genome.fa.s880.2.7.7.80.10.50.1000.6.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: VEPZ01000880.1 Hibiscus syriacus cultivar Beakdansim tig00001713_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1459553

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 802 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)
985685--985747	16	3.9	16	89	0	81	42	11	23	22	1.85
985681--985751	32	2.2	32	87	0	106	40	12	25	21	1.88
986668--986740	34	2.1	35	97	2	139	60	5	8	26	1.47
988555--988760	43	4.8	43	72	7	143	28	16	21	32	1.96
988691--988773	43	1.9	43	85	4	114	28	18	18	34	1.94
996563--996964	169	2.4	165	80	7	436	33	17	15	33	1.91
996563--996912	83	4.2	82	80	5	364	34	17	15	33	1.91
996578--996890	41	7.5	42	68	9	185	32	17	15	33	1.92
996563--996975	167	2.5	167	81	5	458	34	17	15	33	1.91
996563--996980	84	5.0	82	80	4	415	33	17	15	33	1.92
997154--997299	73	2.0	73	94	0	256	50	15	6	28	1.68
1002507--1002539	16	2.1	16	88	11	50	30	12	6	51	1.63
1002807--1002841	18	1.9	18	88	0	52	40	20	14	25	1.90
1003505--1003549	16	2.7	17	86	10	58	68	0	15	15	1.21
1003495--1003549	18	3.2	17	82	10	58	69	0	16	14	1.20
1003485--1003549	34	1.9	34	81	12	80	66	0	20	13	1.25
1004795--1004838	23	1.9	23	81	9	54	56	18	2	22	1.52
1013911--1014066	77	2.0	77	91	0	249	37	12	17	32	1.87
1035226--1035263	20	1.9	20	84	10	51	31	15	21	31	1.94
1046262--1046305	23	1.9	23	85	0	61	20	18	27	34	1.96
1051221--1051335	51	2.3	51	89	6	171	37	2	8	51	1.47
1060174--1060223	2	24.0	2	92	8	82	48	0	4	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060275--1060302	14	2.0	14	100	0	56	42	7	7	42	1.59
1060293--1060326	17	2.0	17	100	0	68	58	5	5	29	1.45
1060316--1060352	2	19.5	2	89	10	60	51	0	0	48	1.00
1060294--1060347	19	2.8	19	83	8	65	57	3	1	37	1.27
1064407--1064454	24	2.0	24	100	0	96	41	12	12	33	1.80
1078938--1079485	199	2.7	199	83	3	672	33	16	20	29	1.95
1079521--1079846	150	2.2	151	89	1	503	37	22	15	25	1.93
1080274--1080478	30	6.5	31	71	16	122	37	0	4	57	1.25
1080274--1080400	17	8.2	16	72	18	74	38	0	5	55	1.29
1080348--1080475	6	19.7	7	71	24	79	37	0	3	58	1.19
1080348--1080477	2	70.5	2	67	20	61	37	0	3	58	1.19
1080702--1080780	40	2.0	41	87	2	115	46	20	20	12	1.82
1081555--1081588	15	2.3	15	90	5	52	29	11	0	58	1.33
1083603--1083692	3	31.7	3	76	12	84	30	3	1	65	1.16
1083603--1083692	32	2.9	30	79	11	92	30	3	1	65	1.16
1084840--1084915	30	2.5	28	78	14	80	27	3	2	65	1.23
1084968--1085002	3	11.7	3	100	0	70	34	0	0	65	0.93
1092005--1092049	22	2.0	22	82	4	54	28	33	28	8	1.87
1093589--1093645	23	2.5	23	77	11	71	21	24	24	29	1.99
1093598--1093653	23	2.4	23	85	5	60	23	23	23	30	1.99
1097145--1097189	22	2.0	22	86	4	63	31	33	26	8	1.87
1098726--1098786	23	2.7	23	86	0	95	18	26	29	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1104842--1104880	17	2.4	17	86	4	53	74	0	10	15	1.07
1105532--1105576	20	2.2	20	92	0	72	33	8	24	33	1.86
1105921--1105980	22	2.7	22	92	0	93	40	13	15	31	1.85
1106298--1106733	121	3.6	122	90	1	653	40	13	19	25	1.89
1106171--1106748	243	2.5	233	82	8	708	39	15	19	26	1.90
1107097--1107198	3	35.7	3	80	11	117	31	0	0	66	1.05
1107097--1107197	44	2.3	44	84	5	123	31	0	0	66	1.05
1108304--1108328	13	1.9	13	100	0	50	40	4	8	48	1.51
1108454--1108529	30	2.5	28	78	14	80	27	3	2	65	1.23
1114725--1114868	4	36.0	4	97	0	261	48	24	1	25	1.59
1119134--1119184	3	17.7	3	78	15	54	39	0	0	60	0.97
1119134--1119183	11	4.7	10	80	11	55	38	0	0	62	0.96
1119142--1119184	19	2.3	19	88	8	61	39	0	0	60	0.97
1123174--1123201	14	2.0	14	100	0	56	42	14	7	35	1.73
