genome.fa.s8208.2.7.7.80.10.50.1000.4.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: VEPZ01008208.1 Hibiscus syriacus cultivar Beakdansim tig00110830_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2533913

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 919 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)
933291--933347	23	2.5	22	94	2	96	61	5	8	24	1.46
940494--940707	106	2.0	108	98	1	414	23	19	24	33	1.97
941469--941503	2	17.5	2	93	0	61	48	0	2	48	1.16
944728--945202	54	8.8	54	81	6	443	31	21	18	29	1.96
946498--946838	170	2.0	170	100	0	682	35	12	27	24	1.91
960339--960385	25	1.9	25	82	4	60	51	10	8	29	1.66
973910--973959	20	2.5	20	83	3	66	40	20	2	38	1.64
979842--979907	33	2.0	33	96	0	123	27	19	18	34	1.95
992779--993476	348	2.0	345	91	1	1130	32	15	14	37	1.88
1013191--1013224	2	16.5	2	93	6	59	47	0	2	50	1.16
1033489--1034019	270	2.0	261	95	4	956	30	18	26	23	1.98
1038817--1038861	23	2.0	23	82	8	56	55	15	2	26	1.52
1045074--1045133	17	3.5	17	93	4	95	46	10	15	28	1.77
1045074--1045151	34	2.3	35	84	6	97	44	10	14	30	1.78
1045125--1045193	18	3.9	18	70	11	52	42	11	13	33	1.80
1045122--1045216	17	5.5	17	69	12	59	44	12	10	32	1.77
1049125--1049187	17	3.7	16	81	12	72	42	9	14	33	1.78
1049125--1049188	18	3.7	18	85	6	71	43	9	14	32	1.77
1053928--1054137	65	3.3	62	77	12	201	32	23	18	26	1.97
1053977--1054163	64	2.9	62	75	16	166	31	23	19	26	1.98
1062391--1062516	64	2.0	64	84	10	168	30	23	19	26	1.98
1076666--1076722	16	3.6	16	100	0	114	42	19	0	38	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079909--1080059	75	2.0	76	98	1	295	35	20	17	26	1.94
1082799--1082827	12	2.4	12	100	0	58	34	6	41	17	1.76
1084717--1084824	54	2.0	54	100	0	216	24	16	24	35	1.95
1089068--1089158	46	2.0	46	95	0	164	28	10	28	31	1.91
1094180--1094728	54	10.2	54	80	2	539	32	19	17	29	1.95
1099970--1100522	54	10.2	54	81	5	573	31	20	18	29	1.96
1104242--1104297	21	2.7	21	100	0	112	33	10	35	19	1.87
1117393--1117419	7	3.9	7	100	0	54	44	0	25	29	1.54
1117918--1118043	47	2.8	45	88	5	182	30	23	7	37	1.84
1118152--1118280	59	2.2	59	88	0	186	28	25	17	27	1.98
1119760--1119829	18	4.2	18	80	17	96	15	50	22	11	1.76
1119787--1119851	8	8.5	8	71	21	59	15	41	24	18	1.89
1119766--1119844	31	2.5	31	93	4	131	15	46	22	15	1.82
1119782--1119818	13	2.8	13	100	0	74	16	48	24	10	1.77
1119821--1119853	7	4.6	7	92	7	57	12	33	27	27	1.92
1119818--1119851	15	2.3	15	100	0	68	14	35	26	23	1.94
1122393--1122462	12	5.8	12	78	6	61	15	14	17	52	1.74
1122356--1122464	48	2.3	48	83	3	130	19	14	16	49	1.80
1122356--1122464	24	4.5	24	77	2	112	19	14	16	49	1.80
1128737--1128854	47	2.6	45	85	6	157	32	22	8	37	1.84
1128955--1129091	59	2.3	58	79	2	166	29	24	17	29	1.97
1133123--1133248	47	2.8	45	88	5	182	31	23	8	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133349--1133485	59	2.3	58	79	2	166	29	24	17	29	1.97
1139695--1139820	47	2.8	45	86	5	173	30	23	8	37	1.85
1139929--1140057	59	2.2	59	87	0	177	29	25	17	27	1.97
1145160--1145190	6	5.2	6	92	0	53	29	35	19	16	1.93
1146159--1146200	22	2.0	22	85	4	59	50	11	2	35	1.52
1146526--1146651	47	2.8	45	86	5	173	30	23	8	36	1.85
1146752--1146888	59	2.3	58	81	2	166	29	24	17	29	1.97
1151542--1151572	6	5.2	6	92	0	53	29	35	19	16	1.93
1153128--1153253	47	2.8	45	84	5	155	30	23	8	37	1.85
1153354--1153490	59	2.3	58	81	2	175	28	24	18	29	1.98
1158592--1158622	6	5.2	6	92	0	53	29	35	19	16	1.93
1160183--1160300	47	2.6	45	85	6	157	32	22	8	37	1.84
1160401--1160537	59	2.3	58	79	2	166	29	24	17	29	1.97
