genome.fa.s8512.2.7.7.80.10.50.1000.6.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: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1759229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1011 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)
1029939--1029989	19	2.6	18	80	17	57	70	3	1	23	1.14
1031160--1031224	14	4.8	14	80	10	64	60	1	0	38	1.07
1031471--1033013	113	13.6	113	95	0	2719	28	21	14	35	1.93
1033449--1033526	22	3.5	22	89	3	120	39	14	11	34	1.82
1036083--1036308	114	2.0	114	91	0	362	31	20	15	32	1.93
1038442--1038571	7	16.3	7	73	21	73	3	19	1	75	1.04
1038433--1038523	25	3.6	25	79	10	94	3	23	0	73	0.98
1038437--1038512	8	9.1	8	72	23	59	2	22	0	75	0.93
1038442--1038541	9	11.3	9	72	6	71	3	20	0	77	0.91
1038442--1038543	35	2.9	34	81	14	102	2	20	0	76	0.92
1038458--1038545	42	2.1	42	83	14	110	3	19	0	77	0.91
1044942--1044986	3	15.7	3	88	9	67	66	2	0	31	1.04
1046212--1046290	3	28.0	3	75	21	64	63	1	0	35	1.03
1046212--1046294	16	5.2	16	74	18	66	63	1	0	34	1.02
1046570--1046607	17	2.2	17	95	0	67	34	26	7	31	1.85
1050848--1050879	14	2.1	16	88	11	50	50	18	15	15	1.79
1051100--1051136	17	2.2	17	90	9	58	37	0	2	59	1.12
1062497--1062814	160	2.0	159	96	0	582	36	7	2	53	1.43
1062646--1062697	21	2.5	20	78	9	59	26	1	1	69	1.10
1065377--1065439	29	2.2	29	91	5	101	33	17	11	38	1.85
1071490--1071520	2	15.5	2	100	0	62	51	0	48	0	1.00
1073453--1073497	2	22.5	2	100	0	90	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073838--1073912	28	2.7	28	82	0	96	34	26	17	21	1.95
1075528--1075553	2	13.0	2	100	0	52	50	0	0	50	1.00
1076288--1076312	3	8.3	3	100	0	50	0	32	0	68	0.90
1081221--1081279	10	5.7	10	73	15	57	57	20	11	10	1.63
1081225--1081273	16	3.1	16	93	0	89	57	22	12	8	1.61
1082293--1082354	24	2.6	24	89	0	97	54	24	11	9	1.65
1082300--1082355	14	4.3	14	76	17	66	53	25	12	8	1.67
1083677--1083993	96	3.4	91	77	11	307	43	5	4	47	1.44
1083677--1083993	95	3.3	95	80	6	313	43	5	4	47	1.44
1084148--1084194	2	23.0	2	86	4	67	48	2	2	46	1.25
1084148--1084208	19	3.4	19	80	15	67	49	3	1	45	1.28
1085108--1085189	2	41.5	2	95	2	148	51	0	1	47	1.08
1085731--1085811	3	26.7	3	94	2	135	34	0	2	62	1.08
1087135--1087167	15	2.2	16	89	10	52	27	0	3	69	1.03
1099082--1099167	8	10.5	8	72	16	52	77	1	11	9	1.04
1099119--1099176	13	4.5	13	89	2	82	77	0	15	6	0.97
1099097--1099175	25	3.2	25	75	19	76	78	0	12	8	0.96
1099114--1099161	13	4.1	11	89	10	53	81	0	10	8	0.88
1099106--1099176	26	2.8	25	81	8	90	77	0	14	8	0.98
1100020--1100443	217	2.0	217	85	8	587	35	16	21	26	1.94
1100369--1100655	105	2.7	106	78	10	307	40	16	18	24	1.90
1102129--1102161	15	2.2	16	89	10	52	27	0	3	69	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102247--1102607	179	2.0	178	92	7	599	30	12	6	50	1.66
1114199--1114332	60	2.2	60	80	7	148	32	23	4	39	1.75
1114485--1114652	60	2.8	59	73	11	153	38	5	23	31	1.79
1117780--1117826	3	15.7	3	90	0	76	63	2	2	31	1.18
1130661--1130708	25	1.9	25	87	8	71	33	4	2	60	1.27
1131602--1131647	11	4.3	11	78	13	51	60	0	0	39	0.97
1132661--1132748	24	3.7	24	73	13	74	70	1	0	28	0.95
1132692--1132750	6	9.5	6	78	14	66	77	0	0	22	0.76
1138330--1138801	4	118.0	4	100	0	944	50	25	0	25	1.50
1141248--1141332	6	14.2	6	79	9	57	0	64	0	35	0.94
1141298--1141349	2	26.0	2	88	0	59	0	59	0	40	0.97
1142507--1142543	19	1.9	19	88	0	56	35	5	2	56	1.36
1145520--1145547	14	2.0	14	100	0	56	28	7	14	50	1.69
1145669--1145702	10	3.3	10	88	8	50	29	14	8	47	1.75
1146115--1146283	29	5.9	28	75	6	99	33	4	10	50	1.58
