genome.fa.s8662.2.7.7.80.10.50.1000.5.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: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1703488

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 848 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)
994561--994642	21	3.9	21	88	0	110	25	17	26	30	1.97
996462--996524	20	2.9	22	81	15	78	31	17	22	28	1.96
997327--997375	23	2.1	23	96	0	89	18	18	28	34	1.94
997337--997396	23	2.5	23	84	10	68	28	16	20	35	1.94
1000728--1000773	24	2.1	20	84	15	56	32	17	23	26	1.97
1001097--1001137	13	3.2	13	80	13	50	34	0	19	46	1.50
1001593--1001662	23	3.0	23	89	4	104	22	21	22	32	1.98
1006444--1006477	16	2.1	16	88	0	50	64	5	14	14	1.46
1009278--1009311	17	2.0	17	88	0	50	73	2	0	23	0.97
1009891--1010115	76	3.1	76	78	10	227	55	12	1	30	1.46
1015029--1015062	18	1.9	18	94	5	61	20	29	17	32	1.96
1015868--1015950	3	29.3	3	81	11	104	63	0	34	1	1.02
1015868--1015955	11	8.1	11	85	7	108	63	0	34	2	1.07
1017407--1017448	18	2.4	18	85	14	54	40	19	2	38	1.64
1018550--1018595	24	1.9	24	95	0	83	34	4	19	41	1.71
1019251--1019315	31	2.1	31	85	5	87	27	9	7	55	1.59
1020637--1020669	17	1.9	17	88	11	50	60	0	6	33	1.21
1020746--1020783	18	2.2	18	90	4	60	39	7	0	52	1.31
1022646--1022706	32	1.9	32	96	0	113	8	18	21	52	1.71
1027303--1027363	32	1.9	32	100	0	122	6	16	22	54	1.65
1028027--1028072	2	23.0	2	100	0	92	50	0	0	50	1.00
1028304--1028328	7	3.6	7	100	0	50	16	0	44	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029386--1029439	12	4.7	12	73	13	51	38	0	1	59	1.08
1029421--1029459	12	3.2	12	88	3	51	35	2	0	61	1.10
1031829--1031942	8	15.6	7	67	21	56	74	3	1	20	1.05
1031832--1031897	26	2.6	26	75	17	68	72	3	1	22	1.06
1031855--1031942	13	6.7	13	71	14	56	76	3	2	18	1.04
1031863--1031927	21	3.3	21	75	20	86	73	4	3	18	1.13
1031828--1031942	16	7.1	16	69	16	67	73	3	1	20	1.06
1031855--1031939	37	2.3	36	93	4	143	76	3	2	17	1.04
1031881--1032006	53	2.4	54	75	15	129	72	2	2	23	1.08
1031999--1032047	17	2.6	19	81	15	57	71	2	10	16	1.22
1031976--1032023	23	2.0	23	84	4	60	77	0	4	18	0.93
1031999--1032044	18	2.6	18	86	6	58	71	2	10	15	1.23
1033149--1033269	34	3.7	31	70	18	102	43	5	4	46	1.46
1033174--1033428	35	7.1	34	83	11	232	45	5	4	44	1.47
1033391--1033452	26	2.5	25	87	7	90	45	4	3	46	1.40
1033566--1033629	2	32.5	2	96	3	121	51	0	0	48	1.00
1034275--1035270	84	12.0	84	77	5	957	24	18	24	31	1.97
1034196--1035270	249	4.3	248	89	1	1474	24	18	24	31	1.98
1040338--1040387	5	10.4	5	87	8	61	80	2	0	18	0.82
1040496--1040522	2	13.5	2	100	0	54	51	0	0	48	1.00
1040638--1040664	2	13.5	2	100	0	54	48	0	0	51	1.00
1040684--1040717	13	2.6	13	85	0	50	76	0	5	17	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040684--1040742	31	1.9	31	86	6	84	72	1	8	16	1.17
1041916--1042233	37	9.1	35	80	11	246	45	5	3	45	1.43
1041917--1042233	36	9.1	36	79	12	313	45	5	3	46	1.43
1042108--1042233	63	2.0	64	88	1	191	47	6	3	42	1.44
1042144--1042198	27	2.0	27	92	0	92	49	5	3	41	1.43
1042287--1042316	2	15.0	2	100	0	60	50	0	0	50	1.00
1042035--1042308	136	2.0	134	80	10	297	46	5	3	44	1.43
1042979--1043152	91	1.9	91	96	0	321	39	20	24	16	1.92
1043235--1043285	17	2.7	20	88	8	72	47	3	0	49	1.20
1043367--1043425	28	2.1	28	93	0	100	42	10	10	37	1.73
1043428--1043606	92	1.9	94	83	2	236	40	10	10	37	1.75
1043587--1043645	29	2.0	29	96	0	109	45	11	10	32	1.74
1044141--1044171	15	2.1	15	100	0	62	12	12	45	29	1.80
1044229--1044629	199	2.0	199	94	0	703	40	11	12	34	1.79
1044604--1044677	30	2.5	30	100	0	148	29	9	24	36	1.87
