genome.fa.s1991.2.7.7.80.10.50.1000.6.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: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373627

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1445 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)
1021244--1021468	55	4.1	55	88	1	337	28	28	14	28	1.95
1021244--1021468	110	2.1	108	93	1	378	28	28	14	28	1.95
1021317--1022078	51	14.5	53	81	9	393	24	25	18	31	1.98
1021468--1022078	51	11.8	51	83	5	674	23	25	19	32	1.98
1022460--1022649	36	5.2	36	87	1	238	21	19	23	36	1.95
1027455--1027613	21	7.6	21	88	8	209	15	22	22	40	1.91
1032273--1032324	21	2.5	21	81	3	61	38	19	25	17	1.93
1032313--1032420	20	5.3	20	80	6	101	33	25	16	25	1.96
1032375--1032427	20	2.7	20	84	0	70	26	26	18	28	1.98
1032940--1032995	19	2.9	19	78	2	67	50	21	16	12	1.78
1033035--1033122	33	2.6	33	94	1	149	11	28	22	37	1.89
1033002--1033147	19	8.1	19	72	17	114	12	25	20	41	1.87
1034228--1034286	20	2.9	21	85	7	86	18	27	23	30	1.98
1034249--1034337	10	9.3	10	68	25	50	16	30	29	23	1.97
1034228--1034335	19	5.6	20	84	9	104	18	27	27	25	1.98
1034248--1034321	29	2.5	28	82	10	78	18	29	28	22	1.98
1034259--1034332	38	1.9	39	89	8	116	17	29	29	22	1.97
1034339--1034388	12	4.3	12	82	10	68	18	44	24	14	1.86
1038202--1038285	9	8.8	9	76	12	78	17	25	27	29	1.98
1038202--1038259	20	2.9	20	82	7	73	18	24	24	32	1.97
1038202--1038290	19	4.6	19	84	9	92	19	24	26	29	1.98
1038203--1038285	29	2.9	28	84	8	105	16	25	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038223--1038308	38	2.3	39	82	8	97	16	24	31	27	1.96
1038250--1038308	19	3.1	19	92	0	82	16	22	33	27	1.95
1038307--1038359	5	9.8	5	76	15	52	18	50	22	7	1.72
1038306--1038366	17	3.3	17	79	20	77	18	47	22	11	1.80
1038307--1038359	22	2.4	22	100	0	106	18	50	22	7	1.72
1041677--1041743	21	3.2	21	66	6	55	23	35	20	19	1.95
1041625--1041743	42	2.8	42	78	5	107	22	35	18	23	1.96
1043089--1043124	14	2.6	14	95	0	63	30	0	25	44	1.54
1043242--1043280	19	2.1	19	100	0	78	53	15	20	10	1.70
1043302--1043452	19	8.7	19	64	21	80	14	21	20	43	1.88
1043307--1043432	33	3.8	32	88	8	191	14	21	19	44	1.86
1043299--1043431	66	2.0	66	95	0	239	15	21	19	42	1.88
1046694--1046807	20	5.7	20	81	6	122	22	17	27	32	1.96
1046674--1046811	41	3.4	41	79	6	154	21	17	25	35	1.95
1046674--1046829	41	3.8	41	77	3	118	21	18	25	34	1.96
1046797--1046848	20	2.5	21	84	3	70	19	23	19	38	1.93
1047504--1047556	21	2.5	21	93	0	88	30	32	20	16	1.95
1047552--1047955	21	18.9	23	75	15	312	20	19	22	36	1.95
1047586--1047986	42	9.5	42	90	4	567	21	19	23	36	1.95
1048707--1048812	21	5.0	21	68	17	85	39	19	16	23	1.92
1048700--1048838	42	3.3	42	88	1	208	37	20	18	23	1.94
1049389--1049437	25	1.9	26	87	4	73	44	10	2	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049738--1049764	11	2.5	11	100	0	54	29	0	0	70	0.88
1050089--1050127	5	7.8	5	83	11	53	79	0	0	20	0.73
1050085--1050133	10	5.2	10	79	16	52	77	0	0	22	0.77
1053213--1053288	36	2.1	36	97	0	143	43	14	10	31	1.79
1055777--1055873	44	2.2	44	94	0	167	30	3	14	51	1.57
1056097--1056137	7	5.9	7	83	11	57	56	2	0	41	1.13
1059742--1059782	22	1.9	21	90	5	64	31	24	21	21	1.98
1059795--1059882	21	4.2	21	97	0	167	34	26	10	29	1.89
1068111--1068198	30	2.8	31	80	10	108	39	9	20	30	1.83
1068393--1068528	31	4.3	32	78	7	120	31	18	18	31	1.95
1069188--1069237	19	2.6	19	87	6	75	26	16	20	38	1.92
1070071--1070115	24	2.0	23	86	8	65	22	20	17	40	1.92
1070612--1070669	21	2.8	20	84	2	80	32	24	18	24	1.97
1070592--1070669	41	1.9	41	86	0	111	32	26	17	23	1.97
