genome.fa.s5189.2.7.7.80.10.50.1000.5.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: VEPZ01005189.1 Hibiscus syriacus cultivar Beakdansim tig00011718_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1183632

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 686 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)
863297--863423	60	2.1	60	85	2	175	40	14	11	33	1.82
865388--865584	41	4.8	41	80	3	191	27	17	19	35	1.94
865384--865584	82	2.5	82	87	4	273	27	18	18	34	1.95
868406--868448	17	2.5	17	81	14	52	51	0	0	48	1.00
868763--868819	28	2.0	29	86	3	80	42	0	5	52	1.24
870895--871100	74	2.7	74	83	5	254	23	31	24	20	1.98
876856--876916	23	2.9	19	81	11	59	21	36	26	16	1.94
878879--878930	9	6.4	8	75	20	54	13	0	26	59	1.34
878882--878925	17	2.6	17	85	7	63	13	0	29	56	1.38
879518--879726	75	2.8	75	85	5	262	23	32	23	20	1.98
881057--881084	3	9.3	3	100	0	56	0	0	32	67	0.91
881753--881782	6	5.0	6	100	0	60	66	0	0	33	0.92
888968--889023	26	2.2	26	86	0	76	58	12	10	17	1.61
890701--890905	49	4.2	48	80	7	218	49	8	21	20	1.74
894395--894436	12	3.6	12	77	6	50	28	4	21	45	1.72
894388--894421	4	8.5	4	86	0	50	29	2	20	47	1.65
894388--894469	24	3.6	23	77	12	71	25	12	21	40	1.88
894446--894475	14	2.1	14	100	0	60	20	13	30	36	1.90
907615--907673	18	3.5	17	76	19	61	55	1	1	40	1.20
908947--908988	3	14.3	3	80	14	52	61	0	0	38	0.96
909809--909899	29	3.2	28	72	16	96	36	24	1	38	1.63
909809--909933	59	2.1	58	85	4	171	32	24	4	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915121--915169	4	12.2	4	95	0	89	48	24	2	24	1.61
921894--921926	12	2.8	12	100	0	66	24	27	15	33	1.95
926101--926134	17	2.0	17	88	0	50	32	8	20	38	1.84
928771--928817	24	2.0	24	87	8	69	36	2	2	59	1.21
931301--931350	23	2.2	23	86	10	68	72	4	6	18	1.22
931301--931350	24	2.2	23	82	10	59	72	4	6	18	1.22
932075--932272	99	2.0	99	98	2	380	32	25	16	26	1.96
942241--942361	44	2.7	44	81	1	152	38	11	19	30	1.88
950603--950638	18	1.9	19	88	5	56	19	8	16	55	1.66
955497--955595	50	2.0	50	93	0	171	42	12	17	28	1.85
959307--959387	42	1.9	42	87	0	117	50	2	0	46	1.14
959340--959395	17	3.2	17	69	16	51	51	1	0	46	1.11
959355--959416	25	2.4	26	84	7	74	50	3	0	46	1.17
964485--964509	12	2.1	12	100	0	50	24	36	8	32	1.84
971269--971332	23	2.8	23	95	0	110	28	26	26	18	1.98
971348--971668	103	3.1	103	95	0	579	37	23	11	26	1.90
974150--974300	75	2.0	75	93	0	257	38	5	18	37	1.75
976456--976497	21	2.0	21	86	4	59	23	21	30	23	1.99
977381--977423	21	2.0	21	82	8	52	32	25	20	20	1.97
977921--977988	29	2.3	29	82	5	75	26	1	13	58	1.43
977921--977988	14	4.7	15	75	14	70	26	1	13	58	1.43
982436--982511	37	2.0	38	94	2	136	21	17	13	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982448--982526	37	2.1	37	85	0	104	22	17	15	44	1.86
985752--985828	34	2.2	33	80	17	86	32	0	3	63	1.12
985784--985860	32	2.4	31	79	14	86	37	0	1	61	1.05
985839--985869	16	1.9	16	93	0	53	38	0	3	58	1.15
987580--987627	21	2.3	21	85	0	60	25	39	12	22	1.89
987631--987721	21	4.5	21	85	10	118	19	34	25	20	1.97
987637--987713	39	2.0	39	87	5	111	20	35	22	22	1.96
988241--988337	33	2.9	34	85	3	133	55	4	3	37	1.35
988239--988344	34	3.2	33	82	8	133	54	4	2	37	1.36
988725--988953	128	1.8	126	94	1	404	32	20	25	21	1.98
989021--989061	8	5.2	8	82	5	57	36	29	0	34	1.58
992044--992081	13	3.0	13	88	3	60	44	0	0	55	0.99
993560--993584	11	2.3	11	100	0	50	16	0	8	76	1.02
994266--994404	20	6.8	20	72	14	97	41	20	20	17	1.90
994328--994417	20	4.4	20	81	8	110	37	25	20	16	1.93
