genome.fa.s7880.2.7.7.80.10.50.1000.4.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: VEPZ01007880.1 Hibiscus syriacus cultivar Beakdansim tig00110258_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1382630

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 593 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)
886369--886433	28	2.3	28	92	5	105	27	6	18	47	1.72
886388--886561	68	2.6	68	90	2	264	30	11	13	44	1.79
886405--886585	68	2.7	66	88	4	229	31	12	11	44	1.77
887676--888045	40	8.8	40	70	14	217	23	31	18	26	1.98
887716--888124	129	3.2	129	95	1	714	23	30	18	26	1.98
887597--887916	169	1.9	169	93	1	552	24	30	19	25	1.98
888281--888320	3	13.3	3	89	10	64	30	0	0	70	0.88
888281--888328	9	5.4	8	79	20	51	29	0	2	68	1.01
888287--888332	22	2.1	22	88	8	67	32	0	2	65	1.05
888281--888328	19	2.6	17	87	9	69	29	0	2	68	1.01
888388--888463	25	3.0	25	90	3	125	35	17	15	31	1.91
890062--890105	22	2.1	21	87	8	63	29	2	18	50	1.59
895601--895639	3	12.7	3	94	5	69	35	0	0	64	0.94
898530--898579	13	3.5	13	76	23	55	18	44	24	14	1.86
898526--898585	18	3.2	18	83	7	75	18	45	21	15	1.86
901032--901147	24	4.8	24	86	6	146	25	16	19	38	1.92
906402--906476	38	2.0	36	82	10	89	48	4	0	48	1.20
908881--908938	27	2.1	27	87	0	80	31	20	13	34	1.92
911494--911563	23	3.0	23	89	0	95	27	27	22	22	1.99
911580--911797	103	2.1	103	94	0	391	37	23	11	26	1.90
912976--913020	21	2.1	21	87	0	63	15	24	28	31	1.96
914399--914436	18	2.2	18	85	4	51	50	10	7	31	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914970--915028	27	2.1	28	81	9	68	50	16	15	16	1.78
918149--918181	17	1.9	17	88	11	50	54	6	3	36	1.41
918421--918479	29	2.0	29	100	0	118	32	13	16	37	1.88
919948--919992	16	2.8	16	93	0	81	35	20	8	35	1.84
921515--921569	9	6.2	9	76	2	58	32	43	1	21	1.63
921527--921575	6	8.2	6	95	0	80	34	44	0	20	1.52
921520--921576	18	3.2	18	89	0	87	33	42	1	22	1.64
923229--923298	35	2.0	35	94	0	122	42	2	14	40	1.60
924119--924272	31	5.0	31	96	1	274	19	19	22	38	1.94
925051--925109	2	29.5	2	100	0	118	50	0	0	49	1.00
928312--928465	31	5.0	31	96	1	274	19	19	22	38	1.94
929097--929155	27	2.1	28	81	9	68	50	16	15	16	1.78
932034--932090	29	2.0	29	96	0	105	24	24	21	29	1.99
932295--932327	17	1.9	17	88	11	50	54	6	3	36	1.41
935625--935663	12	3.2	12	88	0	60	33	41	2	23	1.68
935632--935662	6	5.2	6	92	0	53	35	45	0	19	1.51
941785--941838	26	2.1	26	92	0	90	20	11	18	50	1.77
941970--942034	35	2.0	33	85	11	89	35	13	10	40	1.80
942828--942929	50	2.0	50	100	0	204	29	11	28	30	1.92
944871--944923	23	2.3	23	87	6	72	50	13	18	16	1.77
945161--945223	4	15.8	4	93	0	72	9	23	0	66	1.21
945161--945223	28	2.2	28	100	0	126	9	23	0	66	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
945950--946136	60	3.1	60	83	5	227	32	21	4	42	1.72
946272--946429	62	2.6	63	82	10	177	41	5	22	31	1.75
953832--953880	18	2.7	18	90	3	71	71	10	4	14	1.27
955287--955320	12	2.8	12	90	0	50	38	2	41	17	1.65
958126--958168	2	21.5	2	100	0	86	48	0	0	51	1.00
967272--967298	11	2.5	11	100	0	54	44	0	0	55	0.99
969399--969476	39	2.0	39	100	0	156	48	15	17	17	1.81
976476--976520	14	3.2	14	84	9	65	15	13	13	57	1.65
976499--976545	24	2.0	24	86	0	67	14	10	17	57	1.65
976480--976554	38	2.0	38	86	0	105	14	12	14	58	1.63
976484--976554	14	5.4	14	73	13	60	15	11	14	59	1.62
976466--976558	14	6.8	14	73	12	50	16	12	13	56	1.66
976761--976817	24	2.3	25	84	3	71	12	12	19	56	1.67
980399--980999	200	3.0	200	100	0	1202	31	27	13	27	1.94
