genome.fa.s9458.2.7.7.80.10.50.1000.5.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: VEPZ01009458.1 Hibiscus syriacus cultivar Beakdansim tig00113719_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1407308

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 671 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)
1076256--1076299	16	2.8	16	82	0	52	15	11	22	50	1.76
1076602--1076649	20	2.5	19	86	3	60	20	2	4	72	1.11
1082750--1082776	14	1.9	14	100	0	54	77	0	0	22	0.76
1101474--1101518	21	2.1	21	83	0	54	57	2	4	35	1.31
1101714--1101864	60	2.5	59	89	2	212	32	15	15	35	1.90
1101980--1102121	60	2.4	60	83	1	160	38	13	14	34	1.85
1102469--1102544	39	1.9	40	86	7	111	40	3	5	50	1.44
1114163--1114222	3	20.0	3	100	0	120	66	0	0	33	0.92
1120496--1120608	59	1.9	59	83	3	147	42	4	7	45	1.53
1122414--1122782	20	18.5	20	84	5	451	34	26	18	20	1.96
1123464--1123510	24	2.0	24	87	8	69	25	14	21	38	1.92
1123685--1123709	12	2.1	12	100	0	50	72	0	28	0	0.86
1125988--1126280	19	16.4	19	82	14	383	46	18	20	14	1.83
1126016--1126302	52	5.4	55	89	8	347	46	17	21	14	1.84
1125988--1126302	128	2.6	128	88	7	453	46	18	20	14	1.84
1125988--1126317	180	1.9	176	91	5	538	45	18	20	15	1.85
1126309--1126391	20	4.6	19	81	15	113	14	24	18	43	1.87
1126498--1126534	14	2.6	14	91	0	65	45	21	0	32	1.52
1128493--1128549	14	3.7	14	77	20	60	45	22	21	10	1.82
1128474--1128566	33	2.8	33	95	0	168	47	21	20	10	1.80
1128437--1128566	19	7.3	19	76	17	127	46	23	18	10	1.80
1128605--1129076	93	5.1	93	98	1	912	46	18	12	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128605--1129076	185	2.6	185	99	0	926	46	18	12	22	1.83
1130781--1130870	14	5.7	14	74	23	81	42	23	25	8	1.83
1130773--1130887	33	3.5	33	95	0	212	45	20	24	9	1.81
1130780--1130892	19	6.8	18	72	23	88	43	22	24	9	1.83
1130904--1130958	14	3.6	14	73	21	56	9	25	23	41	1.83
1130888--1130958	33	2.2	33	94	0	124	8	22	25	43	1.81
1130899--1130980	33	2.5	33	89	2	119	9	25	21	42	1.84
1130911--1130999	20	4.8	20	72	19	75	12	24	19	43	1.85
1131079--1131149	33	2.2	33	92	0	115	47	18	22	11	1.80
1131330--1131382	22	2.4	22	83	0	79	20	13	39	26	1.89
1131530--1131722	20	9.6	20	82	5	219	19	19	25	35	1.95
1131530--1131722	60	3.2	60	83	0	251	19	19	25	35	1.95
1131778--1131829	20	2.6	20	96	0	95	21	13	26	38	1.90
1133908--1133951	5	8.2	5	85	9	52	18	4	2	75	1.09
1133910--1133951	11	3.8	11	78	9	50	16	4	2	76	1.07
1133984--1134038	25	2.2	25	78	15	60	10	9	1	78	1.05
1137109--1137154	16	3.1	16	82	17	55	80	8	8	2	0.99
1137833--1137875	22	1.9	22	85	4	59	39	23	13	23	1.90
1139039--1139569	209	2.5	210	92	1	859	33	25	18	22	1.96
1139039--1139569	106	5.0	106	91	1	836	33	25	18	22	1.96
1141084--1141127	5	8.2	5	85	9	52	18	4	2	75	1.09
1141086--1141127	11	3.8	11	78	9	50	16	4	2	76	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141224--1141621	198	2.0	198	100	0	796	29	14	12	43	1.82
1144225--1144276	9	5.7	9	77	11	52	76	0	7	15	0.99
1144225--1144276	26	1.9	28	84	7	72	76	0	7	15	0.99
1146082--1147076	106	9.4	106	91	1	1503	22	18	25	33	1.96
1150976--1151054	35	2.2	36	77	14	83	70	3	6	18	1.24
1153702--1153763	31	2.2	28	78	16	65	32	29	20	17	1.96
1154566--1154701	59	2.3	59	82	6	159	34	21	17	26	1.95
1155405--1155463	31	1.9	31	82	3	75	22	6	13	57	1.59
1155908--1155956	24	2.0	24	96	0	89	24	12	34	28	1.91
1156748--1156879	2	66.0	2	100	0	264	50	0	0	50	1.00
1159335--1159384	23	2.2	23	82	7	57	48	0	12	40	1.40
1163369--1163434	29	2.3	29	91	0	114	40	7	12	39	1.71
1164262--1164338	29	2.7	29	89	0	109	44	7	11	36	1.70