1070597--1070667	20	3.5	20	78	3	79	30	26	19	22	1.98
1071276--1071304	14	2.1	14	100	0	58	37	0	0	62	0.96
1071920--1071965	2	22.0	2	91	8	74	47	0	4	47	1.21
1071920--1071965	19	2.5	19	96	3	85	47	0	4	47	1.21
1073170--1073195	2	13.0	2	100	0	52	50	0	0	50	1.00
1074708--1074746	2	19.5	2	100	0	78	48	0	0	51	1.00
1077174--1077233	2	30.0	2	93	0	102	48	1	1	48	1.21
1077222--1077513	36	8.2	36	72	16	200	43	3	6	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077594--1077627	2	17.0	2	100	0	68	50	0	0	50	1.00
1078908--1078939	13	2.5	13	95	5	57	31	0	0	68	0.90
1078908--1078939	6	5.2	6	92	7	55	31	0	0	68	0.90
1079479--1079516	20	2.0	20	90	10	62	36	0	0	63	0.95
1080115--1080152	20	1.9	20	100	0	76	36	10	28	23	1.88
1080313--1080377	33	1.9	34	84	9	89	49	4	1	44	1.32
1082453--1082499	13	3.5	13	77	13	51	55	2	2	40	1.24
1083933--1084026	3	31.3	3	95	0	170	63	0	2	34	1.06
1084347--1085020	113	5.9	113	92	3	963	29	20	12	37	1.89
1085759--1086224	83	5.6	83	98	0	898	36	22	13	27	1.92
1087256--1087314	9	6.3	9	81	14	66	3	8	1	86	0.75
1087256--1087314	23	2.5	22	84	15	75	3	8	1	86	0.75
1097838--1097918	32	2.6	30	80	7	74	61	4	4	28	1.37
1098566--1098612	13	3.5	13	77	13	51	55	2	2	40	1.24
1100048--1100128	3	27.3	3	92	2	137	64	0	1	34	1.02
1104493--1104537	2	22.5	2	100	0	90	51	0	0	48	1.00
1105084--1105125	15	2.7	15	79	17	50	30	0	0	69	0.89
1106600--1106648	21	2.3	22	79	10	57	6	10	53	30	1.59
1106676--1106949	39	7.1	38	66	12	148	13	9	45	30	1.76
1106676--1106965	77	3.8	76	88	2	402	13	9	46	30	1.75
1106676--1106965	155	1.9	152	86	2	418	13	9	46	30	1.75
1106676--1106983	78	4.0	76	86	2	402	14	9	46	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107446--1107488	18	2.4	18	85	11	54	34	0	0	65	0.93
1107849--1107944	41	2.3	41	89	3	149	20	27	37	14	1.92
1107999--1108029	15	2.1	15	100	0	62	38	0	19	41	1.51
1112020--1112085	32	2.1	32	88	0	96	24	16	42	16	1.88
1113093--1113508	206	2.0	209	93	6	722	28	27	18	25	1.98
1113995--1114028	17	2.0	17	94	0	59	61	5	0	32	1.20
1118342--1118376	18	1.9	18	94	0	61	31	0	2	65	1.07
1121349--1121401	16	3.2	16	78	5	70	52	0	0	47	1.00
1123987--1124041	26	2.1	25	83	12	67	49	21	9	20	1.76
1124481--1124531	22	2.4	20	79	20	59	47	0	1	50	1.12
1129652--1129677	2	13.0	2	100	0	52	50	0	50	0	1.00
1132578--1132629	21	2.4	22	84	15	65	36	0	0	63	0.95
1133565--1133621	30	2.0	29	89	6	89	26	12	15	45	1.82
1134510--1134542	17	2.0	16	94	5	57	48	0	0	51	1.00
1138327--1138355	6	4.8	6	100	0	58	34	0	31	34	1.58
1140704--1140729	12	2.2	12	100	0	52	7	23	15	53	1.67
1140747--1140795	24	2.1	24	92	7	84	67	0	0	32	0.91
1140745--1140781	11	3.2	12	77	14	51	70	0	0	29	0.88
1142651--1142688	16	2.4	16	86	8	51	31	5	13	50	1.63
1143064--1143127	32	2.0	33	81	9	78	21	17	6	54	1.64
1162095--1162180	34	2.5	34	98	0	163	32	24	23	19	1.98
1162312--1162611	106	3.0	99	81	9	361	35	25	17	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162403--1162655	106	2.4	106	85	2	339	33	25	18	22	1.96
1168686--1168877	38	5.1	38	90	0	276	22	17	25	35	1.95
1169961--1170011	2	25.5	2	100	0	102	50	0	0	49	1.00
1175849--1175910	27	2.3	27	100	0	124	14	16	30	38	1.88
1175860--1175907	16	3.3	16	67	27	52	16	14	31	37	1.89
1176436--1176470	12	2.7	13	91	8	54	68	0	0	31	0.90
1176582--1176865	2	144.5	2	66	20	129	47	4	3	44	1.41
1176833--1177001	72	2.3	77	80	12	178	47	6	2	42	1.44
1176916--1176984	22	2.8	26	72	18	67	46	7	2	43	1.46
1176971--1177020	18	2.8	18	93	0	82	46	8	4	42	1.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13