genome.fa.s2616.2.7.7.80.10.50.1000.6.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: VEPZ01002616.1 Hibiscus syriacus cultivar Beakdansim tig00005294_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1287628

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 819 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)
931158--931201	16	2.8	16	78	0	52	27	4	2	65	1.23
934385--934428	17	2.6	17	92	0	70	18	0	13	68	1.22
937520--937910	196	2.0	196	96	1	721	22	18	18	40	1.92
948153--948196	18	2.4	18	96	0	79	45	11	4	38	1.61
949985--950083	30	3.3	31	69	17	75	58	9	15	17	1.62
951638--951664	3	9.0	3	100	0	54	66	0	0	33	0.92
952214--952255	20	2.0	21	86	4	59	35	0	0	64	0.94
952580--952641	2	31.0	2	100	0	124	50	0	0	50	1.00
952995--953028	2	17.5	2	93	6	61	50	0	0	50	1.00
953011--953107	38	2.6	37	80	4	106	43	6	9	41	1.62
953055--953232	75	2.4	74	82	10	202	44	5	7	42	1.55
953053--953278	38	6.2	36	71	20	141	44	5	6	43	1.53
953210--953369	31	5.2	31	79	11	152	42	6	5	46	1.51
953206--953322	29	3.9	29	82	9	130	42	5	5	46	1.50
953440--953491	15	3.3	15	78	13	52	26	1	0	71	0.97
953440--953499	30	1.9	31	83	16	79	23	3	1	71	1.10
954439--954478	2	20.0	2	100	0	80	50	0	0	50	1.00
962962--963042	33	2.5	33	91	0	135	48	9	13	28	1.74
971121--971169	10	5.1	10	85	14	68	61	0	0	38	0.96
971536--971909	96	3.9	96	90	2	556	22	22	14	40	1.90
971536--971902	191	1.9	192	89	3	571	22	22	14	40	1.90
972000--972068	20	3.5	20	90	5	104	33	23	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977213--977239	2	13.5	2	100	0	54	48	0	0	51	1.00
977293--977369	2	38.5	2	100	0	154	50	0	0	49	1.00
984906--984950	20	2.1	22	88	8	67	26	4	2	66	1.22
985064--985089	6	4.3	6	100	0	52	46	0	0	53	1.00
988813--990327	106	14.2	106	91	2	2425	33	24	17	23	1.96
988849--990754	212	9.2	212	89	4	2814	33	24	18	22	1.97
988813--990754	318	6.2	318	88	4	2794	33	24	18	23	1.96
990230--990379	43	3.5	42	69	18	128	35	24	20	20	1.96
990275--990416	45	3.2	45	64	18	116	34	24	19	21	1.96
990231--990610	88	4.1	89	79	10	361	34	24	19	21	1.96
990119--990709	106	6.0	94	80	11	514	34	24	19	21	1.96
990407--990755	106	3.3	104	86	4	438	34	24	19	22	1.96
990925--991196	84	3.2	84	80	3	332	31	26	17	23	1.97
992621--992665	20	2.1	22	92	8	76	28	4	0	66	1.11
992777--992802	6	4.3	6	100	0	52	46	0	0	53	1.00
993510--993543	12	2.8	12	90	4	50	50	2	0	47	1.16
993506--993573	15	4.2	16	83	11	61	52	1	0	45	1.09
993506--993604	14	7.8	12	81	13	78	52	1	1	45	1.14
993535--993603	2	35.5	2	91	5	115	52	0	1	46	1.09
998447--998493	3	15.7	3	95	0	85	0	36	0	63	0.94
1004686--1004763	20	3.9	20	90	6	122	26	23	25	24	2.00
1005430--1005470	22	1.9	22	85	5	57	24	24	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005497--1005558	10	5.7	11	75	21	51	24	14	12	48	1.79
1005507--1005557	22	2.3	22	83	6	59	23	13	13	49	1.78
1010082--1010155	23	3.4	23	72	9	66	51	17	16	14	1.77
1012723--1012759	7	5.3	7	96	0	65	13	0	10	75	1.04
1017408--1017485	31	2.5	31	87	0	102	25	25	10	38	1.87
1017652--1017723	2	36.5	2	97	2	137	50	0	0	50	1.00
1019416--1019493	31	2.5	31	80	0	84	24	26	12	35	1.92
1022322--1022370	21	2.2	23	78	7	57	40	2	4	53	1.32
1031330--1031458	59	2.2	59	100	0	258	28	24	18	27	1.98
1034637--1034689	23	2.4	21	79	14	63	35	0	0	64	0.94
1036810--1036835	6	4.3	6	100	0	52	19	0	0	80	0.71
1037479--1037509	16	1.9	16	100	0	62	12	45	3	38	1.59
1037477--1037511	18	1.9	18	94	0	61	14	45	2	37	1.59
1041426--1041458	14	2.3	15	94	5	59	21	6	0	72	1.05
1044400--1044569	82	2.1	82	94	3	297	50	17	6	25	1.70
