genome.fa.s7979.2.7.7.80.10.50.1000.6.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: VEPZ01007979.1 Hibiscus syriacus cultivar Beakdansim tig00110418_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2767453

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1516 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)
1044498--1044770	26	11.5	26	71	19	204	24	20	10	45	1.81
1044518--1044652	45	3.0	45	92	4	209	22	20	11	45	1.83
1044518--1044653	46	3.0	44	91	6	209	22	20	11	44	1.84
1044572--1044724	72	2.1	71	88	4	227	24	18	9	47	1.79
1044502--1044770	117	2.3	117	89	4	411	24	19	10	45	1.81
1044711--1044790	20	3.8	20	73	19	72	22	25	11	41	1.87
1044646--1044803	46	3.5	46	85	3	212	24	19	10	46	1.80
1045194--1045265	19	3.6	19	71	25	58	26	26	15	31	1.95
1045289--1045358	20	3.5	20	84	11	83	18	25	17	38	1.92
1056250--1056479	64	3.6	63	80	6	221	26	17	26	29	1.98
1056378--1056428	19	2.7	19	85	8	70	25	15	35	23	1.94
1056272--1056479	65	3.2	64	81	13	230	27	17	25	29	1.97
1062466--1062537	30	2.4	30	90	0	108	29	23	13	33	1.93
1063862--1063900	21	1.9	21	84	5	53	23	0	12	64	1.28
1065486--1065523	3	12.7	3	100	0	76	31	0	0	68	0.90
1069745--1069803	32	1.9	32	86	6	86	66	0	5	28	1.13
1071759--1072066	108	2.9	107	92	3	487	20	19	26	33	1.97
1083620--1083654	2	17.5	2	100	0	70	51	0	0	48	1.00
1086620--1086648	12	2.4	12	100	0	58	55	0	0	44	0.99
1099245--1099283	19	2.1	19	90	0	60	82	0	5	12	0.83
1099222--1099298	24	3.0	26	77	21	83	76	1	9	12	1.07
1099340--1099375	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099460--1099537	41	1.9	40	84	7	104	50	5	28	16	1.67
1099610--1099654	23	2.0	22	86	4	63	75	0	2	22	0.91
1100607--1100648	18	2.3	18	91	0	66	14	45	23	16	1.84
1101236--1101274	20	2.0	20	84	0	51	38	0	2	58	1.12
1101663--1101867	42	4.8	41	88	4	268	17	26	24	31	1.97
1109044--1109248	42	4.8	41	85	5	241	17	23	24	34	1.96
1109782--1109817	18	2.1	18	89	5	56	66	2	5	25	1.27
1110197--1110268	35	2.1	35	100	0	144	27	20	11	40	1.87
1112248--1112278	16	1.9	16	93	0	53	32	3	16	48	1.62
1122260--1122399	66	2.1	67	87	2	201	37	22	13	27	1.91
1127170--1127203	17	1.9	17	88	5	50	58	11	2	26	1.47
1129856--1129897	3	14.0	3	94	0	75	66	2	0	30	1.04
1135307--1135382	26	3.0	24	74	16	64	40	1	1	56	1.16
1135310--1135359	9	5.6	9	77	15	50	38	2	0	60	1.09
1136460--1136508	5	9.8	5	81	0	62	6	40	34	18	1.75
1142329--1142353	6	4.2	6	100	0	50	0	16	48	36	1.46
1161841--1161891	23	2.2	23	85	0	66	25	19	9	45	1.81
1167032--1167090	29	2.0	29	100	0	118	49	13	13	23	1.78
1172911--1172935	3	8.3	3	100	0	50	36	0	0	64	0.94
1178324--1178400	3	25.7	3	78	5	84	41	0	0	58	0.98
1178325--1178395	24	2.9	25	87	6	110	43	0	0	56	0.99
1178324--1178400	30	2.5	31	89	4	113	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178407--1178461	26	2.1	26	93	0	92	41	32	18	7	1.78
1180459--1180510	20	2.6	21	82	11	65	28	5	0	65	1.16
1182543--1182581	7	5.4	7	84	6	51	12	15	7	64	1.49
1182543--1182581	15	2.7	14	84	7	51	12	15	7	64	1.49
1185151--1185183	11	2.8	12	86	13	50	87	0	12	0	0.53
1185147--1185189	17	2.5	17	85	11	52	83	0	16	0	0.64
1185158--1185183	11	2.4	11	100	0	52	92	0	7	0	0.39
1189628--1189744	55	2.1	54	90	4	182	40	17	20	22	1.92
1190111--1190165	22	2.5	22	90	0	92	34	12	14	38	1.84
1190841--1191479	76	8.4	76	96	0	1172	21	20	21	35	1.96
1191623--1191701	3	26.7	3	77	7	81	41	0	0	58	0.98
1191623--1191696	27	2.8	27	86	8	98	43	0	0	56	0.99
1191708--1191762	26	2.1	26	89	0	83	40	32	18	9	1.82
1197117--1197177	20	3.0	20	68	15	52	32	16	21	29	1.95
