genome.fa.s8298.2.7.7.80.10.50.1000.6.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: VEPZ01008298.1 Hibiscus syriacus cultivar Beakdansim tig00110984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1334650

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 725 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)
1054075--1054114	15	2.7	15	88	3	55	25	0	22	52	1.47
1054062--1054157	22	4.5	21	72	11	70	22	3	28	45	1.67
1054407--1054448	13	3.1	14	82	6	59	30	0	28	40	1.57
1054407--1054487	7	11.3	7	76	10	83	27	1	28	43	1.63
1054410--1054471	20	2.9	21	88	7	81	30	1	25	41	1.65
1054395--1054486	15	6.4	15	72	15	54	27	2	26	44	1.66
1054474--1054541	29	2.3	29	82	2	73	19	2	25	52	1.59
1056914--1056941	7	4.0	7	100	0	56	85	0	0	14	0.59
1057997--1058040	22	2.0	22	100	0	88	22	27	22	27	1.99
1059351--1059392	21	2.0	21	95	0	75	14	47	2	35	1.57
1060321--1060365	19	2.4	19	96	0	81	31	0	24	44	1.54
1060367--1060408	21	2.0	22	85	4	59	23	0	28	47	1.52
1065106--1065137	16	2.0	16	93	0	55	40	18	0	40	1.51
1068606--1068648	22	2.0	22	86	9	61	34	0	16	48	1.46
1068761--1068797	14	2.6	14	91	8	58	16	0	32	51	1.45
1068773--1068843	22	3.2	21	74	7	61	19	1	28	50	1.56
1069002--1069058	29	2.0	29	83	13	73	19	1	29	49	1.58
1070451--1070500	25	2.0	25	92	0	82	52	12	12	24	1.72
1075239--1076575	202	6.7	201	89	2	1918	37	13	14	35	1.85
1075239--1076575	402	3.3	400	89	3	1956	37	13	14	35	1.85
1080539--1080574	18	2.1	18	89	5	56	25	19	22	33	1.97
1081674--1081719	18	2.5	18	89	10	67	4	34	17	43	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083294--1083365	22	3.2	22	90	3	108	19	29	27	23	1.98
1087178--1087217	21	1.9	21	85	10	55	35	10	2	52	1.48
1089079--1089224	65	2.2	64	82	9	172	26	18	21	32	1.97
1090783--1091278	200	2.5	199	84	4	635	40	15	14	29	1.87
1091370--1091421	23	2.3	23	89	0	77	34	19	7	38	1.80
1091297--1091457	87	1.9	86	92	1	268	34	16	10	39	1.83
1092514--1092679	89	1.9	89	91	2	271	36	11	6	45	1.65
1092652--1092695	23	2.0	22	86	4	61	52	0	2	45	1.13
1099631--1099688	21	2.8	21	100	0	116	34	20	24	20	1.97
1099692--1099745	21	2.6	21	96	0	99	44	18	12	24	1.85
1102662--1102716	28	2.0	28	100	0	110	54	14	14	16	1.71
1106658--1106808	60	2.5	61	81	13	170	35	18	1	44	1.61
1112011--1112035	6	4.2	6	100	0	50	20	16	64	0	1.30
1112099--1112142	13	3.5	13	90	6	72	18	52	15	13	1.75
1112160--1112245	32	2.7	33	81	5	113	51	0	0	48	1.00
1112244--1112298	24	2.3	24	90	0	83	25	47	14	12	1.80
1112244--1112298	12	4.6	12	81	0	65	25	47	14	12	1.80
1118744--1118786	21	2.0	21	90	0	68	16	27	41	13	1.86
1119202--1119245	17	2.6	17	82	13	56	38	4	0	56	1.20
1128581--1128605	6	4.2	6	100	0	50	20	16	64	0	1.30
1128669--1128712	13	3.5	13	90	6	72	18	52	15	13	1.75
1128746--1128803	23	2.6	23	83	2	64	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128802--1128855	24	2.3	24	90	3	83	25	48	12	12	1.78
1128802--1128855	12	4.6	12	81	2	65	25	48	12	12	1.78
1135110--1135153	22	2.0	22	90	0	70	15	27	43	13	1.85
1135569--1135612	17	2.6	17	82	13	56	38	4	0	56	1.20
1167045--1167232	94	2.0	94	92	0	313	36	14	20	28	1.92
1171334--1171390	26	2.2	26	100	0	114	19	17	33	29	1.95
1171801--1171842	20	2.0	21	86	4	59	33	16	14	35	1.89
1173610--1174257	283	2.3	282	82	6	785	46	5	13	33	1.66
1174330--1174371	21	2.0	22	86	9	61	47	0	4	47	1.23
1174384--1174436	27	2.0	27	84	0	70	39	3	7	49	1.49
1188039--1188070	15	2.0	17	88	11	50	6	18	12	62	1.50
1190431--1190595	84	2.0	84	85	0	222	30	17	20	32	1.95
1190567--1190617	13	3.9	13	89	0	75	31	21	19	27	1.97
1192343--1192394	25	2.1	25	100	0	104	23	23	7	46	1.78
