genome.fa.s9618.2.7.7.80.10.50.1000.5.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: VEPZ01009618.1 Hibiscus syriacus cultivar Beakdansim tig00117007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1135495

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 596 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)
892175--892265	19	4.8	19	93	0	155	23	14	30	31	1.94
892064--892207	66	2.2	64	80	4	164	29	18	22	29	1.97
897228--897327	37	2.7	37	77	0	101	29	18	18	35	1.94
907674--907737	30	2.3	27	83	8	83	64	7	1	26	1.30
907674--907735	13	4.5	13	75	20	63	64	8	1	25	1.30
907771--907882	51	2.2	52	88	3	165	50	8	7	33	1.61
912885--912973	44	2.0	44	100	0	178	24	29	6	39	1.81
913770--913828	23	2.6	23	83	0	73	33	22	23	20	1.97
919701--919730	15	2.0	15	100	0	60	53	13	6	26	1.64
920167--920199	16	2.1	16	94	0	57	51	27	0	21	1.48
928238--928267	15	2.0	15	100	0	60	53	13	6	26	1.64
934885--935515	315	2.0	314	96	3	1171	23	15	17	43	1.87
941362--941523	80	2.0	80	90	2	254	38	12	16	32	1.86
941993--942041	13	4.0	13	92	7	77	16	48	22	12	1.79
944165--944221	29	2.0	29	96	0	105	17	5	14	63	1.48
945437--945474	20	1.9	20	94	0	67	13	2	10	73	1.19
949088--949333	122	2.0	122	96	0	456	32	22	17	28	1.96
955295--955380	3	28.0	3	83	4	91	58	1	0	40	1.06
955620--955685	20	3.3	20	64	16	55	18	22	6	53	1.66
955620--955715	36	2.5	38	90	6	142	19	20	8	51	1.73
955657--956312	113	5.8	113	95	2	1139	26	19	16	38	1.92
957154--957443	83	3.5	83	95	0	499	38	22	12	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
958583--958624	21	2.0	21	86	9	59	0	16	0	83	0.65
965952--965983	15	2.1	15	94	0	55	46	9	18	25	1.79
970001--970030	15	2.0	15	93	0	51	36	0	0	63	0.95
971374--971456	3	27.0	3	82	4	94	59	1	0	39	1.05
972617--972717	51	2.0	51	84	0	130	28	15	27	27	1.96
975156--975188	12	2.8	12	95	0	57	42	21	18	18	1.89
982061--982135	22	3.4	22	84	0	105	28	24	14	33	1.94
987668--987761	41	2.3	41	90	5	147	56	7	5	30	1.49
988167--988197	15	2.1	15	93	0	53	70	12	3	12	1.27
991709--991756	17	2.7	17	83	6	51	8	12	0	79	0.94
991728--991768	18	2.2	18	86	4	55	2	14	2	80	0.92
996574--996603	13	2.2	14	94	5	53	83	16	0	0	0.65
1003109--1003151	20	2.3	19	84	11	61	23	27	9	39	1.85
1003114--1003151	20	1.9	20	94	0	67	23	26	10	39	1.87
1003861--1003897	7	5.3	7	100	0	74	59	0	27	13	1.35
1006347--1006420	37	2.0	37	94	0	130	31	8	32	28	1.86
1008165--1008240	20	3.8	20	74	17	59	72	6	1	19	1.14
1009917--1010168	134	1.9	136	93	1	436	27	23	16	32	1.96
1012370--1012421	19	2.7	19	93	0	95	44	1	0	53	1.11
1014464--1014517	24	2.3	23	81	6	63	14	5	3	75	1.12
1014479--1014517	20	2.0	20	84	0	51	12	2	2	82	0.89
1014476--1014535	24	2.4	24	81	13	68	15	5	5	75	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017079--1017117	20	2.0	20	100	0	78	12	25	10	51	1.71
1017316--1017366	16	2.8	19	82	11	63	29	13	23	33	1.93
1017316--1017377	20	3.3	20	72	21	62	29	12	24	33	1.92
1017315--1017387	36	2.0	36	84	5	94	30	16	23	30	1.96
1017416--1017484	21	3.6	19	75	20	65	27	15	28	27	1.96
1017708--1017761	21	2.8	19	84	13	74	51	9	11	27	1.67
1017937--1018106	84	2.0	83	98	1	331	47	18	5	28	1.71
1019452--1019489	3	13.0	3	86	5	51	0	28	2	68	1.03
1020900--1020963	20	3.2	20	88	2	92	28	9	29	32	1.88
1020900--1020977	20	3.9	20	88	3	68	28	11	26	33	1.91
1020900--1020977	40	2.0	40	82	10	97	28	11	26	33	1.91
1022057--1022251	101	1.9	101	94	0	345	25	15	27	30	1.96
