genome.fa.s8522.2.7.7.80.10.50.1000.7.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: VEPZ01008522.1 Hibiscus syriacus cultivar Beakdansim tig00111390_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1416293

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 906 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)
1032445--1032506	13	4.7	14	73	13	60	45	8	4	41	1.55
1032443--1032506	26	2.5	26	92	0	101	45	7	4	42	1.54
1032921--1032972	19	2.7	19	96	0	95	30	32	17	19	1.95
1034434--1034829	55	7.2	55	87	1	542	39	17	15	28	1.90
1048353--1048393	19	2.1	20	86	4	57	21	0	34	43	1.53
1048383--1048443	7	8.7	7	90	0	95	24	0	31	44	1.54
1050373--1050407	3	11.7	3	100	0	70	31	0	0	68	0.90
1052335--1052373	20	2.0	20	89	0	60	33	10	23	33	1.88
1054458--1054744	54	5.3	54	86	1	351	31	13	18	36	1.90
1060338--1060370	16	2.1	16	100	0	66	36	6	27	30	1.81
1061227--1061664	54	8.1	54	89	1	601	32	11	16	39	1.84
1065671--1065737	15	4.5	15	92	0	107	49	7	23	19	1.74
1067942--1067986	20	2.1	22	84	8	58	40	17	20	22	1.92
1068315--1068806	54	9.2	54	86	2	616	30	13	18	38	1.89
1068315--1068737	212	2.0	214	88	3	629	31	12	17	38	1.87
1072506--1072554	23	2.1	23	84	0	62	32	20	22	24	1.98
1072481--1072596	21	5.3	21	72	15	76	32	25	17	24	1.96
1073289--1073338	20	2.5	20	100	0	100	30	24	12	34	1.91
1074228--1074266	20	2.0	20	94	0	69	25	5	33	35	1.78
1079548--1079597	21	2.4	21	86	6	66	40	30	10	20	1.85
1083129--1083167	20	2.0	20	89	0	60	33	10	23	33	1.88
1084951--1084988	18	2.1	19	85	9	53	15	13	5	65	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088877--1089282	202	2.0	204	99	0	798	31	14	24	30	1.95
1090164--1090203	15	2.9	14	85	10	55	70	0	27	2	1.01
1090215--1090271	11	5.1	11	75	12	53	82	0	15	1	0.75
1090228--1090258	9	3.6	9	95	4	55	83	0	16	0	0.64
1090167--1090271	7	14.1	7	80	9	77	76	0	20	3	0.94
1090207--1090271	9	6.8	9	73	18	51	81	0	15	3	0.81
1092141--1092777	55	11.6	55	86	2	841	34	9	14	41	1.79
1092141--1092831	109	6.3	109	86	3	860	33	9	14	41	1.79
1092743--1092835	49	1.9	47	83	12	118	32	10	16	40	1.82
1095359--1095394	14	2.6	14	90	0	54	25	13	2	58	1.49
1096145--1096237	2	47.0	2	97	2	179	49	0	0	50	1.00
1097040--1097087	20	2.4	20	82	6	53	70	6	0	22	1.09
1100532--1100757	113	2.0	113	100	0	452	46	16	8	28	1.77
1106639--1106683	2	23.0	2	95	4	83	51	0	0	48	1.00
1107495--1107562	34	2.1	33	88	5	102	23	29	16	30	1.96
1107910--1107993	21	4.2	20	85	8	107	16	26	39	17	1.91
1107911--1107993	19	4.2	19	77	13	78	16	26	38	18	1.92
1110704--1110804	41	2.5	41	90	0	148	15	29	35	18	1.93
1110704--1110807	20	5.1	20	89	3	145	15	28	37	18	1.91
1113443--1113543	41	2.5	41	90	0	148	15	29	35	18	1.93
1113443--1113546	20	5.1	20	89	3	145	15	28	37	18	1.91
1116196--1116250	18	2.9	18	89	7	83	16	25	36	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118529--1118598	34	2.1	34	86	5	99	21	25	18	34	1.96
1118873--1118957	43	2.0	42	93	6	145	14	28	38	18	1.90
1118878--1118953	21	3.5	21	74	12	82	15	26	39	18	1.91
1118988--1119027	21	1.9	21	94	0	71	17	30	35	17	1.93
1120196--1120251	23	2.4	23	79	5	60	32	23	25	19	1.98
1121032--1121106	20	3.7	19	77	13	78	21	24	22	32	1.98
1124280--1124319	20	2.0	20	90	0	62	17	30	35	17	1.93
1125596--1125805	59	3.6	59	83	3	230	30	12	15	41	1.84
1125870--1126475	237	2.5	238	82	3	772	30	17	16	34	1.92
1126500--1126566	34	2.0	35	82	5	84	74	4	8	11	1.19
1126543--1126590	22	2.2	20	82	10	51	70	6	14	8	1.31
1126558--1126597	22	1.9	22	85	10	57	70	7	17	5	1.30
1130138--1130182	20	2.2	20	96	0	81	35	13	24	26	1.92
1132353--1132406	27	2.0	27	96	0	99	42	7	25	24	1.80