1132225--1132265	21	2.0	21	86	13	59	51	2	7	39	1.43
1134060--1134094	12	2.9	12	95	0	61	31	14	25	28	1.95
1137690--1137733	21	2.1	21	82	0	52	9	43	15	31	1.79
1138873--1138915	19	2.3	19	95	0	77	34	25	13	25	1.93
1145091--1145121	16	1.9	16	100	0	62	25	12	29	32	1.93
1147338--1147405	24	2.8	24	86	0	100	41	17	16	25	1.89
1151555--1151651	24	4.0	24	77	5	79	44	18	12	24	1.84
1155139--1155187	22	2.2	22	85	7	64	53	2	10	34	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161833--1161874	12	3.8	12	79	20	56	45	0	0	54	0.99
1163462--1163561	39	2.8	35	78	17	107	60	1	0	39	1.04
1163472--1163558	40	2.2	39	93	2	147	59	1	0	39	1.05
1176842--1176875	2	17.0	2	100	0	68	50	0	0	50	1.00
1177573--1177615	20	2.2	20	86	0	59	34	13	16	34	1.88
1211006--1211044	20	2.0	20	89	0	60	33	10	23	33	1.88
1215180--1215244	18	3.5	19	87	12	91	15	23	24	36	1.93
1215711--1215913	103	2.0	101	83	2	253	36	12	11	38	1.80
1216452--1216496	20	2.1	22	88	8	67	42	0	0	57	0.98
1224923--1224956	9	3.8	9	84	0	50	0	14	0	85	0.60
1239258--1239297	21	1.9	21	89	0	62	30	10	12	47	1.74
1239522--1239579	21	2.8	21	91	0	89	25	39	15	18	1.91
1239933--1239972	21	1.9	21	89	0	62	50	10	10	30	1.69
1241087--1241123	20	1.9	20	88	5	58	27	13	5	54	1.61
1242462--1242519	21	2.8	21	91	0	89	20	15	41	22	1.90
1253585--1253663	31	2.5	32	81	4	97	27	10	24	37	1.87
1253648--1253714	28	2.4	28	90	2	100	11	8	34	44	1.73
1260869--1260999	67	2.0	66	84	1	172	27	19	13	39	1.89
1261015--1261292	102	2.7	102	86	1	360	31	17	13	37	1.89
1261945--1262196	104	2.4	103	79	6	283	34	24	15	25	1.94
1263884--1263950	2	34.0	2	92	3	109	46	0	1	52	1.09
1264735--1264768	17	2.0	17	88	11	52	38	5	5	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269537--1270434	81	11.1	81	91	0	1418	30	22	11	35	1.90
1270771--1270866	46	2.1	46	92	0	156	22	23	9	43	1.82
1270784--1270862	20	3.7	20	72	18	68	21	27	10	40	1.85
1271367--1271418	19	2.7	20	81	3	61	28	28	11	30	1.92
1273078--1273107	2	15.0	2	100	0	60	50	0	0	50	1.00
1278881--1278926	24	1.9	24	100	0	92	54	8	23	13	1.66
1280860--1280893	17	2.0	17	88	0	50	64	14	2	17	1.40
1282204--1282245	21	2.0	21	95	0	75	26	28	21	23	1.99
1282359--1282415	15	3.5	15	72	25	53	21	24	35	19	1.96
1282359--1282442	34	2.4	34	94	2	141	19	27	33	20	1.96
1283821--1283868	20	2.5	20	82	3	62	31	12	6	50	1.65
1285080--1285121	21	2.0	21	90	0	66	28	26	21	23	1.99
1285234--1285318	34	2.5	34	88	1	125	20	24	34	21	1.97
1286085--1286193	31	3.5	31	74	12	114	34	18	17	29	1.94
1286103--1286191	32	2.8	32	78	11	94	33	17	15	32	1.92
1287095--1287152	20	2.7	20	81	10	62	27	20	18	32	1.97
1287998--1288065	35	1.9	35	91	5	111	47	16	0	36	1.47
1288077--1288142	33	1.9	35	87	6	100	31	0	24	43	1.54
1291975--1292164	87	2.2	87	90	3	294	34	26	6	33	1.82
1294105--1294485	135	2.8	136	77	9	364	37	16	15	31	1.90
1294507--1294808	143	2.1	145	85	5	409	35	20	18	25	1.95
1297327--1297821	74	6.7	73	81	4	519	41	12	12	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297901--1298157	111	2.3	112	84	7	335	44	14	12	29	1.81
1299098--1299242	45	3.2	45	90	1	218	31	23	6	38	1.81
1299155--1299228	25	3.2	24	63	24	59	31	22	8	37	1.84
1300287--1300379	20	5.0	20	68	15	74	34	5	16	44	1.70
1300271--1300385	53	2.2	51	93	3	194	29	6	15	47	1.71
1305367--1305459	20	5.0	20	68	15	74	33	5	16	45	1.70
1305351--1305466	53	2.2	51	93	3	196	28	6	15	49	1.70
1312561--1312602	16	2.6	16	92	0	66	40	7	26	26	1.81
1317265--1317338	16	4.6	16	87	0	103	41	5	25	27	1.77
1317265--1317338	32	2.3	32	90	0	121	41	5	25	27	1.77

Tables:   1   2   3   4   5   6   7