genome.fa.s260.2.7.7.80.10.50.1000.6.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  6  of  26  ( 3102 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)
1127917--1127980	6	10.7	6	79	0	65	18	32	9	39	1.83
1129444--1131218	200	8.9	200	97	0	3338	30	17	14	36	1.90
1131325--1131385	19	3.3	18	88	2	59	52	11	1	34	1.47
1131337--1131385	19	2.6	19	96	0	89	55	10	2	32	1.45
1133176--1133241	33	2.0	33	90	0	105	22	45	0	31	1.53
1133275--1133339	21	3.1	21	93	0	103	16	30	10	41	1.83
1135365--1135417	24	2.2	24	83	6	63	26	7	13	52	1.66
1135743--1135789	20	2.4	19	79	10	58	21	17	8	53	1.70
1135529--1136001	181	2.6	182	88	1	662	27	16	13	43	1.85
1137783--1137843	31	1.9	32	83	3	79	26	11	13	49	1.75
1154553--1154668	58	2.0	58	94	0	205	37	14	12	34	1.85
1155641--1155710	31	2.3	31	84	0	86	25	27	14	32	1.94
1155652--1155712	31	2.0	31	90	0	95	22	26	16	34	1.95
1155889--1155914	2	13.0	2	100	0	52	50	0	0	50	1.00
1158370--1158443	34	2.0	36	87	12	107	39	13	16	31	1.87
1163576--1163686	7	14.1	8	68	23	51	26	2	4	66	1.24
1163578--1163623	18	2.8	17	84	12	60	23	2	4	69	1.17
1166077--1166136	3	20.7	3	81	6	61	36	0	0	63	0.95
1167654--1167890	120	2.0	117	81	4	271	38	8	8	45	1.63
1167855--1167910	29	2.0	28	85	3	76	50	0	0	50	1.00
1169681--1169904	114	2.0	114	91	0	367	33	16	20	29	1.94
1170080--1170144	31	2.1	31	97	0	121	35	18	15	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172410--1172464	22	2.5	22	87	0	92	34	12	14	38	1.84
1173143--1173777	76	8.4	76	96	0	1155	24	20	21	33	1.97
1173928--1174003	3	25.7	3	82	7	84	36	1	0	61	1.04
1173940--1174009	22	3.0	23	76	12	88	42	1	0	55	1.08
1175442--1175481	18	2.1	18	86	9	53	50	0	0	50	1.00
1175529--1175763	120	2.0	119	83	6	298	37	8	8	45	1.65
1179229--1179274	19	2.3	20	81	7	58	28	28	17	26	1.98
1179309--1179361	21	2.5	21	81	6	72	20	26	18	33	1.96
1179351--1179402	21	2.5	21	87	3	70	38	17	23	21	1.93
1179388--1179566	41	4.4	41	77	9	141	31	25	18	24	1.98
1179391--1179546	20	7.7	20	83	5	152	28	26	18	25	1.98
1180073--1180179	40	3.0	34	74	15	106	38	23	24	14	1.91
1180092--1180167	20	3.8	20	96	0	134	39	23	22	14	1.91
1180186--1180282	38	2.8	33	76	14	113	13	19	18	48	1.81
1180186--1180269	19	4.7	19	84	10	115	14	19	17	48	1.81
1180274--1180311	20	1.9	20	94	0	67	13	13	28	44	1.81
1181855--1181946	42	2.2	42	86	1	132	21	15	41	21	1.90
1181882--1181942	21	2.9	21	77	0	77	22	13	40	22	1.89
1182284--1182336	20	2.7	20	90	0	79	35	28	11	24	1.90
1182310--1182396	20	4.4	20	86	1	104	36	24	24	14	1.93
1182369--1182451	19	4.6	19	74	17	79	44	22	19	13	1.85
1182441--1182504	19	3.6	19	70	20	66	14	20	20	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182489--1182543	20	2.8	19	83	8	65	16	23	23	36	1.94
1183078--1183138	18	3.4	18	97	0	113	14	9	47	27	1.76
1184459--1184496	20	1.9	20	94	0	67	52	21	15	10	1.72
1184746--1184789	22	2.0	22	95	0	79	18	15	45	20	1.85
1184976--1185087	20	5.6	20	82	6	118	23	17	25	33	1.97
1184956--1185087	41	3.2	41	81	6	178	23	17	25	34	1.96
1184976--1185111	41	3.3	41	79	5	116	24	18	23	33	1.97
1185120--1185172	21	2.5	22	81	6	74	33	18	26	20	1.96
1192249--1192326	20	3.5	20	70	21	66	19	26	15	38	1.91
1192243--1192599	47	7.6	47	90	1	554	20	22	14	42	1.88
1192393--1192516	20	5.6	20	68	22	77	20	25	12	42	1.86
1199718--1200015	93	3.2	94	89	3	456	19	22	13	44	1.86
1199718--1200015	47	6.3	47	90	1	463	19	22	13	44	1.86
1205279--1205865	55	10.7	55	85	2	768	28	13	17	40	1.87
1210241--1210560	83	3.9	83	90	0	487	34	20	18	26	1.96