1197116--1197218	42	2.5	40	80	10	111	29	14	25	31	1.95
1197125--1197194	20	3.4	20	75	7	59	30	14	25	30	1.95
1200079--1200151	36	2.0	36	94	0	128	35	27	2	34	1.71
1202354--1202411	29	2.0	29	86	0	80	13	34	27	24	1.93
1202451--1202501	10	4.7	10	74	25	50	23	39	27	9	1.86
1202454--1202520	14	4.4	14	77	20	71	23	38	29	7	1.82
1202450--1202515	34	1.9	34	100	0	132	22	39	28	9	1.85
1202468--1202501	10	3.4	10	84	15	52	23	38	29	8	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202502--1202586	33	2.6	33	88	0	116	27	25	37	9	1.87
1202590--1202645	29	1.9	29	96	0	103	21	30	37	10	1.87
1203317--1203422	47	2.2	49	81	9	148	43	3	4	48	1.42
1206934--1206991	28	2.1	28	90	0	89	34	18	6	39	1.78
1208243--1208274	3	10.7	3	93	0	55	71	0	0	28	0.86
1210740--1210783	20	2.2	20	95	0	79	20	20	27	31	1.97
1211443--1211524	30	2.8	29	75	8	85	43	7	7	41	1.60
1211444--1211539	28	3.3	28	74	8	84	42	10	7	39	1.67
1212743--1212782	10	3.9	10	90	3	62	45	0	0	55	0.99
1213440--1213493	28	1.9	28	88	0	81	18	11	16	53	1.72
1217425--1217467	17	2.4	18	88	7	70	39	0	0	60	0.97
1218362--1218392	14	2.3	13	94	5	53	61	6	0	32	1.21
1219656--1219690	2	17.5	2	100	0	70	48	0	0	51	1.00
1220310--1220389	24	3.3	24	79	10	76	33	2	3	60	1.28
1222608--1222870	131	2.0	132	91	3	424	26	15	16	40	1.89
1223259--1223331	23	3.2	23	72	5	67	43	2	1	52	1.24
1223264--1223327	29	2.2	28	81	15	69	45	3	1	50	1.27
1229774--1229804	15	2.1	15	100	0	62	35	32	12	19	1.90
1229890--1229953	32	2.1	31	85	5	85	31	25	6	37	1.81
1238912--1238958	18	2.7	18	93	3	78	27	31	8	31	1.87
1239191--1239248	20	2.9	20	76	0	62	44	24	15	15	1.85
1239351--1239408	22	2.6	22	83	0	62	24	39	15	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242324--1242368	23	2.0	23	86	0	63	26	26	26	20	1.99
1242336--1242648	147	2.1	148	95	2	558	34	21	17	26	1.96
1243103--1243259	64	2.4	63	80	10	158	28	18	20	33	1.96
1249350--1249394	23	2.0	23	81	0	54	28	26	24	20	1.99
1249362--1249676	149	2.1	149	94	1	542	35	21	17	26	1.95
1250129--1250285	64	2.5	64	81	8	167	27	18	20	33	1.96
1251318--1251363	21	2.2	22	77	18	53	30	34	17	17	1.93
1252713--1252889	67	2.6	67	88	9	247	28	2	16	52	1.56
1253355--1253390	18	2.0	18	94	0	63	16	2	25	55	1.55
1254300--1254346	24	2.0	24	82	0	58	44	6	10	38	1.65
1254314--1254350	18	2.1	18	89	0	56	48	8	8	35	1.62
1254726--1254777	25	2.1	25	92	0	86	42	19	7	30	1.79
1254856--1254937	34	2.4	34	91	0	128	41	15	21	20	1.90
1255277--1255312	18	2.0	18	94	0	63	16	2	25	55	1.55
1257567--1257620	24	2.2	24	90	0	81	40	18	18	22	1.91
1257746--1257779	12	2.8	12	90	0	50	14	0	26	58	1.36
1258374--1258412	15	2.5	15	83	4	51	66	0	5	28	1.12
1258550--1258595	18	2.6	18	100	0	92	36	19	19	23	1.95
1258606--1258661	19	2.8	20	89	2	78	32	7	21	39	1.80
1258666--1258736	20	3.6	20	80	1	81	19	12	23	43	1.86
1258661--1258758	40	2.4	41	81	8	112	20	14	24	40	1.89
1261299--1261331	2	16.5	2	100	0	66	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)
1261369--1261470	34	2.9	36	91	5	172	44	13	14	27	1.83
1261915--1261945	2	15.5	2	93	0	53	45	0	0	54	0.99
1262056--1262090	16	2.1	18	89	10	56	25	8	0	65	1.21
1265303--1265372	20	3.2	22	78	13	58	80	5	11	2	1.00
1266005--1266053	22	2.2	22	96	0	89	32	22	14	30	1.93
1266974--1267043	36	1.9	36	91	0	113	24	22	12	40	1.89
1267059--1267285	37	6.4	36	77	10	227	27	18	13	40	1.89
1266978--1267249	102	2.7	100	87	1	364	28	19	13	38	1.90
1267162--1267285	36	3.4	36	86	3	169	25	19	14	40	1.90
1267079--1267336	138	1.9	139	90	0	410	27	19	13	39	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13