genome.fa.s9633.2.7.7.80.10.50.1000.6.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: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2608659

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

This is table  6  of  13  ( 1552 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)
934398--934439	21	2.0	21	85	0	57	23	21	26	28	1.99
937378--937420	14	3.0	14	86	6	59	2	9	2	86	0.76
937383--937419	15	2.5	15	95	0	65	2	8	0	89	0.58
947536--947610	20	3.8	20	100	0	150	24	16	34	25	1.95
948027--948095	30	2.3	30	92	0	111	37	4	23	34	1.75
948329--948374	23	2.0	23	91	0	74	21	26	21	30	1.99
949029--949067	20	2.0	20	89	0	60	23	28	17	30	1.97
949293--949614	164	2.0	162	90	2	511	37	11	10	40	1.77
950629--950711	36	2.3	36	85	4	114	36	18	21	24	1.95
952561--952685	36	3.5	35	82	3	142	34	20	21	24	1.97
952543--952685	72	2.0	71	83	1	178	39	18	20	21	1.93
955556--955585	2	15.5	2	93	6	53	50	0	50	0	1.00
961208--961245	16	2.4	16	100	0	76	5	34	10	50	1.59
963284--963322	15	2.6	15	100	0	78	51	5	15	28	1.64
965416--965449	17	1.9	18	88	5	52	52	17	11	17	1.73
966855--966887	2	16.5	2	93	0	57	54	0	0	45	0.99
966950--967012	2	31.5	2	96	0	117	50	0	1	47	1.10
968940--968993	9	6.2	9	75	16	51	53	0	1	44	1.11
968939--968983	17	2.7	16	86	6	63	55	0	2	42	1.12
968937--968991	20	2.7	21	83	5	60	54	0	1	43	1.10
969119--969459	135	2.5	135	88	3	490	26	21	16	34	1.95
970275--970428	64	2.4	64	80	9	163	35	20	17	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977182--977337	64	2.4	64	80	8	183	34	19	19	26	1.95
977715--977795	29	2.8	29	94	3	137	44	14	22	18	1.86
982526--982586	2	31.0	2	81	15	56	50	4	3	40	1.40
982873--982901	2	14.5	2	100	0	58	51	0	0	48	1.00
983504--983528	13	1.9	13	100	0	50	4	24	0	72	1.02
984877--984921	17	2.7	16	86	6	63	55	0	2	42	1.12
984875--984929	20	2.7	21	83	5	60	54	0	1	43	1.10
986344--986374	12	2.6	12	94	0	53	41	16	25	16	1.88
988799--989020	31	7.2	31	93	0	381	33	15	12	37	1.86
992044--992265	31	7.2	31	92	0	381	33	15	12	38	1.86
992115--992168	16	3.4	16	67	23	51	33	14	12	38	1.85
992773--992981	64	3.3	65	83	4	219	28	18	20	33	1.96
995352--995573	31	7.2	31	93	0	381	34	15	11	38	1.83
996083--996306	64	3.5	65	84	3	249	28	18	20	32	1.97
1002595--1002629	14	2.4	15	95	4	63	40	8	42	8	1.66
1007724--1007781	9	6.4	9	76	20	59	75	1	1	20	0.97
1007724--1007781	19	3.0	18	82	12	71	75	1	1	20	0.97
1007810--1007857	17	2.8	17	81	12	62	77	0	6	16	0.97
1007995--1008082	39	2.3	39	85	0	113	67	2	2	28	1.15
1008106--1008170	2	34.5	2	81	17	77	53	0	3	43	1.16
1008160--1008214	21	2.5	22	80	11	69	70	0	3	25	1.03
1008824--1008957	71	1.9	71	100	0	268	14	28	22	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010288--1010349	2	31.0	2	100	0	124	50	0	0	50	1.00
1027948--1027980	16	2.1	16	100	0	66	30	6	18	45	1.73
1035484--1035564	31	2.6	31	84	5	92	39	11	11	38	1.76
1037386--1037425	2	20.0	2	100	0	80	50	0	0	50	1.00
1043650--1043695	2	23.0	2	100	0	92	50	0	0	50	1.00
1055247--1055287	20	2.0	20	95	0	73	9	29	9	51	1.67
1068677--1068724	25	1.9	25	83	8	62	33	6	10	50	1.62
1068861--1068929	29	2.5	28	79	6	77	44	5	5	43	1.52
1071382--1071406	2	12.5	2	100	0	50	52	48	0	0	1.00
1074196--1074224	2	14.5	2	100	0	58	48	0	0	51	1.00
1079702--1079769	29	2.3	30	87	7	95	45	5	2	45	1.42
1079704--1079770	28	2.4	28	85	12	84	44	5	2	46	1.43
1079733--1079814	38	2.1	39	90	2	130	41	7	2	48	1.44
1079846--1079921	37	2.0	38	87	2	109	47	3	3	44	1.40
1079904--1079946	2	21.5	2	90	9	70	48	2	0	48	1.14