1024698--1024775	9	9.4	8	77	18	54	74	5	1	19	1.08
1024706--1024776	21	3.4	21	77	14	76	76	4	1	18	1.03
1024712--1024781	16	4.2	16	75	22	65	78	5	1	14	1.00
1025692--1025805	57	2.0	57	100	0	228	42	7	10	40	1.66
1027818--1028114	156	1.9	156	88	1	443	36	27	9	26	1.88
1029632--1029722	46	2.0	46	91	0	146	38	21	9	29	1.86
1031380--1031427	3	16.0	3	77	0	51	39	0	0	60	0.97
1031380--1031427	18	2.6	19	90	6	73	39	0	0	60	0.97
1031873--1031897	11	2.3	11	100	0	50	32	32	28	8	1.86
1032529--1032558	15	2.0	15	93	0	51	36	3	6	53	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032532--1032601	26	2.8	24	79	12	77	41	1	4	52	1.30
1036046--1036086	7	5.9	7	83	11	57	14	17	9	58	1.62
1038987--1039030	13	3.3	13	84	12	54	81	0	18	0	0.68
1038987--1039021	14	2.5	14	95	0	61	82	0	17	0	0.66
1041193--1041408	114	1.9	114	91	0	351	32	15	21	30	1.94
1043413--1043517	54	1.9	55	90	1	167	38	16	23	21	1.93
1044427--1044750	165	2.0	167	90	2	510	35	12	12	39	1.81
1044754--1045998	76	16.4	76	96	0	2224	24	18	21	34	1.96
1046153--1046218	18	3.5	18	89	6	96	43	0	0	56	0.99
1046153--1046218	21	3.3	21	83	16	95	43	0	0	56	0.99
1046153--1046206	3	18.0	3	84	0	63	42	0	0	57	0.98
1047333--1047362	15	2.0	15	93	0	51	36	3	6	53	1.44
1049297--1049354	30	1.9	30	89	6	91	25	17	22	34	1.96
1049356--1049428	22	3.3	22	82	0	101	23	20	27	28	1.99
1049369--1049438	22	3.2	22	81	0	95	27	18	24	30	1.98
1053514--1053571	30	1.9	30	86	6	82	25	22	20	31	1.98
1055722--1055893	84	2.1	83	98	1	335	42	10	11	35	1.76
1067037--1067075	18	2.2	17	86	4	51	28	30	20	20	1.98
1076470--1076509	21	1.9	21	85	10	55	35	10	2	52	1.48
1080717--1080765	26	1.9	25	87	4	71	34	24	14	26	1.94
1080748--1080783	18	2.0	18	88	0	54	27	30	19	22	1.98
1083338--1083408	24	2.9	25	87	4	99	22	23	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091543--1091591	21	2.4	22	83	12	61	55	2	2	40	1.23
1097215--1097277	32	2.0	32	93	0	108	23	11	12	52	1.71
1100398--1100434	18	2.1	18	89	0	56	24	8	29	37	1.84
1103324--1103353	11	2.6	12	94	5	53	53	26	0	20	1.46
1106525--1106568	16	2.6	18	79	20	58	20	0	0	79	0.73
1106534--1106570	14	2.5	14	91	8	56	16	0	0	83	0.64
1106520--1106571	19	2.7	20	79	8	63	21	0	1	76	0.87
1114606--1114649	19	2.4	19	88	3	63	22	2	0	75	0.92
1117767--1117808	15	2.7	16	78	14	52	71	7	0	21	1.09
1118631--1118659	2	14.5	2	100	0	58	48	0	0	51	1.00
1119135--1119248	42	2.7	41	85	4	156	29	19	22	28	1.98
1119287--1120169	36	25.2	36	75	11	699	36	13	21	27	1.91
1119343--1119407	21	3.4	21	64	24	61	40	15	23	21	1.91
1119289--1119996	101	6.9	101	85	5	816	37	13	21	27	1.91
1119800--1120169	37	10.1	37	83	3	455	34	12	24	29	1.91
1119800--1120169	73	5.1	73	84	2	474	34	12	24	29	1.91
1120238--1120302	21	3.4	21	64	25	54	41	13	18	26	1.88
1120296--1120411	34	3.3	36	72	11	114	34	11	15	38	1.83
1120275--1120413	69	2.0	71	87	4	201	36	12	15	35	1.85
1120438--1120652	100	2.2	99	87	3	297	37	11	17	33	1.86
1126688--1126723	17	2.1	17	94	0	63	75	2	5	16	1.12
1127625--1128566	99	9.5	99	79	4	835	31	20	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127625--1128566	297	3.2	297	78	3	935	31	20	19	28	1.97
1128746--1128785	3	13.3	3	100	0	80	32	0	0	67	0.91
1131945--1131985	21	1.9	22	85	14	59	26	12	9	51	1.70
1132238--1132294	30	1.9	30	85	7	80	36	5	21	36	1.76
1132958--1133415	55	8.3	55	85	1	535	26	18	18	36	1.94
1133759--1133804	22	2.1	22	88	8	67	32	15	17	34	1.91

Tables:   1   2   3   4   5

The End!