genome.fa.s8656.2.7.7.80.10.50.1000.5.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: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456495

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

This is table  5  of  12  ( 1378 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)
1056561--1056616	15	3.6	15	79	9	67	42	12	12	32	1.80
1056564--1056614	17	3.1	17	77	11	61	43	11	9	35	1.75
1056785--1056837	21	2.5	21	93	0	88	28	28	22	20	1.99
1057033--1057087	13	4.2	13	75	13	58	49	12	3	34	1.59
1057073--1057171	33	3.0	33	94	1	164	45	15	7	32	1.73
1057166--1057205	21	1.9	21	94	0	71	47	7	15	30	1.72
1059494--1059539	12	3.6	12	81	16	56	17	19	17	45	1.85
1059493--1059532	15	2.9	14	85	14	57	20	17	15	47	1.83
1059935--1060026	42	2.2	41	90	1	139	51	1	6	41	1.35
1061457--1061508	16	3.2	17	72	22	58	40	1	21	36	1.64
1064216--1065113	448	2.0	446	87	2	1291	36	12	21	30	1.90
1075818--1075886	23	3.2	22	84	11	81	21	31	24	21	1.98
1075802--1075886	42	2.0	44	86	6	120	25	27	27	20	1.99
1079312--1079373	3	19.7	3	81	18	65	33	1	1	62	1.14
1080295--1080372	26	3.0	24	75	18	68	29	1	7	61	1.32
1080440--1080470	16	1.9	16	100	0	62	38	0	0	61	0.96
1082844--1082882	8	5.0	8	93	6	62	20	15	12	51	1.76
1082844--1082884	15	2.7	15	92	3	64	19	14	12	53	1.72
1082937--1083004	35	2.0	34	88	2	100	17	14	10	57	1.65
1082941--1083032	35	2.7	32	79	15	87	20	13	8	57	1.62
1085516--1085568	8	6.8	8	95	4	99	77	0	22	0	0.77
1089968--1090087	52	2.3	53	88	5	172	35	12	23	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092659--1093124	73	6.4	73	95	0	824	26	18	21	33	1.96
1094721--1094783	32	2.0	32	84	6	83	38	0	3	58	1.14
1094747--1094819	27	2.6	28	73	8	76	39	0	2	57	1.13
1099194--1099251	17	3.1	17	70	25	53	18	25	8	46	1.78
1099154--1099398	136	1.9	128	85	8	339	28	18	16	36	1.92
1100399--1100437	13	3.1	13	92	3	62	0	17	0	82	0.68
1106890--1106961	31	2.3	31	88	4	101	37	16	16	29	1.91
1108644--1108677	17	2.0	17	100	0	68	29	11	17	41	1.85
1110885--1110998	56	2.0	56	100	0	228	21	28	5	44	1.73
1116214--1116268	28	1.9	29	92	3	94	29	14	14	41	1.85
1116309--1116360	26	2.0	26	96	0	95	34	19	9	36	1.84
1116949--1116974	6	4.3	6	100	0	52	50	0	50	0	1.00
1117233--1117261	3	9.7	3	100	0	58	34	0	0	65	0.93
1121283--1121477	80	2.4	80	78	7	216	32	14	17	34	1.91
1121443--1121582	40	3.4	40	77	5	145	28	17	15	37	1.91
1121470--1121601	43	3.1	42	76	11	137	29	19	15	35	1.92
1132467--1132591	28	4.5	28	76	9	96	24	20	16	37	1.93
1132467--1132643	83	2.1	83	83	7	218	24	20	18	36	1.95
1132466--1132643	82	2.2	82	82	7	218	24	21	17	35	1.95
1136092--1136166	29	2.6	29	100	0	150	48	6	26	18	1.73
1139898--1140052	46	3.5	46	87	7	225	41	4	21	32	1.73
1142661--1142699	21	1.9	20	85	15	53	28	10	20	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142738--1142804	5	12.8	5	75	20	57	77	2	16	2	1.01
1142747--1142816	22	3.2	22	78	10	72	78	2	17	1	0.94
1146738--1146965	93	2.5	90	90	4	352	39	7	21	31	1.80
1146738--1146965	44	5.0	46	93	2	356	39	7	21	31	1.80
1147342--1147388	21	2.1	22	84	7	60	29	31	14	23	1.95
1148779--1148817	17	2.2	18	86	4	53	51	5	2	41	1.38
1149123--1149204	27	3.0	27	72	12	78	2	34	0	63	1.08
1149136--1149204	20	3.5	20	86	2	86	1	34	0	63	1.03
1150939--1150988	3	17.3	3	79	8	59	36	0	0	64	0.94
1150933--1150983	26	2.0	26	92	7	86	39	0	0	60	0.97
1150931--1150986	12	4.4	12	77	18	60	37	0	0	62	0.95
1153940--1153975	2	18.0	2	100	0	72	50	0	0	50	1.00
1155474--1155535	3	22.3	3	84	15	73	69	0	0	30	0.89
1155753--1156007	123	2.1	122	89	2	386	29	17	13	39	1.88
