genome.fa.s2.2.7.7.80.10.50.1000.4.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

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

This is table  4  of  10  ( 1119 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)
837511--837609	13	8.3	11	71	23	67	31	36	3	29	1.73
837523--837662	36	4.1	33	83	9	97	30	36	2	30	1.72
838005--838052	26	2.0	23	84	12	60	75	8	16	0	1.04
838253--838304	15	3.4	15	75	15	52	15	17	0	67	1.24
845550--845588	20	1.9	21	84	5	53	33	0	38	28	1.57
851385--851497	36	3.2	36	92	1	174	32	36	3	27	1.74
851385--851483	13	8.3	11	71	23	67	31	36	3	29	1.73
851397--851536	36	4.1	33	83	9	97	30	36	2	30	1.72
852127--852178	15	3.4	15	75	15	52	15	17	0	67	1.24
856844--856882	20	1.9	21	84	5	53	33	0	38	28	1.57
861068--861092	8	3.1	8	100	0	50	0	24	0	76	0.80
861066--861121	29	1.9	29	86	13	80	3	19	1	75	1.05
861066--861129	16	4.2	15	73	15	60	3	18	1	76	1.00
861054--861129	29	2.6	29	76	15	77	2	21	1	75	1.00
866936--866986	19	2.6	20	90	3	77	43	5	15	35	1.71
871130--871180	19	2.6	20	90	3	77	43	5	15	35	1.71
879854--879921	34	2.0	34	94	0	118	38	8	35	17	1.81
885768--885845	11	7.6	11	80	11	51	0	6	11	82	0.85
885789--885830	18	2.4	18	96	4	77	0	9	9	80	0.89
890521--890577	13	4.5	12	74	10	51	3	15	1	78	0.96
892188--892237	17	2.9	17	87	0	73	38	14	6	42	1.70
901964--902006	23	1.9	21	81	13	50	34	13	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
905306--905345	20	2.0	21	95	5	73	25	12	20	42	1.86
910492--910539	18	2.6	18	78	15	53	4	16	6	72	1.20
914768--914878	35	3.2	35	88	2	152	32	3	36	27	1.74
923531--923560	13	2.4	13	94	5	53	43	0	30	26	1.55
926677--926726	14	3.9	13	73	21	52	78	2	20	0	0.86
926671--926726	19	3.1	18	82	17	71	78	1	19	0	0.84
926671--926726	11	4.7	11	74	21	51	78	1	19	0	0.84
928169--928200	16	2.0	16	100	0	64	43	18	18	18	1.88
931275--931324	14	3.9	13	73	21	52	78	2	20	0	0.86
931269--931324	19	3.1	18	82	17	71	78	1	19	0	0.84
931269--931324	11	4.7	11	74	21	51	78	1	19	0	0.84
935860--935909	14	3.9	13	73	21	52	78	2	20	0	0.86
935854--935909	19	3.1	18	82	17	71	78	1	19	0	0.84
940445--940494	14	3.9	13	73	21	52	78	2	20	0	0.86
940439--940494	19	3.1	18	82	17	71	78	1	19	0	0.84
940439--940494	11	4.7	11	74	21	51	78	1	19	0	0.84
946987--947025	18	2.2	18	100	0	78	35	23	17	23	1.95
948495--948574	28	2.9	26	80	7	88	13	13	12	60	1.60
950387--950411	11	2.3	11	100	0	50	16	36	8	40	1.77
952530--952630	45	2.3	45	87	1	150	25	15	18	39	1.91
982313--982364	12	4.3	12	85	7	61	80	7	11	0	0.89
982320--982364	12	3.7	12	87	3	63	77	8	13	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988556--988598	13	3.4	13	96	3	79	41	0	30	27	1.56
994389--994816	207	2.1	207	100	0	856	24	18	24	32	1.97
995547--995576	2	15.5	2	93	6	53	50	0	0	50	1.00
997840--997898	11	4.9	11	74	25	57	1	15	3	79	0.94
1004350--1004391	14	3.2	13	87	9	59	78	4	16	0	0.91
1011151--1011195	19	2.3	20	88	3	65	53	6	6	33	1.53
1012029--1012077	20	2.4	21	89	3	73	48	14	14	22	1.79
1017733--1017765	8	4.1	8	100	0	66	0	24	0	75	0.80
1017736--1017771	16	2.2	16	90	0	54	2	19	2	75	1.06
1020949--1021063	60	1.9	60	94	0	203	38	12	20	29	1.88
1023908--1023951	21	2.1	21	83	8	54	50	2	11	36	1.51
1022536--1025623	811	3.8	815	84	4	3916	34	8	16	39	1.80
1025145--1026097	478	2.0	478	87	2	1367	32	8	16	42	1.78
1027196--1027240	23	1.9	24	86	4	65	20	40	20	20	1.92
1030880--1030953	5	15.8	5	71	18	61	1	20	2	75	1.00
1030877--1030948	11	6.5	11	73	13	58	1	20	2	75	1.01
