genome.fa.s7799.2.7.7.80.10.50.1000.5.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: VEPZ01007799.1 Hibiscus syriacus cultivar Beakdansim tig00110109_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1433344

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 657 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)
1074570--1074639	24	3.0	23	82	2	95	10	12	18	58	1.62
1080525--1080569	22	2.1	21	83	4	54	53	11	0	35	1.37
1080537--1080580	20	2.1	20	87	8	61	56	2	0	40	1.11
1081567--1081696	65	2.0	65	100	0	260	40	18	10	30	1.85
1082023--1082051	3	9.7	3	100	0	58	34	0	0	65	0.93
1084881--1084924	22	2.0	22	95	0	79	50	11	0	38	1.39
1084885--1084939	22	2.5	22	85	5	67	56	12	0	30	1.37
1086543--1086575	2	16.5	2	100	0	66	48	0	0	51	1.00
1090002--1090050	25	2.0	23	84	11	62	16	8	4	71	1.26
1096410--1096458	20	2.5	20	93	0	80	67	6	0	26	1.14
1096526--1096570	18	2.4	19	88	3	65	2	28	24	44	1.66
1096990--1097021	2	16.0	2	100	0	64	50	0	0	50	1.00
1097597--1097832	115	2.1	112	85	9	316	38	3	10	47	1.56
1097799--1097848	19	2.5	20	87	6	75	56	0	2	42	1.11
1098083--1098118	19	1.9	18	88	5	54	33	13	5	47	1.67
1099946--1100103	21	7.8	20	70	7	77	37	24	17	19	1.93
1100071--1100265	20	9.6	20	78	4	122	35	25	19	18	1.95
1100071--1100264	61	3.2	61	82	2	248	35	25	19	19	1.95
1100071--1100265	81	2.4	80	83	4	239	35	25	19	18	1.95
1100110--1100262	41	3.8	41	85	3	211	33	25	19	20	1.96
1100642--1100712	33	2.2	33	92	0	115	12	22	16	47	1.80
1100833--1100887	14	3.6	14	73	21	56	41	23	25	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100833--1100903	33	2.2	33	94	0	124	43	25	22	8	1.81
1100899--1100996	19	5.7	19	70	22	81	10	24	22	42	1.84
1100921--1101010	14	5.7	14	74	23	81	8	25	23	42	1.83
1100904--1101018	33	3.5	33	95	0	212	9	24	20	45	1.81
1102714--1103091	92	4.1	93	98	1	726	22	12	18	46	1.83
1103135--1103263	19	7.3	19	73	17	116	45	27	17	9	1.78
1103171--1103263	33	2.8	31	90	7	132	46	26	18	8	1.78
1103135--1103263	52	2.5	52	73	14	131	45	27	17	9	1.78
1103259--1103377	19	6.8	18	72	19	101	9	19	24	47	1.78
1103281--1103337	14	3.7	14	72	20	51	8	19	26	45	1.79
1103264--1103356	33	2.8	33	88	0	150	9	19	23	47	1.79
1103259--1103393	19	7.6	19	72	20	96	10	18	25	45	1.81
1105286--1105321	14	2.6	14	95	0	63	33	0	22	44	1.53
1105427--1105503	14	4.6	17	70	25	58	42	19	24	12	1.86
1105427--1105503	33	2.3	33	100	0	154	42	19	24	12	1.86
1105510--1105906	33	11.5	33	83	11	303	14	21	18	46	1.84
1105532--1105906	19	21.4	19	77	19	415	13	21	18	46	1.83
1105510--1105878	52	7.0	52	85	10	493	14	21	17	46	1.83
1105832--1105892	14	3.9	14	75	22	59	14	16	19	49	1.80
1108379--1108425	24	2.0	24	87	8	69	38	21	14	25	1.92
1109102--1109492	20	19.5	20	84	6	450	20	18	25	35	1.95
1109107--1109511	81	5.0	81	82	6	398	21	18	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109931--1110170	126	1.9	125	95	2	437	38	2	10	48	1.53
1110136--1110206	29	2.5	29	82	15	78	46	1	5	46	1.35
1116049--1116236	63	3.0	63	93	0	313	35	18	21	24	1.95
1116507--1116549	22	2.0	21	82	17	52	53	11	0	34	1.37
1120337--1120366	2	15.0	2	100	0	60	50	0	0	50	1.00
1123757--1123797	21	2.0	21	85	9	57	51	0	2	46	1.14
1130059--1130089	2	16.0	2	93	6	55	51	0	0	48	1.00
1131240--1131303	14	4.4	14	75	21	60	31	6	7	54	1.54
1131817--1131893	33	2.3	33	82	8	95	23	10	15	50	1.74
1140945--1141008	30	2.1	29	85	8	83	23	3	0	73	0.97
1143188--1143236	19	2.6	19	83	0	62	30	6	6	57	1.48
1143190--1143250	19	3.3	18	79	6	59	27	4	6	60	1.42
1143854--1143887	17	1.9	18	88	5	52	47	2	0	50	1.16