981841--981977	60	2.3	59	78	10	136	32	18	16	32	1.93
990308--990333	2	13.0	2	100	0	52	50	0	50	0	1.00
994192--994243	27	1.9	27	96	0	95	38	5	26	28	1.79
996736--996776	18	2.3	18	86	0	55	19	43	7	29	1.78
996742--996825	30	2.7	30	88	5	123	16	40	11	30	1.85
996894--996935	6	7.0	6	91	0	57	26	50	4	19	1.67
997614--997779	33	5.0	33	94	0	278	25	13	31	29	1.94
1004928--1005231	154	2.0	148	81	8	346	34	10	7	47	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006823--1006884	2	34.5	2	74	20	57	45	0	0	54	0.99
1006822--1006909	9	9.7	9	76	13	56	40	0	0	59	0.98
1006837--1006921	34	2.5	34	98	0	161	40	0	0	60	0.97
1016411--1016445	5	7.0	5	100	0	70	0	40	20	40	1.52
1016623--1016661	15	2.6	15	91	0	60	20	12	25	41	1.88
1016906--1016942	19	1.9	19	89	10	58	40	0	8	51	1.32
1016864--1016977	60	1.9	60	85	3	158	37	6	11	44	1.65
1017762--1017800	20	2.0	20	89	0	60	23	38	0	38	1.55
1017771--1017800	10	3.0	10	100	0	60	20	40	0	40	1.52
1017839--1017884	8	5.8	8	82	12	51	30	0	0	69	0.89
1017839--1017884	17	2.9	16	76	20	51	30	0	0	69	0.89
1017838--1017889	16	3.2	16	76	12	54	28	0	0	71	0.87
1018830--1018914	37	2.3	37	97	0	161	43	5	14	36	1.69
1022000--1022164	90	1.8	89	81	3	206	38	10	14	36	1.80
1028091--1028132	20	2.1	20	86	8	59	54	21	7	16	1.65
1031407--1031471	31	2.1	31	88	5	96	46	0	1	52	1.10
1036409--1036470	2	31.0	2	100	0	124	50	0	0	50	1.00
1038904--1039022	61	2.0	60	86	5	168	38	11	15	34	1.84
1041322--1041433	53	2.1	53	82	8	131	47	4	8	39	1.55
1042885--1043009	48	2.6	48	81	5	144	18	0	58	22	1.44
1046838--1046962	48	2.6	48	81	5	144	18	0	58	22	1.44
1046934--1047112	99	1.8	98	82	1	232	16	5	48	29	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047088--1047785	48	14.6	47	70	10	326	18	4	48	28	1.67
1046890--1047330	96	4.5	96	73	11	315	18	4	49	27	1.66
1047276--1047487	93	2.3	90	83	8	248	19	3	48	28	1.65
1047509--1047871	194	1.9	190	83	5	471	17	4	48	29	1.68
1047876--1047995	36	3.5	36	68	17	101	20	7	42	29	1.79
1047846--1048003	66	2.4	66	89	3	232	20	6	43	29	1.78
1047885--1048255	102	3.5	103	81	11	367	19	7	43	28	1.79
1048059--1048246	36	5.4	35	76	7	161	18	7	46	28	1.75
1048311--1048429	36	3.3	36	76	2	123	23	7	40	28	1.82
1048123--1048393	150	1.8	150	84	1	373	19	7	43	28	1.78
1047945--1048455	252	2.0	248	81	5	587	20	8	42	27	1.82
1049450--1050456	99	10.2	99	91	1	1459	16	8	46	28	1.76
1050388--1050543	48	3.2	48	79	1	170	26	7	45	19	1.77
1050388--1050575	96	2.0	96	83	2	243	27	7	44	21	1.79
1051039--1051078	21	1.9	21	85	10	55	30	7	0	62	1.23
1052778--1054559	4	448.8	4	98	1	3455	49	25	0	24	1.51
1056972--1057021	23	2.2	22	82	3	55	38	22	14	26	1.91
1057713--1057772	2	30.0	2	100	0	120	50	0	0	50	1.00
1058135--1058213	21	3.8	21	74	1	70	51	24	0	24	1.48
1058148--1058203	14	4.0	15	73	19	50	51	19	0	28	1.47
1059014--1059067	26	2.0	27	92	7	92	27	16	25	29	1.97
1059424--1059481	2	29.0	2	100	0	116	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)
1062247--1062287	21	2.0	20	85	4	55	26	2	0	70	0.99
1063072--1063097	3	8.7	3	100	0	52	65	0	0	34	0.93
1068293--1068344	16	3.2	17	72	22	58	40	0	23	36	1.55
1072044--1072151	22	5.0	22	93	1	182	18	25	28	26	1.98
1081525--1081558	16	2.1	16	100	0	68	44	26	11	17	1.83
1083499--1083535	20	1.9	19	89	10	58	45	10	24	18	1.81
1087875--1087907	17	1.9	17	100	0	66	24	12	18	45	1.83
1105613--1105656	16	2.8	16	100	0	88	11	20	31	36	1.88
1106234--1106319	34	2.5	36	81	12	108	47	1	39	11	1.47
1115387--1115452	32	2.1	32	100	0	132	36	6	21	36	1.78

Tables:   1   2   3   4   5