1210255--1210555	42	7.2	42	77	3	313	34	20	18	25	1.96
1210459--1211196	217	3.4	215	90	2	1113	32	18	15	33	1.92
1211200--1211334	34	3.9	34	92	0	198	20	20	22	35	1.96
1213399--1213447	2	25.0	2	95	4	91	48	0	0	51	1.00
1215834--1215878	22	2.0	22	95	0	81	8	20	26	44	1.80
1217789--1217831	21	2.0	23	86	9	63	34	9	9	46	1.68
1250181--1250633	55	8.3	55	86	3	558	27	13	18	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250182--1250627	162	2.7	162	85	2	599	27	13	18	39	1.89
1253812--1253841	13	2.2	13	94	5	51	6	10	0	83	0.81
1255601--1255641	18	2.3	18	95	0	73	24	19	9	46	1.80
1258305--1258387	19	4.7	19	78	12	97	28	37	3	30	1.74
1258309--1258387	35	2.3	35	97	0	149	27	36	3	31	1.75
1261454--1261500	24	2.0	24	91	0	76	29	31	2	36	1.70
1266608--1266654	24	2.0	24	91	0	76	27	36	2	34	1.69
1268337--1268368	16	2.0	16	100	0	64	37	6	25	31	1.81
1268713--1268738	5	5.2	5	100	0	52	0	19	57	23	1.40
1276546--1276583	17	2.2	17	90	0	58	31	0	2	65	1.06
1277680--1277713	8	4.2	8	84	0	50	55	0	5	38	1.24
1292185--1292940	55	13.7	55	87	2	995	31	15	25	27	1.96
1292185--1292853	111	6.1	110	89	1	998	31	14	25	28	1.95
1292185--1292853	166	4.0	165	94	1	1074	31	14	25	28	1.95
1292847--1292992	55	2.7	54	83	6	172	32	20	23	23	1.98
1293271--1293304	8	4.2	8	84	0	50	55	0	5	38	1.24
1295067--1295097	2	15.5	2	100	0	62	48	0	0	51	1.00
1296164--1296207	20	2.1	22	87	8	65	34	11	0	54	1.36
1296719--1297138	48	9.2	48	67	20	222	30	45	6	17	1.74
1296681--1296861	81	2.2	84	82	4	208	30	43	7	19	1.78
1296830--1296957	45	2.6	49	77	13	138	32	44	7	15	1.74
1296703--1297138	180	2.4	180	88	1	665	31	44	7	17	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296964--1297176	48	4.4	50	78	10	183	29	45	7	18	1.76
1297787--1297816	14	2.1	14	100	0	60	56	0	13	30	1.37
1300115--1300257	31	4.7	30	81	11	166	31	9	0	58	1.34
1300244--1300285	15	2.9	15	79	10	52	45	2	0	52	1.13
1300291--1300402	29	3.8	29	79	8	104	40	4	1	53	1.31
1300266--1300402	58	2.4	57	79	13	144	40	5	1	52	1.32
1300471--1300545	29	2.5	32	75	14	79	48	4	10	37	1.57
1300471--1300584	60	1.9	59	82	8	142	50	2	10	36	1.51
1303045--1303221	60	3.0	60	80	4	171	32	20	4	42	1.72
1303415--1303514	29	3.4	28	73	13	85	38	0	25	37	1.56
1303386--1303513	60	2.1	59	83	9	161	37	1	24	36	1.65
1303386--1303485	31	3.3	30	72	12	89	35	2	25	38	1.67
1303428--1303526	29	3.4	28	70	13	65	44	1	19	35	1.57
1303413--1303525	60	1.9	60	83	7	149	40	0	22	36	1.60
1318679--1319354	336	2.0	336	100	0	1352	26	20	24	28	1.99
1329212--1329245	17	1.9	18	88	5	52	50	0	8	41	1.34
1329732--1329794	2	31.5	2	100	0	126	49	0	0	50	1.00
1332511--1332599	42	2.1	41	85	6	117	33	3	19	43	1.67
1332911--1333005	21	4.5	21	74	0	82	24	15	21	38	1.92
1334507--1334556	21	2.4	21	86	0	64	22	14	30	34	1.93
1334554--1334630	23	3.3	23	90	0	109	25	27	16	29	1.97
1334571--1334648	23	3.4	23	85	0	75	26	25	17	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339516--1339568	16	3.2	16	74	12	54	33	1	1	62	1.17
1341275--1341320	21	2.2	21	84	0	56	19	0	17	63	1.32
1344451--1344483	18	1.9	17	88	11	50	24	3	0	72	0.98
1346049--1346098	22	2.2	23	85	3	66	38	18	22	22	1.94
1346164--1346223	30	2.0	30	90	0	93	33	25	16	25	1.96
1346591--1346663	24	3.2	24	64	25	66	32	23	9	34	1.87
1346591--1346677	45	1.9	45	92	0	147	32	24	9	34	1.87
1346767--1346895	59	2.2	59	87	0	177	28	24	18	27	1.98
1351047--1351380	54	6.2	54	85	0	425	27	18	20	32	1.96
1351053--1351373	162	2.0	162	89	0	498	27	18	20	33	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26