1198354--1198430	32	2.4	32	95	0	136	51	10	14	23	1.72
1204913--1205074	78	2.1	79	81	5	186	47	6	14	30	1.71
1205182--1205266	40	2.2	39	82	4	100	43	14	10	31	1.79
1206870--1206898	7	4.1	7	100	0	58	13	0	0	86	0.58
1207693--1207788	36	2.7	35	80	6	131	40	3	12	43	1.58
1207753--1207796	22	2.0	22	90	0	70	43	2	9	45	1.48
1207753--1207794	20	2.0	22	86	9	61	42	2	9	45	1.49
1207765--1207822	29	2.1	26	87	9	80	48	0	5	46	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207847--1207893	17	2.8	17	78	18	53	25	8	0	65	1.20
1207955--1207994	19	2.1	19	95	0	71	32	42	20	5	1.73
1217087--1217140	22	2.5	22	93	0	90	38	42	0	18	1.50
1220374--1220427	12	4.2	12	77	13	54	18	18	12	50	1.78
1223137--1223284	7	19.9	7	74	20	115	79	0	20	0	0.73
1223139--1223284	8	17.4	8	79	13	152	80	0	19	0	0.72
1223136--1223284	17	8.8	17	81	14	168	79	0	20	0	0.74
1225422--1225569	43	3.5	43	87	4	219	27	14	30	27	1.95
1225608--1225669	20	3.0	20	74	11	63	20	24	25	29	1.99
1225645--1226308	90	7.3	90	90	4	981	26	17	21	34	1.96
1225645--1226308	179	3.6	179	90	2	988	26	17	21	34	1.96
1225645--1226308	269	2.4	269	89	4	990	26	17	21	34	1.96
1226109--1226308	101	2.0	101	93	0	346	26	18	22	34	1.96
1226290--1226372	42	2.0	42	85	0	112	24	21	20	33	1.97
1226847--1226883	17	2.4	17	86	13	53	35	0	2	62	1.10
1227287--1227337	22	2.3	22	100	0	102	39	41	0	19	1.52
1230854--1230879	2	13.0	2	100	0	52	50	0	0	50	1.00
1231278--1231312	2	17.5	2	100	0	70	51	0	0	48	1.00
1233070--1233122	23	2.3	23	90	0	88	26	22	20	30	1.98
1234323--1234430	24	4.6	24	69	19	84	55	14	0	29	1.40
1234333--1234384	26	2.0	25	85	3	68	59	11	0	28	1.32
1237149--1237321	43	4.0	43	86	3	224	28	19	20	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237122--1237321	86	2.3	86	83	6	253	31	18	20	30	1.96
1237122--1237321	43	4.7	43	80	6	208	31	18	20	30	1.96
1237192--1237376	86	2.2	86	78	7	189	28	17	20	33	1.95
1237335--1237484	44	3.4	44	83	0	165	30	18	22	29	1.97
1237801--1237853	21	2.5	21	93	0	88	3	33	16	45	1.66
1244971--1245137	80	2.1	81	90	1	264	28	23	35	12	1.91
1247750--1247774	11	2.3	11	100	0	50	28	36	0	36	1.58
1250927--1251156	76	3.0	76	92	1	381	30	23	7	37	1.83
1257192--1257262	2	35.5	2	100	0	142	50	0	0	49	1.00
1257414--1257468	13	4.2	13	88	0	74	36	16	20	27	1.93
1260329--1260728	68	5.9	68	92	0	667	29	14	26	30	1.95
1260736--1260979	45	5.4	45	82	6	190	41	7	22	28	1.81
1260810--1260989	45	4.0	45	84	5	238	36	10	25	28	1.88
1260763--1260989	90	2.5	91	82	6	273	38	8	23	28	1.85
1273795--1274100	155	2.0	155	86	2	436	35	10	16	37	1.83
1279807--1280399	296	2.0	296	97	0	1134	35	16	16	32	1.91
1284449--1284514	30	2.2	31	86	2	89	43	15	4	36	1.67
1286125--1286185	31	1.9	32	86	3	88	42	8	6	42	1.60
1296944--1296976	17	2.0	17	88	5	50	27	12	18	42	1.85
1297000--1297033	17	2.1	17	88	5	52	32	17	17	32	1.94
1301468--1301521	15	3.6	15	87	0	72	24	1	50	24	1.60
1302768--1302825	20	2.9	19	89	5	80	62	3	0	34	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304502--1304541	20	2.0	20	85	0	53	55	0	7	37	1.29
1312581--1312624	13	3.4	13	90	0	70	27	18	20	34	1.96
1317082--1317128	20	2.4	19	89	10	76	55	10	17	17	1.69
1316870--1317342	181	2.6	182	88	0	678	42	13	16	27	1.86
1317263--1317309	20	2.4	19	82	10	67	53	10	17	19	1.72
1317272--1317314	20	2.3	19	88	11	63	51	11	16	20	1.75
1319539--1319603	21	3.1	21	88	0	94	43	10	29	16	1.82
1319637--1319702	33	2.0	33	87	0	96	27	0	50	22	1.50
1321493--1321541	19	2.6	19	96	0	89	32	2	10	55	1.45
1321654--1322343	200	3.4	199	94	2	1202	37	15	17	29	1.91

Tables:   1   2   3   4   5   6   7