1155916--1156351	112	3.9	112	93	1	705	27	20	15	36	1.93
1157905--1157958	18	2.9	17	80	20	56	7	18	0	74	1.05
1157894--1157944	24	2.1	24	82	7	59	9	17	0	72	1.11
1161434--1161478	21	2.1	21	83	4	54	53	0	13	33	1.40
1164934--1165014	38	2.1	38	97	0	153	18	24	14	41	1.88
1165294--1165325	15	2.1	15	100	0	64	50	6	18	25	1.70
1168541--1168598	28	2.2	26	84	6	71	58	0	5	36	1.20
1169418--1169453	2	18.5	2	94	5	65	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170968--1171027	12	4.8	12	73	15	50	53	0	0	46	1.00
1170936--1171004	15	4.5	15	75	1	66	52	0	1	46	1.09
1174136--1174263	7	17.9	7	69	18	77	78	2	15	3	1.01
1174135--1174274	47	3.0	45	75	17	126	77	2	16	3	1.00
1174180--1174270	26	3.5	25	73	15	76	79	3	12	5	1.03
1174135--1174285	14	9.8	15	70	17	87	77	1	16	3	1.01
1174135--1174267	9	15.2	8	70	28	62	78	2	15	3	1.00
1175610--1175664	22	2.5	22	77	8	60	30	12	23	32	1.92
1176328--1176368	18	2.3	18	91	0	64	21	19	34	24	1.97
1178340--1178392	24	2.2	24	100	0	106	33	7	28	30	1.85
1183223--1183275	18	2.9	18	75	10	54	22	18	28	30	1.98
1185550--1185627	20	3.8	20	73	15	70	21	26	24	26	1.99
1185607--1185876	144	1.9	144	87	3	400	28	23	15	32	1.95
1185783--1185936	59	2.6	59	77	5	166	31	25	12	29	1.93
1186244--1186354	54	2.0	56	81	10	131	35	8	17	39	1.79
1187070--1187833	139	5.6	139	86	4	889	37	15	20	26	1.93
1187070--1187833	277	2.8	270	83	6	884	37	15	20	26	1.93
1196956--1197098	67	2.2	64	92	3	232	15	5	29	49	1.67
1197589--1197632	23	1.9	23	85	0	61	22	4	20	52	1.65
1197589--1197644	23	2.4	23	78	0	58	21	7	19	51	1.70
1199744--1199797	3	18.0	3	100	0	108	66	0	0	33	0.92
1200080--1200335	117	2.2	118	85	2	338	25	22	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199918--1200954	321	3.2	320	85	3	1261	25	20	17	35	1.95
1200731--1200954	116	1.9	116	85	3	308	25	20	15	38	1.92
1205418--1205728	53	5.8	53	75	8	250	41	17	10	30	1.84
1205375--1205728	54	6.5	54	78	5	329	40	17	10	31	1.83
1205375--1205728	107	3.3	106	80	4	350	40	17	10	31	1.83
1207035--1207100	27	2.4	28	82	2	89	24	4	31	39	1.75
1214218--1214282	22	2.9	22	88	2	85	20	29	27	23	1.98
1220887--1220953	18	3.8	17	80	9	55	65	0	4	29	1.12
1220912--1220956	18	2.5	18	79	13	56	66	0	6	26	1.16
1222385--1222414	3	10.0	3	100	0	60	66	0	0	33	0.92
1222623--1222772	60	2.5	60	84	6	207	33	22	3	40	1.71
1222888--1223003	60	1.9	60	86	6	164	40	2	21	35	1.67
1222889--1223028	60	2.3	62	77	11	150	41	2	22	33	1.68
1224030--1224098	37	1.9	37	94	5	124	47	10	7	34	1.65
1228660--1228718	9	6.7	9	77	14	52	61	0	0	38	0.96
1228660--1228742	43	1.9	44	97	2	159	61	0	0	38	0.96
1230037--1230089	26	2.0	26	85	0	70	32	28	16	22	1.96
1230876--1230912	14	2.6	15	83	8	51	0	18	0	81	0.70
1239944--1239991	14	3.4	14	97	0	87	29	18	22	29	1.98
1242792--1243190	139	2.9	138	88	3	563	26	21	16	35	1.94
1243809--1243939	41	3.1	41	73	6	111	29	23	19	27	1.99
1244113--1244213	42	2.4	41	79	8	114	32	20	19	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244266--1244627	54	6.7	55	84	6	382	41	17	9	31	1.81
1245873--1245944	28	2.7	26	84	4	90	23	4	33	38	1.74
1246580--1246680	7	14.4	7	75	15	57	0	16	1	80	0.87
1246586--1246691	8	13.5	8	76	17	57	0	16	2	81	0.81
1246604--1246691	27	3.2	27	85	7	97	0	17	3	79	0.86
1246580--1246691	37	3.1	35	83	8	136	0	16	2	80	0.88
1246587--1246691	44	2.6	43	81	11	114	0	16	2	80	0.82
1246587--1246685	47	2.1	47	83	14	125	0	17	2	80	0.80
1246591--1246691	36	2.8	34	82	10	130	0	15	2	81	0.82
1246959--1247205	2	124.0	2	87	0	361	46	2	3	48	1.31

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