genome.fa.s8184.2.7.7.80.10.50.1000.5.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: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1549336

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 844 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)
874439--874479	18	2.3	18	86	0	55	31	19	29	19	1.96
890445--890476	15	2.1	15	100	0	64	28	12	9	50	1.71
895703--895733	16	1.9	16	100	0	62	48	19	6	25	1.72
898673--898768	49	2.0	49	100	0	192	34	18	16	30	1.93
901181--901211	16	1.9	16	100	0	62	48	19	6	25	1.72
901953--901990	6	6.3	6	96	0	67	18	0	34	47	1.49
904094--904200	54	2.0	54	86	0	151	43	4	14	37	1.66
922802--922872	2	36.0	2	97	2	135	49	0	0	50	1.00
930861--930951	45	2.0	47	86	4	132	41	6	3	48	1.45
931746--931826	22	3.6	22	68	18	60	46	0	1	51	1.08
931912--931956	23	2.0	23	86	0	63	53	2	2	42	1.25
933751--933829	29	2.7	29	82	0	86	29	22	10	37	1.87
933837--933947	51	2.2	51	80	4	127	19	26	30	23	1.98
934216--934249	9	3.9	9	84	7	52	35	0	2	61	1.11
934215--934253	17	2.4	17	95	4	71	33	0	5	61	1.18
937587--937641	21	2.6	21	91	0	83	21	25	23	29	1.99
938960--939002	20	2.2	20	87	8	61	76	0	6	16	0.99
940661--940688	10	2.8	10	100	0	56	0	7	0	92	0.37
947369--947408	19	2.1	19	85	4	53	57	15	5	22	1.57
947829--947932	23	4.6	23	84	9	133	35	16	23	25	1.95
947829--947937	44	2.4	47	87	7	154	34	16	22	26	1.95
947807--947932	23	5.7	23	80	11	129	34	15	25	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951752--951791	21	1.9	21	89	0	62	30	10	7	52	1.62
953677--953751	22	3.8	20	80	15	75	22	18	32	26	1.97
957483--957545	29	2.1	29	82	2	72	26	14	30	28	1.95
958061--958108	2	25.0	2	91	8	82	47	0	0	52	1.00
958156--958181	12	2.2	12	100	0	52	46	23	7	23	1.78
959197--959225	13	2.2	13	100	0	58	17	44	24	13	1.85
960513--960547	18	2.0	18	88	5	54	54	0	20	25	1.45
961631--961746	48	2.4	48	87	5	155	25	15	18	40	1.90
961631--961746	24	4.8	24	83	6	137	25	15	18	40	1.90
961683--961756	24	3.1	24	84	3	87	22	14	18	43	1.87
972676--972734	31	1.9	31	89	0	91	33	23	10	32	1.88
977199--977289	33	2.8	33	94	0	164	32	19	16	30	1.94
986337--986365	15	1.9	15	100	0	58	55	6	0	37	1.27
987442--988405	487	2.0	487	98	0	1858	32	10	22	34	1.88
990278--990318	21	1.9	22	85	5	57	29	21	2	46	1.64
1000469--1000543	30	2.6	28	73	10	69	36	17	4	42	1.68
1001034--1001097	27	2.4	27	97	0	119	21	15	23	39	1.92
1001066--1001107	21	1.9	23	85	9	61	23	14	23	38	1.92
1001039--1001107	27	2.9	22	71	22	59	23	14	23	39	1.91
1001064--1001112	21	2.3	22	79	10	57	24	14	24	36	1.93
1002152--1002434	2	143.5	2	67	20	116	46	4	6	42	1.49
1002169--1002227	19	3.2	19	75	15	70	49	3	8	38	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002151--1002392	15	14.9	17	70	17	85	48	4	5	42	1.45
1002319--1002387	7	9.2	8	81	12	69	52	1	7	39	1.38
1005581--1005845	2	134.0	2	67	18	92	46	5	6	41	1.52
1005604--1005662	17	3.4	17	81	9	82	49	1	6	42	1.39
1005604--1005663	19	3.3	19	75	17	72	48	1	6	43	1.39
1006093--1006147	21	2.6	21	85	0	74	20	25	18	36	1.94
1006135--1006281	20	7.3	20	86	3	206	36	20	19	23	1.95
1006135--1006302	60	2.8	59	80	13	191	35	20	19	23	1.96
1007144--1007197	24	2.2	24	93	0	90	20	18	20	40	1.91
1009586--1009679	20	4.7	20	85	2	127	34	22	22	21	1.97
1009586--1009677	40	2.3	40	90	3	150	34	21	21	21	1.97
1009682--1009726	16	2.6	17	83	13	65	42	20	20	17	1.90
1009651--1009762	47	2.3	47	78	17	113	42	20	20	16	1.89
1009773--1009846	33	2.2	34	87	2	105	14	21	16	47	1.82
1009948--1009984	14	2.6	14	95	0	65	51	21	0	27	1.48
