genome.fa.s8310.2.7.7.80.10.50.1000.5.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: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1695 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)
1002246--1002540	5	60.6	5	68	22	66	75	1	7	16	1.09
1002247--1002540	10	29.3	10	68	22	81	75	1	7	16	1.09
1002247--1002487	29	8.4	27	68	16	87	73	1	6	17	1.12
1002303--1002485	63	2.9	61	76	17	180	73	1	6	18	1.14
1002450--1002502	27	1.9	28	84	3	72	71	0	11	16	1.13
1002494--1002543	9	5.7	9	85	7	59	86	0	8	6	0.72
1002605--1002634	15	2.0	15	93	0	51	83	6	0	10	0.81
1005989--1006021	16	2.0	17	88	5	50	39	0	9	51	1.34
1007307--1007331	2	12.5	2	100	0	50	48	0	0	52	1.00
1017816--1017847	12	2.6	13	85	14	50	84	0	15	0	0.63
1018741--1018905	65	2.6	62	82	6	192	36	18	15	29	1.91
1021039--1021194	65	2.4	64	86	3	215	28	23	19	28	1.98
1024236--1024286	22	2.3	22	96	0	93	21	11	15	50	1.76
1026937--1027010	23	3.3	22	70	14	71	27	22	21	28	1.99
1028936--1028983	22	2.2	22	88	7	71	18	0	29	52	1.46
1028960--1028985	13	2.0	13	100	0	52	23	0	30	46	1.53
1029658--1029813	65	2.4	65	83	3	199	29	21	19	29	1.98
1030810--1030871	18	3.3	18	77	4	61	24	3	1	70	1.10
1030790--1030876	38	2.3	38	78	13	99	22	2	1	73	1.01
1030796--1030893	8	11.1	9	70	22	50	24	2	1	72	1.02
1030808--1030876	23	3.0	21	76	19	59	23	2	1	72	1.06
1030791--1030893	25	4.0	24	76	20	68	24	1	0	72	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030854--1030893	17	2.3	18	91	8	66	25	0	0	75	0.81
1038323--1038588	44	6.0	44	85	4	315	25	20	13	40	1.89
1039404--1039464	23	2.7	23	89	2	88	24	24	27	22	2.00
1046309--1046565	44	5.9	44	87	0	363	25	22	11	40	1.88
1046937--1047078	44	3.2	42	90	4	194	24	21	11	42	1.86
1057575--1057622	10	4.5	10	79	20	53	35	0	0	64	0.94
1057572--1057625	24	2.2	24	96	0	99	37	0	0	62	0.95
1057572--1057625	12	4.5	12	79	6	65	37	0	0	62	0.95
1071802--1071826	12	2.1	12	100	0	50	8	44	8	40	1.63
1076954--1076978	12	2.1	12	100	0	50	16	32	8	44	1.76
1076990--1077018	12	2.4	12	100	0	58	6	44	6	41	1.58
1078346--1078446	49	2.1	49	100	0	202	31	17	11	38	1.86
1083209--1083268	20	2.9	21	90	5	95	21	11	35	31	1.90
1083846--1083891	21	2.2	21	92	0	74	34	0	0	65	0.93
1083843--1083894	24	2.0	24	82	10	59	34	0	0	65	0.93
1094667--1095010	191	1.8	184	85	6	476	46	9	4	39	1.58
1095608--1095640	16	2.1	16	100	0	66	27	24	6	42	1.78
1099389--1099508	62	1.9	62	81	9	147	44	8	4	43	1.53
1100367--1100417	21	2.4	22	87	6	79	41	7	17	33	1.79
1100895--1101190	163	1.8	161	91	2	486	50	4	17	27	1.65
1102357--1102422	31	2.1	31	88	5	98	33	15	28	22	1.94
1107331--1107572	134	1.8	134	85	3	344	40	17	14	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109545--1109707	74	2.2	75	86	2	220	22	19	27	30	1.98
1111938--1112035	21	4.7	20	78	13	74	29	16	29	24	1.96
1117779--1117956	71	2.4	73	88	8	247	20	19	30	29	1.97
1118246--1118274	8	3.6	8	100	0	58	10	34	0	55	1.34
1127947--1128013	5	12.8	5	78	9	71	25	4	0	70	1.06
1127961--1128034	10	7.7	10	75	14	66	27	4	0	68	1.07
1127961--1128013	16	3.4	16	87	5	74	24	1	0	73	0.93
1127961--1128010	26	1.9	26	91	0	82	26	2	0	72	0.96
1131126--1131177	9	5.6	9	82	8	50	78	0	9	11	0.95
1132741--1132790	23	2.2	22	86	10	66	40	20	22	18	1.92
1132835--1132910	21	3.6	21	71	7	55	34	22	18	25	1.96
1133726--1133775	20	2.5	20	100	0	100	18	24	20	38	1.93
1136224--1136493	55	4.9	55	85	2	348	26	18	20	35	1.95
1136249--1136563	55	5.8	54	83	5	284	28	18	19	34	1.95
1136891--1136933	21	2.1	20	87	12	61	30	23	13	32	1.93