1146115--1146283	56	3.0	56	80	5	162	33	4	10	50	1.58
1146143--1146289	29	5.1	29	77	6	129	33	6	9	50	1.61
1150651--1150719	23	3.0	23	78	0	75	31	23	24	20	1.98
1151603--1151669	2	33.5	2	100	0	134	50	0	0	49	1.00
1152330--1152490	63	2.5	64	83	5	175	24	17	22	35	1.95
1152371--1152490	64	1.9	63	86	5	170	25	16	21	36	1.94
1157928--1158346	210	2.0	210	100	0	838	29	26	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161139--1161168	2	15.0	2	100	0	60	50	0	0	50	1.00
1161193--1161226	17	1.9	18	88	5	52	50	0	0	50	1.00
1161382--1161418	19	1.9	19	88	0	56	32	13	13	40	1.84
1162795--1162855	29	2.1	29	90	6	97	32	24	3	39	1.72
1163021--1163133	60	1.9	60	83	3	147	38	3	22	35	1.71
1164869--1164936	32	2.2	31	85	12	88	57	2	0	39	1.14
1164886--1164941	11	5.1	11	75	14	53	58	1	0	39	1.08
1164985--1165061	36	2.1	36	100	0	154	41	9	10	38	1.71
1169579--1169643	27	2.4	27	97	0	121	27	3	27	41	1.71
1170539--1170588	23	2.3	22	86	10	75	12	20	16	52	1.75
1170485--1170932	221	2.0	227	97	2	854	21	14	13	51	1.76
1172371--1172461	32	3.0	29	81	9	101	43	9	4	41	1.58
1172354--1172462	30	3.5	31	80	7	114	42	11	3	42	1.59
1173348--1179207	4	1494.5	4	87	6	8262	46	25	2	25	1.66
1180222--1180251	13	2.4	13	94	5	53	40	10	0	50	1.36
1181518--1181587	5	14.0	5	100	0	140	40	0	0	60	0.97
1186348--1186399	21	2.5	21	87	6	70	26	19	21	32	1.97
1186429--1186532	20	5.2	20	85	6	147	27	27	21	23	1.99
1186408--1186532	61	2.0	61	93	0	214	29	28	20	21	1.98
1186429--1186564	61	2.2	61	85	0	173	29	25	20	24	1.99
1186698--1186776	22	3.6	22	82	0	95	21	39	16	22	1.92
1187130--1187196	20	3.4	20	87	2	82	14	17	23	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187143--1187199	20	2.8	20	91	0	87	12	15	21	50	1.76
1187163--1187206	20	2.2	20	91	0	70	11	13	20	54	1.69
1189148--1189304	20	8.4	20	67	16	104	37	22	21	18	1.94
1189164--1189300	34	3.9	34	78	11	157	35	23	21	18	1.96
1189156--1189302	74	2.0	74	94	0	258	36	22	21	19	1.96
1189309--1189364	19	2.9	19	91	0	94	7	14	28	50	1.69
1189348--1189428	33	2.4	33	89	2	117	16	19	23	40	1.90
1189400--1189448	20	2.5	20	96	0	89	24	20	22	32	1.98
1189441--1189478	20	1.9	20	94	0	67	18	10	21	50	1.76
1189958--1190061	21	5.0	21	74	3	93	22	35	18	24	1.95
1189958--1190065	42	2.6	41	83	2	135	22	37	17	23	1.94
1191442--1191507	30	2.2	30	97	0	123	30	1	13	54	1.48
1191649--1191837	20	10.1	20	74	13	150	21	20	20	38	1.94
1191644--1191758	34	3.2	34	75	13	113	17	20	22	39	1.93
1191676--1191824	54	2.8	54	89	0	217	22	21	19	36	1.95
1194088--1194114	14	1.9	14	100	0	54	7	18	29	44	1.77
1194089--1194121	14	2.5	13	90	9	50	6	21	24	48	1.72
1194314--1194367	24	2.2	24	90	0	81	42	20	16	20	1.89
1195186--1195353	20	8.3	20	76	10	162	25	19	25	29	1.98
1195191--1195374	61	3.0	61	87	1	280	25	20	24	29	1.99
1195198--1195353	41	3.9	39	72	13	120	25	19	25	29	1.99
1195202--1195394	61	3.2	61	80	5	221	24	19	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195363--1195415	20	2.7	20	90	0	88	24	15	15	45	1.84
1201661--1201868	65	3.2	65	81	12	223	26	16	24	32	1.96
1204218--1204299	23	3.6	22	78	8	94	24	24	26	24	2.00
1218401--1218508	3	35.7	3	92	1	180	34	1	0	63	1.05
1218981--1219017	18	2.1	18	89	0	56	72	5	21	0	1.04
1218979--1219024	19	2.4	19	88	3	74	69	8	21	0	1.15
1218983--1219016	16	2.1	16	88	5	50	73	5	20	0	1.04
1231323--1231365	13	3.5	12	84	15	61	83	0	16	0	0.64
1231325--1231366	8	5.2	8	83	11	59	85	0	14	0	0.59
1231699--1231740	19	2.2	20	91	4	68	30	4	11	52	1.59

Tables:   1   2   3   4   5   6   7   8   9