995294--995326	6	5.5	6	100	0	66	0	15	51	33	1.43
995439--995633	20	9.4	20	76	14	155	15	21	24	37	1.93
995439--995714	40	6.8	40	76	13	208	15	20	23	40	1.90
995452--995637	63	3.0	62	81	8	209	16	22	23	38	1.93
995439--995637	42	4.8	41	84	6	199	15	21	24	38	1.92
995452--995714	20	12.9	20	76	11	153	15	20	22	40	1.91
1003527--1003554	14	2.0	14	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003857--1003902	11	4.4	11	78	10	51	71	6	0	21	1.08
1003868--1003916	20	2.5	20	83	6	64	69	6	4	20	1.27
1003959--1003986	7	4.0	7	100	0	56	71	0	0	28	0.86
1004884--1004916	17	1.9	17	88	11	50	42	0	0	57	0.98
1015050--1015090	22	2.0	21	85	9	57	24	24	24	26	2.00
1018203--1018424	31	7.2	31	92	0	381	32	17	13	37	1.88
1018930--1019109	64	2.8	64	85	1	200	25	20	22	32	1.98
1019885--1019915	16	1.9	16	100	0	62	32	6	19	41	1.77
1020168--1020273	31	3.4	31	79	11	108	30	16	19	33	1.95
1020214--1020293	31	2.6	31	83	0	97	27	16	25	31	1.96
1025337--1025385	16	3.0	17	70	11	57	10	16	34	38	1.82
1025337--1025416	32	2.5	33	89	2	117	15	16	28	40	1.88
1027884--1028068	60	3.1	58	76	12	180	38	5	23	32	1.77
1028600--1028742	77	1.9	77	85	2	198	28	21	7	41	1.81
1036178--1036241	21	3.0	21	90	0	101	35	34	10	18	1.86
1036384--1036470	31	2.8	32	83	1	104	41	8	6	43	1.61
1036389--1036478	32	2.8	32	84	1	110	41	7	6	44	1.59
1038574--1038634	31	2.0	31	96	0	113	52	8	9	29	1.63
1040536--1040749	109	2.0	110	85	0	295	39	11	19	29	1.87
1042287--1042334	23	2.2	23	88	7	73	47	8	14	29	1.73
1043928--1043981	26	2.0	28	89	7	85	48	24	12	14	1.79
1043939--1044074	31	4.5	30	74	8	100	38	31	13	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044163--1044201	15	2.7	14	84	4	51	35	25	17	20	1.95
1046238--1046266	11	2.6	11	100	0	58	6	10	58	24	1.55
1046287--1046352	33	2.0	34	82	11	84	36	33	9	21	1.85
1048098--1048227	36	3.6	36	82	0	161	28	41	5	24	1.77
1048291--1048479	36	5.6	35	69	16	98	26	46	5	22	1.73
1048070--1048445	72	5.2	71	70	15	229	28	41	6	23	1.80
1048331--1048479	65	2.3	66	90	1	228	28	47	4	19	1.69
1048447--1048575	48	2.7	49	84	3	163	28	46	3	20	1.68
1048594--1048643	24	2.1	24	84	0	64	32	44	2	22	1.64
1048785--1048960	48	3.7	47	74	14	162	25	46	3	25	1.68
1052692--1052743	17	3.2	17	75	10	54	50	13	3	32	1.60
1053604--1053644	2	20.5	2	100	0	82	48	0	0	51	1.00
1056392--1056436	23	1.9	23	86	4	63	71	8	6	13	1.31
1057064--1057293	59	3.8	59	87	4	298	31	14	28	24	1.95
1058491--1058521	2	15.5	2	100	0	62	51	0	48	0	1.00
1074282--1074343	21	3.0	21	73	0	70	33	24	16	25	1.95
1074330--1074523	20	9.6	20	81	5	221	35	25	19	19	1.95
1074330--1074524	60	3.2	60	82	0	246	35	25	19	18	1.95
1074906--1074976	33	2.2	33	92	0	115	11	22	18	47	1.80
1075056--1075165	21	5.8	20	74	17	108	45	18	24	11	1.83
1075049--1075165	41	3.1	38	81	14	145	46	17	25	11	1.81
1075116--1075172	14	3.7	14	75	20	60	43	22	24	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075108--1075187	33	2.4	33	95	0	142	46	22	22	8	1.79
1075184--1075297	19	6.1	19	76	13	103	11	24	17	46	1.81
1075214--1075297	41	2.1	41	88	2	125	11	25	15	47	1.79
1075213--1075295	20	4.2	20	81	6	114	13	24	15	46	1.81
1076995--1077556	93	6.1	93	98	0	1081	22	12	19	46	1.82
1077604--1077713	19	6.3	19	70	20	87	46	29	15	9	1.76
1077621--1077713	33	2.8	32	91	4	150	47	29	16	7	1.73
1077709--1077881	19	9.6	19	78	12	159	10	18	23	46	1.81
1077731--1077787	14	3.7	14	77	20	60	10	21	22	45	1.82
1077714--1077806	33	2.8	33	95	0	168	10	20	21	47	1.80

Tables:   1   2   3   4   5   6