1011329--1011439	42	2.6	42	78	7	125	24	17	37	20	1.93
1011919--1011968	20	2.4	21	93	3	84	42	26	18	14	1.87
1011944--1012033	33	2.7	34	77	3	101	47	23	16	12	1.80
1012007--1012055	20	2.5	20	82	0	62	36	24	18	20	1.94
1012100--1012204	20	5.5	20	79	19	134	19	19	20	40	1.91
1012165--1012192	13	2.2	13	100	0	56	21	17	17	42	1.89
1014082--1014151	20	3.5	20	90	0	86	41	25	17	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1014164--1014208	20	2.3	20	84	3	56	37	17	20	24	1.93
1014176--1014227	20	2.6	20	90	0	77	21	21	23	34	1.97
1014821--1014882	20	3.1	20	95	0	115	24	20	19	35	1.96
1015543--1015573	10	2.9	11	90	9	55	45	0	0	54	0.99
1015821--1015862	19	2.2	19	83	8	50	50	21	0	28	1.49
1016015--1016051	16	2.3	16	90	0	56	29	13	29	27	1.94
1020748--1020821	22	3.5	22	85	8	93	25	28	22	22	1.99
1027155--1027277	64	1.9	64	85	6	169	25	19	20	34	1.96
1030523--1030577	22	2.5	22	90	0	83	23	21	21	32	1.98
1033565--1033598	15	2.3	15	89	0	50	47	11	11	29	1.76
1038067--1038737	326	2.0	333	93	4	1175	45	16	12	25	1.83
1047758--1047834	39	2.0	40	83	11	101	46	0	2	50	1.15
1048778--1048826	6	7.3	7	81	11	50	44	0	2	53	1.12
1048772--1048837	25	2.4	28	85	14	84	48	0	1	50	1.10
1049122--1049194	36	2.0	36	94	0	128	50	1	2	45	1.24
1049545--1049748	101	2.0	101	100	0	408	52	10	9	26	1.67
1051510--1051543	18	1.9	18	88	5	52	35	8	23	32	1.86
1052697--1052733	18	2.0	19	89	5	58	51	5	0	43	1.24
1052701--1052741	21	2.0	21	90	0	64	51	4	0	43	1.23
1057983--1058071	45	2.0	45	97	0	169	25	13	25	34	1.93
1061435--1061472	2	19.0	2	100	0	76	50	0	0	50	1.00
1065033--1065098	20	3.0	23	82	8	75	28	24	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065496--1065526	16	1.9	16	100	0	62	35	19	0	45	1.51
1068275--1068320	23	2.0	23	91	0	74	28	26	23	21	1.99
1068300--1068599	149	2.0	147	98	1	573	36	21	15	27	1.93
1069162--1069199	19	2.0	20	94	5	69	26	28	15	28	1.96
1075288--1075589	149	2.0	149	98	0	577	36	21	15	27	1.93
1076044--1076178	19	6.8	19	76	15	85	25	25	18	31	1.98
1076044--1076240	101	2.0	101	82	4	245	26	22	17	32	1.96
1088261--1088291	16	1.9	16	93	0	53	35	16	0	48	1.46
1088680--1088737	20	2.7	20	86	10	71	27	20	20	31	1.98
1088725--1088877	64	2.4	63	80	6	157	26	23	18	32	1.97
1090433--1090490	2	29.0	2	100	0	116	50	0	0	50	1.00
1096369--1096411	21	2.2	19	83	8	50	46	16	6	30	1.73
1098506--1098581	31	2.4	32	75	20	72	68	1	3	26	1.15
1098920--1098990	33	2.2	33	87	5	99	26	8	22	42	1.82
1099040--1099089	3	16.7	3	91	8	84	68	2	0	30	1.01
1099470--1100598	84	13.7	82	79	4	997	24	18	24	31	1.98
1099451--1100594	165	6.9	164	84	3	1298	24	18	24	31	1.98
1101819--1101999	32	5.7	32	90	0	292	32	19	17	30	1.95
1101791--1102018	96	2.4	95	85	6	309	32	18	17	31	1.94
1101791--1102019	32	7.2	32	84	6	263	32	18	17	31	1.94
1101791--1102019	64	3.6	64	84	6	290	32	18	17	31	1.94
1106005--1106047	21	2.0	21	90	0	68	27	25	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106722--1106878	33	4.9	32	77	9	126	31	19	19	29	1.96
1106772--1106877	33	3.3	32	88	6	144	33	19	18	28	1.96
1112109--1112189	37	2.1	40	84	11	107	69	1	4	24	1.16
1112538--1112605	32	2.1	33	94	2	120	29	10	17	42	1.82
1112656--1112712	8	7.9	7	94	5	64	56	0	0	43	0.99
1112669--1112712	2	22.5	2	95	4	81	52	0	0	47	1.00
1112657--1112716	10	6.4	9	90	9	70	56	0	0	43	0.99
1113415--1113687	21	13.2	21	73	10	185	32	21	21	24	1.98
1113429--1113652	41	5.5	41	89	3	328	33	20	21	25	1.97
1113456--1113652	81	2.4	82	93	2	326	34	19	21	24	1.97

Tables:   1   2   3   4   5   6   7   8