1049680--1049767	39	2.4	37	76	5	88	32	13	13	39	1.84
1049735--1050073	66	5.1	66	78	7	298	30	11	15	41	1.83
1050171--1050665	134	3.7	134	88	0	765	26	32	17	23	1.97
1050855--1050911	3	18.7	3	76	16	55	38	0	0	61	0.96
1050852--1050911	16	3.6	17	76	14	54	41	0	0	58	0.98
1050872--1050922	16	3.0	16	72	25	50	35	0	0	64	0.94
1050855--1050922	35	1.9	36	87	3	102	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052783--1052825	5	8.8	5	87	5	52	16	2	4	76	1.05
1059361--1059401	20	2.0	20	85	0	55	41	4	21	31	1.74
1060698--1060895	99	2.0	98	82	8	242	45	7	7	39	1.60
1062049--1062198	35	4.1	35	76	18	130	70	2	8	18	1.24
1062031--1062190	75	2.2	71	79	10	164	71	3	8	16	1.23
1062011--1062192	39	4.7	38	67	22	96	71	3	8	16	1.23
1064183--1065047	84	10.5	83	82	4	904	23	19	24	32	1.98
1064195--1065047	168	5.2	163	84	3	1029	23	20	24	32	1.98
1066164--1066424	94	2.7	94	87	7	341	31	17	18	32	1.94
1069019--1069215	5	36.8	5	67	19	62	72	3	6	17	1.20
1069014--1069074	27	2.3	26	81	18	72	75	1	4	18	1.06
1069120--1069152	11	2.9	12	86	13	52	78	0	0	21	0.75
1069126--1069215	37	2.4	37	83	5	119	74	2	7	15	1.14
1069182--1069251	25	2.7	25	84	8	88	71	4	10	14	1.27
1069068--1069235	18	8.6	20	66	18	54	72	4	7	16	1.22
1069178--1069262	24	3.4	24	77	22	77	74	3	8	14	1.19
1070585--1070617	6	5.5	6	100	0	66	0	81	0	18	0.68
1071867--1071946	23	3.4	23	81	13	65	42	5	0	52	1.23
1071878--1071946	25	2.9	23	85	14	95	42	4	0	53	1.20
1072122--1072193	26	2.8	26	89	0	117	55	4	11	29	1.53
1073014--1073468	182	2.5	181	89	3	691	42	13	16	27	1.85
1075542--1075570	15	1.9	15	100	0	58	24	6	55	13	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075655--1075698	21	2.1	21	91	0	70	43	11	31	13	1.80
1075718--1075747	15	1.9	16	93	6	53	50	3	33	13	1.58
1076608--1076680	12	5.8	12	75	9	56	41	8	32	17	1.79
1076616--1076647	15	2.1	15	94	0	55	46	3	34	15	1.62
1077887--1078145	127	2.0	128	84	0	340	42	13	13	30	1.83
1078029--1078752	200	3.8	179	78	12	750	37	13	16	32	1.88
1078208--1078752	200	2.7	200	93	0	919	37	13	15	33	1.87
1079532--1079561	15	2.0	15	100	0	60	40	20	20	20	1.92
1079908--1080328	211	2.0	211	99	0	824	35	23	12	28	1.91
1080565--1080598	17	2.0	17	88	0	50	29	0	23	47	1.52
1083016--1083718	198	3.5	197	84	5	860	40	14	15	29	1.87
1085062--1085123	29	2.1	31	87	6	92	50	16	11	22	1.76
1085322--1085370	23	2.1	23	100	0	98	53	18	20	8	1.70
1088816--1089525	361	2.0	353	88	3	1064	25	19	18	36	1.94
1091345--1091542	21	9.5	21	83	7	217	32	22	21	23	1.98
1091345--1091503	63	2.5	63	94	0	282	31	23	22	22	1.98
1092276--1092396	21	5.7	22	69	16	94	38	21	18	22	1.94
1092269--1092412	42	3.4	42	87	0	216	37	21	18	22	1.94
1092269--1092412	21	6.9	19	69	17	90	37	21	18	22	1.94
1093487--1093557	24	2.9	23	78	14	61	39	2	2	54	1.29
1093494--1093581	27	3.3	27	79	4	81	38	2	2	56	1.24
1093715--1093789	31	2.4	31	90	0	105	48	12	8	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103244--1103380	39	3.5	39	87	2	177	21	31	24	23	1.98
1103270--1103396	39	3.3	39	88	0	137	22	31	21	25	1.98
1103244--1103396	78	2.0	78	81	5	184	22	31	22	24	1.98
1112093--1112147	22	2.5	22	78	0	65	30	9	21	38	1.85
1113415--1113450	17	2.2	16	90	9	56	61	5	5	27	1.41
1115219--1115255	3	12.3	3	94	0	65	62	0	0	37	0.96
1115256--1115284	2	14.5	2	100	0	58	48	0	0	51	1.00
1115660--1115734	39	1.9	38	86	2	105	21	18	40	20	1.92
1115493--1115879	131	3.0	130	84	5	494	24	16	32	26	1.96
1115947--1116058	37	3.3	37	62	29	95	41	12	17	27	1.86

Tables:   1   2   3   4   5   6   7   8