--1225573	21	2.9	20	78	11	68	36	25	16	21	1.94
1225508--1225581	21	3.6	20	75	8	60	35	27	16	21	1.94
1225514--1225600	42	2.1	41	82	2	102	37	26	14	20	1.92
1227702--1227740	20	2.0	20	84	0	51	48	17	5	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228270--1228313	15	2.9	15	80	12	54	50	0	0	50	1.00
1237342--1237386	23	1.9	24	82	13	58	75	2	4	17	1.07
1238592--1238882	147	2.0	144	93	3	494	39	27	7	25	1.82
1239293--1239368	18	3.9	18	72	23	64	31	6	2	59	1.37
1239305--1239371	20	3.3	20	69	19	66	29	5	2	61	1.35
1239313--1239378	22	3.1	22	68	27	70	31	7	6	54	1.53
1239294--1239378	41	2.1	41	100	0	170	31	7	4	56	1.47
1239305--1239369	19	3.3	19	70	18	60	29	6	3	61	1.35
1252075--1252119	17	2.6	18	82	10	58	20	20	0	60	1.37
1257472--1257516	23	2.0	23	90	0	72	26	2	40	31	1.68
1260753--1260778	13	2.0	13	100	0	52	15	7	38	38	1.76
1275684--1275711	11	2.5	11	100	0	56	60	0	32	7	1.24
1276462--1276509	20	2.3	21	85	3	62	35	10	31	22	1.88
1278151--1278214	31	2.1	31	96	0	119	18	32	25	23	1.97
1301590--1302044	41	11.1	40	79	5	394	28	18	17	35	1.94
1301590--1302034	163	2.7	162	81	6	481	28	19	16	35	1.94
1305455--1305584	65	2.0	65	98	0	251	38	24	16	20	1.92
1311351--1311411	24	2.5	25	76	15	65	32	19	13	34	1.90
1311627--1311791	85	1.9	86	85	1	224	26	18	25	29	1.98
1311625--1311851	43	5.3	43	85	1	258	28	20	23	26	1.99
1311670--1311851	85	2.1	85	86	1	247	25	20	24	28	1.99
1311627--1311877	128	2.0	128	79	6	276	27	19	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312046--1312104	21	2.8	21	84	0	73	55	20	5	18	1.61
1314037--1314357	41	7.8	41	83	4	351	34	18	18	28	1.95
1314037--1314357	125	2.6	122	81	7	353	34	18	18	28	1.95
1314037--1314353	165	1.9	165	89	2	494	35	18	18	28	1.94
1314037--1314365	81	4.0	81	78	8	349	34	18	17	28	1.95
1323702--1323788	44	2.0	44	90	0	138	24	17	21	36	1.94
1326074--1326132	29	2.1	28	84	9	75	23	11	5	59	1.52
1328649--1328718	34	2.1	34	83	5	88	38	14	10	37	1.79
1328649--1328718	17	4.1	17	81	3	79	38	14	10	37	1.79
1332462--1332531	34	2.1	34	83	5	88	38	14	10	37	1.79
1332462--1332531	17	4.1	17	81	3	79	38	14	10	37	1.79
1333000--1333039	16	2.7	16	81	14	50	30	25	5	40	1.77
1335884--1335922	20	2.0	20	85	10	53	58	7	7	25	1.52
1336576--1336626	19	2.6	19	78	3	57	47	5	13	33	1.67
1340660--1340715	19	2.8	20	89	5	87	42	10	10	35	1.74
1341524--1341671	45	3.3	45	95	0	260	20	23	11	44	1.84
1342034--1342216	95	1.9	94	83	5	235	25	25	10	37	1.89
1345453--1345511	29	2.0	29	86	0	82	25	20	10	44	1.83
1347914--1348017	45	2.3	45	88	1	145	21	20	10	48	1.79
1352080--1352227	45	3.3	45	93	0	242	20	22	12	43	1.86
1352593--1352774	94	1.9	94	85	4	251	25	24	12	37	1.90
1356954--1356995	2	20.5	2	95	4	75	47	0	2	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378026--1378081	19	2.8	20	86	5	78	42	12	10	33	1.77
1388683--1388752	19	3.6	19	90	1	104	48	5	8	37	1.58
1392231--1392281	19	2.6	20	90	3	77	43	7	11	37	1.71
1393199--1393249	19	2.6	20	90	3	77	43	5	13	37	1.69
1397044--1397091	16	3.2	16	80	11	57	18	20	0	60	1.36
1405925--1405974	25	2.0	26	84	4	66	58	0	22	20	1.40
1406727--1406802	26	3.2	25	69	21	72	23	21	11	43	1.85
1406670--1406810	46	3.1	44	82	7	176	26	21	10	41	1.86
1406738--1406817	20	3.7	20	72	19	70	20	23	11	45	1.83
1413886--1413933	22	2.2	22	96	0	87	39	14	22	22	1.91

Tables:   1   2   3   4   5   6   7   8