1097059--1097099	3	13.3	3	85	14	57	36	0	0	63	0.95
1098451--1098506	20	3.2	16	71	28	51	26	3	1	67	1.16
1100861--1100902	7	6.0	7	86	8	59	14	16	11	57	1.66
1100861--1100902	15	3.0	14	86	10	59	14	16	11	57	1.66
1104297--1104357	15	4.1	14	76	17	52	81	6	11	0	0.85
1104307--1104359	19	2.9	18	78	8	54	84	7	7	0	0.76
1104300--1104363	11	5.5	11	80	7	56	82	6	10	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106517--1107252	92	8.0	93	89	5	1049	29	13	20	35	1.91
1106517--1107252	186	4.0	185	90	4	1068	29	13	20	35	1.91
1107974--1108544	112	5.1	112	86	4	745	39	14	17	28	1.89
1108646--1108695	17	3.0	17	69	16	50	46	10	22	22	1.81
1108922--1108968	3	15.3	3	87	12	69	36	0	0	63	0.94
1108915--1108967	9	5.5	10	84	11	67	32	0	1	66	1.03
1116371--1116530	64	2.5	64	83	5	198	32	19	25	23	1.97
1119303--1119440	64	2.2	64	78	3	154	34	17	22	25	1.95
1119467--1119504	20	1.9	20	88	0	58	31	15	23	28	1.96
1123557--1123601	23	2.0	23	86	0	63	24	17	28	28	1.97
1138268--1138297	15	2.0	15	100	0	60	33	13	0	53	1.40
1138862--1138901	21	1.9	21	84	0	53	40	15	5	40	1.68
1139705--1139739	11	3.2	11	91	0	61	51	0	20	28	1.47
1140768--1140818	15	3.4	15	86	0	75	9	60	15	13	1.58
1149543--1149639	51	1.9	51	83	8	126	27	7	16	48	1.72
1149651--1149677	2	13.5	2	100	0	54	48	0	0	51	1.00
1155873--1156071	108	1.8	108	92	0	335	34	10	33	22	1.88
1156877--1156914	2	19.0	2	100	0	76	50	0	0	50	1.00
1158551--1158610	10	6.0	10	70	14	52	13	10	16	60	1.59
1158558--1158620	20	3.2	20	100	0	126	14	9	15	60	1.59
1159431--1159455	2	12.5	2	100	0	50	52	0	0	48	1.00
1159545--1159588	2	22.0	2	100	0	88	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)
1170023--1170083	26	2.3	26	100	0	122	31	14	42	11	1.81
1180366--1180849	222	2.2	220	91	4	783	43	8	8	40	1.65
1180842--1180871	15	2.0	15	100	0	60	53	6	6	33	1.53
1181143--1181189	20	2.4	19	89	10	76	55	10	17	17	1.69
1180931--1181403	181	2.6	182	90	1	700	43	14	16	26	1.86
1181315--1181370	20	2.8	19	84	7	76	55	10	16	17	1.69
1181333--1181375	20	2.3	19	88	11	63	51	11	16	20	1.75
1183591--1183634	21	2.1	21	91	0	70	40	11	31	15	1.83
1183668--1183733	33	2.0	33	90	0	105	28	0	48	22	1.51
1185525--1185573	19	2.6	19	93	0	80	30	2	10	57	1.43
1185692--1187062	199	6.9	199	95	0	2415	37	15	17	30	1.91
1188525--1188618	12	7.8	12	89	0	107	37	6	32	23	1.80
1188542--1188622	3	27.0	3	82	0	99	35	4	33	25	1.78
1188525--1188606	36	2.3	36	93	0	137	37	7	32	21	1.81
1188525--1188618	18	5.2	18	84	0	107	37	6	32	23	1.80
1189818--1189851	16	2.1	16	94	0	59	47	5	20	26	1.73
1190213--1190285	23	3.2	23	88	0	101	34	4	21	39	1.73
1190644--1190716	23	3.2	23	84	0	92	35	4	20	39	1.72
1190005--1191491	431	3.5	431	96	0	2755	41	7	11	39	1.70
1191075--1191147	23	3.2	23	88	0	101	34	4	21	39	1.73
1194445--1194517	23	3.2	23	88	0	101	34	4	21	39	1.73
1195729--1195769	2	20.5	2	100	0	82	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)
1205852--1205964	48	2.4	48	83	4	142	33	11	15	39	1.83
1206558--1206592	2	17.5	2	100	0	70	48	0	0	51	1.00
1213032--1213083	16	3.7	15	69	30	51	15	7	34	42	1.75
1213027--1213087	26	2.3	26	100	0	122	14	6	36	42	1.72
1213323--1213360	18	2.1	18	90	9	60	44	0	0	55	0.99
1214842--1214944	36	2.9	36	95	0	188	42	17	16	23	1.88
1222819--1222921	36	2.9	36	95	0	179	43	17	15	23	1.87
1224408--1224460	26	2.0	26	100	0	106	30	9	11	49	1.70
1229596--1229651	13	4.1	13	72	19	51	78	1	1	17	0.92
1229600--1229656	30	1.9	30	89	10	91	77	3	1	17	1.00

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