1030877--1030912	16	2.2	17	85	14	58	0	22	0	77	0.76
1030887--1030953	8	7.9	8	74	22	57	1	20	2	74	1.03
1030888--1030953	16	3.8	17	79	16	66	1	21	3	74	1.04
1030873--1030946	27	2.7	27	83	12	80	1	22	2	72	1.04
1030904--1030955	17	2.9	18	81	18	65	1	19	5	73	1.14
1033544--1033587	22	2.0	22	100	0	88	36	13	0	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034398--1034435	15	2.5	15	83	8	51	55	0	23	21	1.44
1034962--1035004	19	2.2	20	87	4	61	48	6	9	34	1.62
1041707--1041753	18	2.6	18	100	0	94	31	21	29	17	1.96
1043456--1043621	51	3.3	51	94	1	280	49	12	3	34	1.56
1045189--1045283	48	2.0	47	91	2	154	30	16	18	33	1.94
1048454--1048967	143	3.6	141	83	8	600	30	20	10	38	1.87
1050899--1050977	30	2.7	30	80	7	81	39	13	3	43	1.63
1051413--1051446	17	2.1	16	88	5	50	64	0	20	14	1.28
1051523--1051557	2	17.5	2	100	0	70	48	0	0	51	1.00
1060007--1060067	20	3.0	19	76	9	59	27	34	24	13	1.93
1062515--1062558	23	2.0	23	81	4	54	50	11	2	36	1.51
1068479--1068540	23	2.7	23	94	0	106	22	32	24	20	1.98
1068459--1068561	23	4.8	21	76	12	75	25	32	24	18	1.97
1069245--1069284	21	1.9	21	84	0	53	32	35	2	30	1.71
1070506--1070550	17	2.6	17	85	3	54	20	0	24	55	1.43
1077097--1077842	370	2.0	369	96	1	1388	35	17	13	32	1.90
1093716--1093807	42	2.2	42	82	3	114	18	15	27	39	1.90
1093716--1093815	21	4.8	21	79	4	94	19	15	28	38	1.91
1094720--1094758	20	2.0	20	84	0	51	33	12	20	33	1.91
1097388--1097412	13	1.9	13	100	0	50	24	8	28	40	1.83
1101074--1101130	12	4.8	12	77	0	51	56	17	7	19	1.64
1101063--1101130	24	2.8	24	88	0	91	54	17	8	19	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105363--1105472	55	2.0	55	89	0	166	34	30	20	14	1.92
1105525--1105587	24	2.7	24	75	2	65	53	20	9	15	1.69
1113294--1113332	20	2.0	20	89	0	60	33	10	23	33	1.88
1118404--1118500	21	4.6	22	78	11	87	22	14	23	39	1.91
1119531--1119681	77	1.9	79	82	5	191	43	6	12	37	1.69
1120768--1120799	14	2.2	15	94	5	57	3	34	0	62	1.11
1132466--1132522	21	2.7	21	80	0	69	21	17	29	31	1.96
1132869--1132934	30	2.2	30	80	15	75	39	10	19	30	1.86
1135051--1135186	45	3.0	45	93	4	238	38	6	22	32	1.80
1135088--1135160	25	3.1	25	63	25	68	36	8	20	34	1.83
1135076--1135144	20	3.2	20	65	31	52	40	4	21	33	1.73
1135694--1135737	22	2.0	22	86	8	63	27	25	9	38	1.86
1136405--1136544	75	1.9	76	89	4	221	28	2	10	57	1.46
1136407--1136562	75	2.1	76	83	7	178	28	2	10	58	1.45
1137188--1137228	21	1.9	22	90	5	66	19	4	0	75	0.98
1142857--1142894	8	4.8	8	87	12	60	13	0	0	86	0.56
1142851--1142893	16	2.5	16	88	11	59	11	0	2	86	0.67
1144645--1144802	72	2.2	74	86	5	223	31	2	11	55	1.49
1144762--1144806	19	2.3	20	84	3	56	35	0	13	51	1.41
1144667--1144802	74	1.9	72	89	6	211	28	2	11	57	1.46
1144667--1144814	73	2.0	72	85	6	201	29	2	10	58	1.43
1145444--1145491	23	2.1	23	92	0	78	20	4	0	75	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146852--1146916	31	2.1	30	83	8	78	29	3	0	67	1.05
1172530--1172561	14	2.3	14	100	0	64	31	12	12	43	1.80
1172693--1172771	21	3.7	21	82	3	95	31	15	26	26	1.95
1193017--1193144	37	3.5	37	94	1	213	46	3	6	43	1.44
1193172--1193205	4	8.8	4	93	6	61	23	0	0	76	0.79
1198076--1198118	22	2.0	22	85	0	59	41	2	16	39	1.61
1198291--1198317	2	13.5	2	100	0	54	0	48	0	51	1.00
1199450--1199484	18	1.9	18	94	0	61	51	11	5	31	1.61
1199651--1199718	24	2.8	24	88	2	100	58	5	0	35	1.22
1208958--1209138	94	1.9	96	86	6	262	38	10	25	24	1.88

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