1053851--1053893	20	2.2	20	86	0	59	44	9	23	23	1.82
1056546--1056579	16	2.1	16	100	0	68	55	32	11	0	1.36
1069970--1069994	1	25.0	1	100	0	50	0	0	0	100	0.00
1072043--1072084	21	2.0	21	100	0	84	47	4	14	33	1.65
1084821--1084926	45	2.4	45	84	6	135	34	18	16	29	1.94
1084868--1085009	64	2.2	64	82	8	173	33	21	19	25	1.97
1085759--1085981	103	2.2	103	99	0	437	25	13	24	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085993--1086055	23	2.7	23	95	0	108	17	30	26	25	1.97
1090546--1090651	45	2.4	45	84	6	135	34	18	16	29	1.94
1090593--1090734	64	2.2	64	82	8	173	33	21	19	25	1.97
1091486--1091708	103	2.2	103	99	0	437	25	12	25	36	1.91
1091720--1091782	23	2.7	23	82	0	72	20	26	25	26	1.99
1095186--1095244	30	2.0	29	83	3	73	37	6	22	33	1.80
1095475--1095565	23	4.0	23	88	0	119	17	25	24	32	1.97
1100718--1100808	23	4.0	23	85	0	110	18	25	23	32	1.97
1101160--1101205	2	22.5	2	95	4	83	47	0	2	50	1.13
1103607--1103844	119	2.0	119	100	0	476	34	13	12	39	1.82
1105270--1105305	6	5.7	6	90	9	54	63	22	0	13	1.29
1105270--1105302	13	2.5	13	100	0	66	60	24	0	15	1.35
1120683--1120792	47	2.3	47	98	0	211	37	10	14	38	1.80
1124740--1125208	234	2.0	234	100	0	938	42	20	11	26	1.85
1131535--1131606	30	2.5	29	81	4	83	41	22	9	26	1.84
1132170--1132318	70	2.1	69	81	3	174	35	8	14	41	1.76
1132335--1132694	138	2.6	138	89	2	524	43	12	9	34	1.75
1132577--1132640	29	2.2	29	85	0	83	50	7	6	35	1.57
1133255--1133317	30	2.1	29	91	2	99	23	7	30	38	1.84
1133263--1133328	29	2.2	30	83	2	80	28	9	24	37	1.86
1134007--1134081	35	2.1	35	92	0	123	33	29	28	9	1.88
1134159--1134233	24	3.2	23	84	5	105	36	21	17	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134163--1134248	23	3.7	23	84	3	109	38	19	17	24	1.93
1134142--1134255	47	2.4	47	80	2	131	40	20	14	24	1.90
1135387--1135422	18	2.0	18	88	0	54	30	16	0	52	1.44
1136759--1136804	13	3.5	13	87	0	65	19	19	43	17	1.88
1137595--1137658	2	32.0	2	100	0	128	50	0	0	50	1.00
1137872--1137900	2	14.5	2	100	0	58	48	0	0	51	1.00
1137625--1138119	246	2.0	247	96	0	911	40	8	8	42	1.66
1141199--1141230	2	16.0	2	100	0	64	50	0	0	50	1.00
1143402--1143479	3	26.3	3	86	2	86	43	0	0	56	0.99
1144100--1144125	3	8.7	3	100	0	52	30	0	0	69	0.89
1146243--1146284	22	1.9	22	95	0	75	26	23	30	19	1.98
1151291--1151320	13	2.3	13	100	0	60	40	0	30	30	1.57
1156996--1157058	31	2.0	31	93	0	108	53	0	19	26	1.45
1158874--1158908	3	11.7	3	88	11	54	62	0	0	37	0.95
1159098--1159691	55	10.9	55	86	3	720	30	23	14	31	1.95
1159098--1159674	218	2.6	217	84	3	725	29	23	14	31	1.95
1159187--1159687	273	1.8	273	93	0	860	29	23	14	31	1.94
1160219--1160325	42	2.6	41	78	1	115	29	20	21	28	1.98
1160199--1161559	217	6.3	215	90	2	2031	32	18	15	33	1.93
1160656--1160756	42	2.4	41	78	4	96	33	21	19	24	1.97
1161082--1161182	42	2.4	41	77	6	105	33	22	21	21	1.97
1161303--1161400	42	2.4	40	76	8	106	30	23	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161546--1161774	36	6.3	36	81	4	246	23	18	20	36	1.95
1170335--1170397	31	2.0	31	93	0	108	53	0	19	26	1.45
1172210--1172244	18	1.9	18	88	0	52	54	0	0	45	0.99
1172195--1172243	24	2.0	24	84	0	62	51	0	4	44	1.20
1173654--1174079	40	10.7	40	90	0	622	30	16	11	41	1.84
1173738--1173846	23	5.3	23	62	28	64	33	13	11	41	1.81
1174066--1174116	22	2.4	22	96	3	95	27	25	9	37	1.87
1174155--1174217	21	3.3	20	69	26	64	25	23	11	39	1.88
1174178--1174346	66	2.6	64	82	8	207	27	20	13	38	1.90
1174087--1174308	102	2.2	101	88	3	320	28	20	13	37	1.90

Tables:   1   2   3   4   5   6   7