1139044--1139083	21	1.9	21	89	0	62	42	32	2	22	1.67
1140661--1140685	13	1.9	13	100	0	50	44	0	0	56	0.99
1142506--1142539	2	17.0	2	93	0	59	50	47	0	2	1.16
1142539--1142564	2	13.0	2	100	0	52	50	0	0	50	1.00
1144339--1144435	30	3.2	30	85	2	133	50	6	17	25	1.69
1146353--1146389	7	5.1	7	93	6	65	86	0	13	0	0.57
1146353--1146425	15	4.8	15	73	13	69	78	1	16	4	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146353--1146425	22	3.2	22	76	18	78	78	1	16	4	0.98
1148983--1149646	73	9.1	73	90	1	1012	31	17	14	37	1.89
1148983--1149646	291	2.3	292	89	1	1048	31	17	14	37	1.89
1149624--1149667	21	2.1	21	100	0	88	34	9	15	40	1.79
1149558--1149744	93	2.0	95	83	4	236	30	16	15	37	1.89
1150160--1150473	139	2.3	137	85	6	411	37	17	19	25	1.94
1151854--1151933	33	2.4	33	89	8	117	23	8	2	65	1.34
1151902--1151960	26	2.4	25	81	13	68	22	8	1	67	1.26
1153583--1153650	33	2.2	28	80	12	73	38	4	4	52	1.41
1156074--1156130	30	1.9	30	85	0	78	26	24	19	29	1.98
1156168--1156296	52	2.5	51	78	3	134	17	34	29	17	1.94
1156308--1156430	49	2.5	49	89	5	185	24	23	23	28	2.00
1162064--1162284	110	2.0	111	91	0	363	46	9	8	36	1.65
1162408--1162448	10	4.1	10	84	12	57	39	0	29	31	1.57
1162572--1162679	51	2.1	51	79	1	119	20	29	33	16	1.95
1174248--1174469	117	1.9	118	79	6	254	28	13	9	48	1.73
1175791--1175950	65	2.5	65	87	5	227	28	17	23	30	1.97
1175791--1175998	65	3.2	64	76	14	196	27	17	24	31	1.97
1177294--1177410	59	2.0	57	86	3	162	49	17	8	23	1.74
1180131--1180204	2	39.0	2	86	10	102	51	1	0	47	1.09
1180862--1181019	43	3.6	44	79	6	178	25	17	22	34	1.96
1187309--1187351	17	2.5	17	85	11	52	65	0	27	6	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187358--1187498	73	2.0	71	88	5	214	33	29	12	25	1.92
1189697--1189726	2	15.0	2	100	0	60	50	0	0	50	1.00
1190752--1190869	58	2.0	58	98	0	227	27	17	5	49	1.70
1191743--1191863	22	5.5	21	76	11	91	35	17	18	28	1.93
1193955--1193994	21	1.9	19	85	14	53	57	0	35	7	1.27
1196001--1196040	20	2.0	21	90	5	64	45	0	0	55	0.99
1196293--1196328	2	18.0	2	100	0	72	50	0	0	50	1.00
1196519--1196584	33	2.0	33	96	0	123	30	22	6	40	1.78
1197134--1197189	29	1.9	29	92	0	94	37	7	26	28	1.83
1199662--1199706	15	3.4	13	82	11	56	68	0	15	15	1.21
1200234--1200285	19	2.6	21	90	6	81	46	5	13	34	1.67
1202440--1202508	36	1.9	36	93	0	120	21	23	5	49	1.71
1203346--1203383	19	2.1	18	90	5	58	60	2	26	10	1.43
1203775--1203817	13	3.1	14	83	10	61	69	0	16	13	1.19
1205514--1205585	24	3.0	24	77	0	81	51	18	12	18	1.76
1208036--1208073	18	2.1	18	90	0	58	13	21	44	21	1.85
1208013--1208055	13	3.3	13	90	0	68	16	20	44	18	1.87
1211817--1212135	122	2.6	122	83	3	365	27	11	23	36	1.90
1211976--1212864	220	4.1	220	82	3	1004	27	13	25	33	1.94
1213027--1213256	103	2.3	103	84	3	295	36	10	16	36	1.83
1219514--1219563	2	25.5	2	95	4	93	50	0	0	50	1.00
1222238--1222333	35	2.8	36	90	3	126	32	16	23	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222274--1222333	20	3.2	20	64	22	58	35	15	20	30	1.93
1222259--1222337	35	2.3	35	97	0	149	34	16	20	29	1.94
1222460--1222625	54	3.1	54	92	2	271	39	5	18	36	1.74
1223105--1223149	22	2.0	22	95	0	81	28	22	20	28	1.98
1226953--1227001	24	2.1	23	88	7	73	61	12	12	14	1.58
1226998--1227031	5	7.0	5	86	6	52	82	0	17	0	0.67
1231146--1231194	25	2.0	25	91	0	80	34	16	22	26	1.95
1232144--1232204	31	2.0	31	86	0	86	29	16	18	36	1.92
1232150--1232217	31	2.2	31	83	0	82	32	19	13	35	1.90
1233215--1233260	23	2.0	23	95	0	83	56	13	2	28	1.48

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15