1165173--1165217	20	2.2	20	96	0	81	24	26	28	20	1.99
1165712--1165775	22	2.9	22	78	0	65	32	18	21	26	1.97
1167712--1167956	51	4.8	51	82	5	289	25	11	14	48	1.78
1167712--1167956	101	2.4	102	81	5	289	25	11	14	48	1.78
1167959--1168013	18	2.7	21	72	21	53	40	12	18	29	1.87
1194785--1194817	2	16.5	2	100	0	66	48	0	0	51	1.00
1199484--1199557	31	2.4	31	97	0	139	33	14	8	43	1.75
1200496--1200537	2	22.0	2	90	9	70	0	50	0	50	1.00
1202877--1202932	23	2.4	23	81	0	67	55	16	14	14	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204637--1204719	29	2.8	29	92	1	139	43	9	14	32	1.78
1209399--1209481	29	2.8	29	92	1	139	43	9	14	32	1.78
1217574--1217639	8	7.6	8	73	21	53	43	1	1	53	1.19
1219073--1219209	60	2.3	60	81	5	161	30	17	16	35	1.92
1221287--1221319	2	16.5	2	100	0	66	51	0	0	48	1.00
1222208--1222248	21	2.0	21	85	0	55	19	21	31	26	1.97
1228659--1228774	60	1.9	60	85	0	160	34	16	15	33	1.90
1229732--1229771	8	5.1	8	84	6	55	57	0	0	42	0.98
1235167--1235198	5	6.4	5	92	0	55	0	43	0	56	0.99
1237788--1237864	36	2.1	36	95	0	136	31	15	38	14	1.87
1237875--1237911	12	3.0	12	92	4	56	16	51	21	10	1.74
1239160--1241022	463	4.0	463	94	0	3161	35	13	13	37	1.84
1240314--1240427	60	1.9	60	83	3	149	35	9	14	40	1.79
1240315--1240442	60	2.1	60	81	2	141	32	10	17	39	1.84
1242727--1242776	21	2.4	21	89	0	73	32	30	20	18	1.96
1242772--1242838	21	3.3	19	74	13	71	20	20	20	37	1.95
1242788--1242867	21	3.8	21	77	12	92	22	21	23	32	1.98
1242772--1242851	42	2.0	40	95	5	142	21	22	21	35	1.96
1242867--1242903	6	6.5	6	87	12	60	32	48	18	0	1.49
1243037--1243082	24	1.9	24	100	0	92	23	21	17	36	1.94
1243569--1243595	5	5.4	5	100	0	54	40	0	40	18	1.51
1245058--1245123	31	2.1	31	94	0	114	21	12	12	54	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250004--1250055	24	2.3	22	86	6	68	19	19	11	50	1.77
1251321--1251389	32	2.2	32	89	0	102	27	15	20	36	1.93
1253578--1253750	45	3.8	45	93	0	283	37	15	20	27	1.92
1257620--1257681	29	2.1	29	93	0	106	17	32	32	17	1.94
1257741--1257813	20	3.3	20	70	26	67	17	8	47	26	1.75
1257741--1257833	46	2.0	46	95	0	168	18	8	47	25	1.77
1258342--1258385	21	2.1	21	91	0	70	29	0	15	54	1.42
1258362--1258424	28	2.2	30	91	5	103	31	0	11	57	1.34
1259235--1259293	26	2.3	25	75	18	66	47	8	3	40	1.51
1262135--1262407	11	22.3	11	69	22	72	42	1	9	46	1.47
1262177--1262355	26	7.2	26	79	12	162	43	2	10	44	1.50
1262122--1262391	124	2.2	123	91	2	436	42	2	9	45	1.48
1262180--1262407	14	17.1	14	71	17	105	42	2	8	46	1.47
1262360--1262433	38	1.9	38	83	5	96	45	4	5	44	1.45
1262615--1262647	17	1.9	17	93	0	57	36	6	12	45	1.66
1262561--1262640	24	3.3	23	71	21	67	38	3	8	48	1.52
1264800--1264830	15	2.1	14	94	5	53	54	6	0	38	1.26
1264891--1264972	34	2.6	32	81	12	89	48	13	0	37	1.42
1265012--1265144	45	3.0	45	80	14	136	48	12	0	39	1.40
1265665--1265767	29	3.6	29	94	0	179	25	31	28	15	1.96
1265791--1265837	21	2.2	21	100	0	94	14	29	25	29	1.95
1274072--1274133	31	2.0	31	96	0	115	30	22	8	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277759--1277789	15	2.0	16	93	6	55	51	22	12	12	1.74
1284346--1284458	42	2.7	42	94	0	199	40	22	13	23	1.89
1293706--1294750	522	2.0	522	97	0	1955	18	35	9	36	1.83
1296733--1296766	15	2.3	15	89	0	50	8	17	64	8	1.47
1297234--1297265	2	16.0	2	100	0	64	50	0	0	50	1.00
1302011--1302474	231	2.0	231	94	0	820	35	9	25	28	1.88
1303334--1303417	23	3.7	23	78	0	87	17	23	25	33	1.97
1303334--1303430	46	2.1	46	86	0	131	19	23	23	32	1.97
1303365--1303432	23	3.0	23	75	0	73	20	23	23	32	1.98
1303599--1303658	31	1.9	31	93	0	102	43	5	21	30	1.74

Tables:   1   2   3   4   5   6