1144015--1144043	2	14.5	2	100	0	58	51	0	0	48	1.00
1144213--1144249	15	2.5	15	95	0	65	35	18	18	27	1.95
1148976--1149018	22	2.0	21	82	17	52	53	9	0	37	1.33
1165680--1165721	21	2.0	21	86	9	59	23	35	21	19	1.96
1165832--1165895	14	4.4	14	73	21	51	31	4	7	56	1.49
1166407--1166483	33	2.3	33	84	8	104	24	10	15	49	1.76
1179706--1179731	11	2.4	11	100	0	52	26	0	0	73	0.84
1185611--1185640	15	1.9	16	93	6	53	40	3	6	50	1.45
1196581--1196609	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212236--1212288	20	2.6	21	79	11	65	30	28	18	22	1.98
1212296--1212388	21	4.4	21	91	0	132	22	21	25	30	1.99
1212784--1212826	19	2.3	19	95	0	77	32	25	4	37	1.77
1214797--1214850	6	9.0	6	97	0	99	51	0	48	0	1.00
1214873--1215186	171	1.9	167	86	6	445	31	10	20	37	1.87
1220940--1220980	2	20.5	2	100	0	82	48	0	0	51	1.00
1221369--1221408	17	2.4	17	82	0	53	35	7	12	45	1.70
1222654--1222694	21	1.9	22	85	5	57	43	2	4	48	1.37
1223184--1223208	3	8.3	3	100	0	50	68	0	0	32	0.90
1224463--1224504	11	3.8	11	100	0	84	38	0	26	35	1.57
1228003--1228047	22	2.0	24	86	8	67	53	2	11	33	1.49
1228903--1228935	2	16.5	2	100	0	66	51	0	0	48	1.00
1257927--1258037	31	3.6	31	95	0	195	37	22	20	18	1.94
1258840--1258884	21	2.1	21	87	0	63	15	24	28	31	1.96
1261594--1261620	13	2.1	13	100	0	54	37	18	22	22	1.95
1262048--1262172	31	4.0	31	92	2	198	36	23	20	20	1.95
1262974--1263018	21	2.1	21	87	0	63	15	24	28	31	1.96
1265071--1265127	26	2.2	26	100	0	114	24	22	7	45	1.77
1269391--1269420	16	1.9	16	93	6	53	53	0	6	40	1.27
1270501--1270542	21	2.0	22	95	4	77	38	9	23	28	1.86
1270780--1270819	20	2.0	20	85	9	55	32	15	15	37	1.88
1276669--1276788	61	2.0	61	81	8	145	36	21	15	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283336--1283367	7	4.2	8	92	8	50	87	0	12	0	0.54
1283337--1283363	7	3.9	7	100	0	54	88	0	11	0	0.50
1285391--1285419	2	14.5	2	100	0	58	48	0	0	51	1.00
1288180--1288234	29	1.9	28	82	17	69	60	5	3	30	1.37
1291398--1291428	16	2.0	15	93	6	53	45	6	3	45	1.45
1291965--1291994	2	15.0	2	100	0	60	50	0	0	50	1.00
1294458--1294496	13	2.9	13	84	3	51	23	17	12	46	1.83
1294546--1294584	19	2.0	20	90	5	62	48	15	10	25	1.76
1295083--1295276	95	2.0	95	100	0	388	55	4	9	30	1.50
1300180--1300237	28	2.0	28	84	15	75	60	0	0	39	0.97
1301785--1301839	3	18.7	3	89	10	87	67	0	0	32	0.91
1302093--1302996	113	7.9	116	87	3	1126	30	19	12	37	1.89
1302093--1302996	229	3.9	229	87	4	1207	30	19	12	37	1.89
1302972--1303060	17	5.1	17	68	24	60	20	20	10	49	1.77
1302972--1303063	36	2.6	36	91	5	152	19	20	9	50	1.76
1302859--1303173	143	2.1	149	89	6	473	26	19	13	41	1.88
1303004--1303208	113	1.8	109	92	4	347	26	18	15	39	1.90
1303909--1304266	93	3.9	93	91	1	558	34	21	15	28	1.94
1305234--1305298	6	11.0	6	80	9	80	1	15	3	80	0.92
1305236--1305312	30	2.7	28	86	9	102	1	15	3	79	0.95
1305267--1305307	11	3.7	11	90	6	57	0	12	4	82	0.81
1312632--1312663	15	2.1	15	94	0	55	46	6	18	28	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315960--1316001	19	2.2	18	84	16	50	66	2	2	28	1.16
1316475--1316526	28	2.0	25	81	11	59	53	0	3	42	1.19
1316485--1316539	23	2.3	26	81	12	73	54	0	3	41	1.18
1316589--1316633	22	2.0	22	86	8	63	57	0	0	42	0.98
1318252--1318304	15	3.5	15	87	7	63	58	0	1	39	1.09
1318664--1318704	6	6.8	6	100	0	82	48	0	0	51	1.00
1324481--1324513	15	2.1	16	94	5	59	30	27	9	33	1.88
1327444--1327481	16	2.3	17	86	4	51	28	2	0	68	1.03
1327782--1328019	102	2.3	102	86	1	325	27	18	23	30	1.98
1331992--1332043	26	2.0	26	92	3	88	26	36	9	26	1.87

Tables:   1   2   3   4   5   6