1161680--1161805	47	2.8	45	88	5	182	30	23	8	37	1.85
1161914--1162042	59	2.2	58	87	5	179	29	25	17	27	1.98
1165329--1165371	22	2.0	22	86	9	61	53	2	4	39	1.34
1165853--1165930	30	2.8	27	79	11	93	44	2	10	42	1.52
1165864--1165934	30	2.4	30	95	0	124	45	1	9	43	1.46
1166857--1166912	23	2.2	27	87	12	84	19	3	5	71	1.21
1169915--1169953	3	13.0	3	84	10	53	30	0	0	69	0.89
1170457--1170784	164	2.0	164	100	0	656	29	10	21	37	1.87
1172380--1172486	53	2.0	53	100	0	214	34	13	16	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177748--1177810	24	2.6	24	84	0	81	30	15	14	39	1.87
1177743--1177820	24	3.3	23	76	3	75	28	19	15	37	1.92
1178740--1178769	2	15.0	2	100	0	60	50	0	0	50	1.00
1179916--1179952	18	2.1	19	85	10	51	64	0	5	29	1.15
1180690--1180734	24	2.0	22	83	16	56	60	20	6	13	1.55
1181711--1181772	14	4.7	13	76	21	58	69	1	1	27	1.07
1181701--1181773	17	4.4	16	73	18	53	69	1	1	27	1.04
1181700--1181772	28	2.7	26	78	12	76	69	1	1	27	1.04
1183933--1183998	26	2.5	26	82	4	89	51	0	18	30	1.46
1185193--1185249	21	2.8	22	76	12	59	26	17	26	29	1.97
1188493--1189839	674	2.0	675	94	1	2371	42	18	11	27	1.84
1195346--1195878	54	9.9	54	80	5	474	32	20	18	29	1.96
1195332--1195696	163	2.2	162	85	2	491	31	20	16	31	1.95
1195331--1195878	108	5.1	108	80	5	527	31	20	18	29	1.96
1199462--1199491	13	2.2	14	94	5	53	83	0	0	16	0.65
1199533--1199585	26	2.1	24	89	6	79	56	3	0	39	1.17
1199526--1199679	73	2.1	73	84	5	197	48	6	0	44	1.28
1199548--1199722	37	4.7	37	91	5	264	46	6	0	46	1.32
1199546--1199677	13	10.5	13	63	23	50	46	6	0	46	1.29
1199548--1199722	73	2.3	75	90	5	275	46	6	0	46	1.32
1199710--1199750	12	3.2	13	82	10	57	46	12	0	41	1.41
1201170--1201269	44	2.2	45	82	3	130	27	20	9	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204271--1204535	45	5.9	45	90	1	354	26	20	13	39	1.89
1204982--1205034	19	2.7	19	80	11	63	18	13	16	50	1.77
1211166--1211432	45	6.0	45	91	0	428	26	21	12	40	1.88
1211166--1211432	89	3.0	89	90	3	412	26	21	12	40	1.88
1211166--1211432	134	2.0	135	91	2	439	26	21	12	40	1.88
1211878--1211929	20	2.6	20	87	6	70	23	25	15	36	1.93
1216666--1216776	3	37.0	3	83	0	132	41	0	0	57	1.05
1217293--1217329	11	3.5	11	85	14	51	75	5	18	0	0.99
1217297--1217338	15	2.8	15	89	7	59	76	2	21	0	0.90
1217294--1217338	20	2.2	20	88	7	65	75	2	22	0	0.91
1229483--1229530	12	4.3	11	80	19	55	81	0	16	2	0.79
1229481--1229526	23	2.0	24	95	4	85	78	0	19	2	0.86
1229495--1229532	18	2.0	20	90	10	62	78	0	21	0	0.74
1230666--1231101	83	5.3	83	91	3	700	27	13	22	35	1.92
1230668--1231101	165	2.6	166	94	1	757	28	13	22	35	1.92
1231892--1232454	113	5.0	113	92	1	803	37	14	18	29	1.90
1232786--1232893	3	36.0	3	84	0	144	39	0	0	59	1.04
1233414--1233455	15	2.8	15	89	7	59	76	2	21	0	0.90
1233411--1233455	20	2.2	20	88	7	65	75	2	22	0	0.91
1240880--1240964	2	44.0	2	77	15	54	52	2	0	44	1.13
1240892--1240924	17	1.9	17	88	11	50	48	3	0	48	1.17
1245469--1245704	80	3.0	78	83	6	307	45	10	13	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248109--1248230	60	2.0	60	93	0	208	31	28	12	27	1.92
1255654--1255703	20	2.5	20	83	3	66	40	20	2	38	1.64
1256099--1256167	28	2.4	28	92	2	111	44	28	1	24	1.62
1261736--1261867	70	1.9	69	87	6	194	34	22	12	30	1.92
1262504--1262540	17	2.1	18	90	5	58	45	37	0	16	1.47
1274960--1275009	3	16.3	3	91	4	73	36	0	2	62	1.07
1277918--1277987	36	1.9	36	88	0	104	41	18	11	28	1.85
1281148--1281282	72	1.9	72	93	0	234	27	21	17	34	1.95
1283230--1283397	75	2.2	75	90	2	257	30	17	22	29	1.97
1284263--1284640	54	7.0	54	85	1	481	36	15	21	25	1.93

Tables:   1   2   3   4   5   6   7   8