1134324--1134432	56	1.9	56	94	0	191	15	19	22	42	1.89
1139632--1139669	20	1.9	20	94	0	67	31	7	18	42	1.79
1144142--1144351	65	3.2	64	78	8	194	30	24	16	29	1.96
1144191--1144370	65	2.8	64	82	7	211	28	24	17	30	1.97
1150270--1150305	18	2.0	18	88	0	54	30	36	0	33	1.58
1151700--1151743	21	2.1	21	82	0	52	9	43	15	31	1.79
1180655--1180799	76	1.9	78	81	8	181	41	8	6	44	1.59
1183815--1183886	20	3.5	20	75	7	63	31	25	9	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187601--1187626	12	2.2	12	100	0	52	26	7	30	34	1.85
1191338--1191370	16	2.0	17	88	5	50	9	27	0	63	1.24
1192519--1192736	43	5.1	43	79	4	208	32	19	21	27	1.97
1192517--1192712	85	2.3	86	84	1	241	33	18	20	26	1.96
1195054--1195348	82	3.6	84	77	9	234	32	16	17	33	1.93
1195083--1195369	83	3.5	83	80	5	251	31	18	17	32	1.94
1195054--1195355	166	1.8	165	81	4	374	31	16	18	33	1.93
1196247--1196321	23	3.3	23	87	10	93	52	5	17	25	1.66
1196270--1196321	23	2.3	23	100	0	104	50	7	17	25	1.72
1199533--1199575	14	3.2	13	77	9	50	0	13	9	76	1.01
1199949--1200327	55	6.9	55	87	3	446	30	22	17	29	1.97
1199945--1200319	165	2.3	165	85	4	499	29	23	17	29	1.97
1200342--1200498	36	4.3	36	90	0	242	22	19	17	40	1.91
1201816--1201845	14	2.1	15	93	6	53	13	26	0	60	1.34
1201843--1201937	8	11.4	8	73	19	70	9	15	1	73	1.14
1201843--1201906	27	2.4	26	85	10	85	10	17	1	70	1.24
1201915--1201953	19	2.1	19	85	9	53	10	7	0	82	0.86
1211593--1211680	45	1.9	46	90	4	142	35	22	13	28	1.92
1214071--1214142	24	3.0	24	100	0	144	33	12	12	41	1.80
1219827--1219900	30	2.5	30	86	4	96	41	10	16	31	1.82
1225997--1226348	131	2.7	130	82	1	425	39	18	8	32	1.82
1228196--1228236	14	2.9	14	92	3	64	65	0	2	31	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228458--1229075	133	4.7	133	82	1	632	29	17	21	31	1.96
1230390--1230426	14	2.4	16	82	13	51	8	13	0	78	0.96
1230383--1230442	17	3.7	17	76	10	63	5	16	0	78	0.92
1230383--1230461	32	2.5	31	83	4	104	6	17	0	75	1.00
1230406--1230455	25	1.9	27	84	8	68	4	20	0	76	0.95
1230405--1230460	25	2.3	25	77	19	64	3	19	0	76	0.93
1235728--1235784	15	3.7	14	78	17	60	19	36	28	15	1.92
1235728--1235793	32	2.1	32	91	0	105	21	36	25	16	1.94
1243000--1243032	2	16.5	2	100	0	66	51	0	0	48	1.00
1243181--1243241	32	1.9	32	93	0	104	31	18	22	27	1.97
1248284--1248910	314	2.0	314	99	0	1245	27	23	13	34	1.93
1252018--1252056	21	1.9	20	84	5	51	38	17	12	30	1.88
1256505--1256559	15	3.7	15	69	13	51	23	7	3	65	1.34
1264599--1264955	131	2.7	131	82	2	448	40	17	9	32	1.82
1267202--1267642	133	3.3	131	79	5	438	31	16	21	30	1.96
1267910--1267955	3	15.7	3	86	4	67	36	2	0	60	1.09
1273719--1273755	16	2.3	16	100	0	74	29	8	13	48	1.71
1277088--1277153	18	3.8	17	80	11	71	77	0	15	7	0.98
1277113--1277174	23	2.8	22	80	9	72	74	0	16	9	1.07
1277824--1277909	29	3.0	29	89	0	127	27	13	18	39	1.89
1278967--1279632	134	5.0	134	85	1	807	34	21	15	28	1.94
1278967--1279642	267	2.5	267	84	1	852	33	21	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279817--1279847	3	10.3	3	100	0	62	32	0	0	67	0.91
1279884--1279938	23	2.4	23	84	6	67	43	40	12	3	1.60
1283155--1283234	3	27.0	3	76	16	78	65	0	1	33	1.01
1283155--1283234	14	5.6	14	80	11	74	65	0	1	33	1.01
1287839--1288394	54	10.4	53	80	6	521	44	17	8	30	1.77
1287870--1288342	214	2.2	216	83	5	593	45	17	7	30	1.76
1289646--1289713	28	2.5	27	86	6	93	20	4	33	41	1.72
1290466--1290540	21	3.8	20	89	6	100	6	14	0	78	0.94
1290444--1290547	18	6.0	16	77	13	73	5	20	0	74	1.02
1290477--1290540	21	3.1	21	95	4	114	7	12	0	79	0.92

Tables:   1   2   3   4   5   6   7   8