genome.fa.s1497.2.7.7.80.10.50.1000.5.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: VEPZ01001497.1 Hibiscus syriacus cultivar Beakdansim tig00002919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1780709

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 861 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)
926129--926163	2	18.0	2	94	5	63	48	0	0	51	1.00
929167--929214	24	2.0	24	84	8	62	33	16	8	41	1.78
936308--936391	20	4.2	20	90	7	95	34	29	20	15	1.93
943100--943140	20	2.0	20	86	9	57	39	9	7	43	1.65
943586--943648	27	2.3	27	94	0	108	26	22	11	39	1.87
945178--945203	10	2.6	10	100	0	52	42	0	7	50	1.31
945576--945632	28	2.0	28	100	0	114	24	17	10	47	1.79
959792--959850	21	2.7	22	76	7	59	52	1	5	40	1.33
974806--974891	44	2.0	43	95	2	154	38	19	22	19	1.94
986431--986459	2	14.5	2	100	0	58	51	0	0	48	1.00
988006--988130	62	2.0	62	96	0	232	24	14	22	39	1.91
989609--989634	12	2.2	12	100	0	52	26	34	7	30	1.85
994936--994981	20	2.3	20	88	0	65	39	2	2	56	1.24
998651--998720	25	2.7	25	76	10	70	55	7	7	30	1.54
1005487--1005530	20	2.2	20	84	4	54	56	0	2	40	1.11
1005484--1005590	24	4.7	24	71	13	93	56	0	4	38	1.27
1005551--1005596	24	1.9	24	95	0	83	60	2	4	32	1.28
1011555--1011603	21	2.3	22	85	7	73	55	6	0	38	1.25
1017359--1017437	34	2.4	33	83	8	90	39	0	1	59	1.06
1017349--1017437	34	2.7	31	79	6	88	39	0	2	58	1.11
1017579--1017632	17	3.2	17	72	0	54	31	0	3	64	1.11
1021856--1021885	2	15.0	2	100	0	60	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)
1022016--1022072	21	2.7	20	81	10	60	59	1	1	36	1.18
1024531--1024563	16	2.0	17	88	5	50	24	3	3	69	1.16
1028615--1028669	26	2.1	27	83	10	69	49	1	1	47	1.23
1028896--1028928	14	2.4	14	94	0	57	12	18	57	12	1.64
1031584--1031632	19	2.5	20	80	12	57	38	0	2	59	1.09
1039390--1039441	27	2.0	27	88	3	79	32	19	13	34	1.90
1039722--1039777	24	2.3	25	78	12	62	41	0	0	58	0.98
1039795--1039846	25	2.0	26	88	7	79	17	9	32	40	1.82
1051392--1051478	28	3.1	28	96	0	165	39	26	0	34	1.57
1053992--1054047	20	2.8	20	94	0	94	39	21	19	19	1.93
1054034--1054100	20	3.3	20	91	0	107	31	25	19	23	1.98
1054940--1054992	24	2.2	24	89	0	79	20	16	20	41	1.90
1057410--1057436	14	1.9	14	100	0	54	40	29	22	7	1.81
1057424--1057472	20	2.5	20	86	6	73	36	26	20	16	1.93
1057468--1057539	33	2.1	34	92	2	119	45	16	22	15	1.84
1057569--1057638	33	2.1	33	89	0	104	14	25	17	42	1.86
1057755--1057791	14	2.6	14	86	0	56	48	21	0	29	1.50
1059171--1059280	42	2.6	41	75	11	107	24	19	35	20	1.96
1059762--1059830	20	3.5	20	83	0	84	33	21	18	26	1.97
1059875--1060017	20	7.5	20	86	9	192	17	19	20	41	1.90
1059854--1060014	40	4.4	36	76	20	140	16	20	20	42	1.89
1059837--1060017	93	1.9	93	95	0	326	17	20	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061894--1061983	20	4.6	20	83	1	92	45	22	17	14	1.85
1062320--1062381	22	2.8	22	92	0	106	22	14	37	25	1.92
1062583--1062656	20	3.7	20	76	3	76	18	20	20	40	1.92
1062653--1062698	21	2.2	21	92	0	74	39	17	26	17	1.91
1069499--1069540	20	2.1	20	100	0	84	35	19	9	35	1.84
1077098--1077131	9	3.8	9	88	11	52	76	0	2	20	0.92
1077097--1077131	13	2.6	13	90	4	52	77	0	2	20	0.90
1077066--1077142	18	4.1	18	69	21	59	72	1	11	14	1.18
1077655--1077697	18	2.5	17	85	7	61	67	2	4	25	1.22
1078066--1078165	35	2.8	36	86	6	130	31	16	15	38	1.89
1078654--1079999	210	6.4	204	83	7	1426	21	19	25	32	1.97
1079406--1079999	105	5.6	104	89	2	803	21	18	26	33	1.96
1080672--1081054	36	10.9	36	75	13	307	39	12	20	27	1.88
1080706--1080889	102	1.8	101	85	1	260	40	12	17	28	1.86
1080672--1080926	138	1.8	138	86	1	368	40	12	19	27	1.88
1080829--1080890	21	3.2	21	65	25	64	45	11	17	25	1.82
1080672--1081054	174	2.2	174	84	1	498	39	12	20	27	1.88
1080809--1081104	36	8.4	35	72	17	120	39	12	20	27	1.89
1081536--1081571	18	2.0	18	94	0	63	41	33	8	16	1.78
1082006--1082048	22	2.0	22	90	9	70	25	11	23	39	1.88
1082637--1082689	23	2.3	24	83	6	65	0	15	9	75	1.04
1082651--1082698	16	2.9	16	80	20	55	0	12	8	79	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082648--1082700	24	2.2	24	83	6	72	0	11	7	81	0.88
1082670--1082709	14	2.9	13	85	10	53	0	12	10	77	0.99
1082670--1082711	13	3.2	13	80	12	50	0	11	9	78	0.96
1085694--1085727	9	3.8	9	88	11	52	76	0	2	20	0.92
1085693--1085727	13	2.6	13	90	4	52	77	0	2	20	0.90
1085662--1085738	18	4.1	18	69	21	59	72	1	11	14	1.18
1085990--1086014	2	12.5	2	100	0	50	52	0	0	48	1.00
1086263--1086305	18	2.5	17	85	7	61	67	2	4	25	1.22
1086681--1086772	35	2.6	37	84	5	109	32	13	16	38	1.87
1087499--1087527	2	14.5	2	100	0	58	51	0	0	48	1.00
1087598--1087637	16	2.4	16	87	8	53	57	0	0	42	0.98
1098858--1098884	7	3.9	7	100	0	54	0	11	0	88	0.50
1099156--1099187	16	2.0	16	93	0	55	34	3	12	50	1.56
1101429--1101473	20	2.2	20	84	7	56	60	0	4	35	1.17
1109550--1109578	14	2.1	14	100	0	58	13	20	0	65	1.26
1113097--1113130	17	1.9	18	88	5	52	64	5	0	29	1.17
1113312--1113390	40	2.0	40	85	5	106	24	36	26	12	1.91
1123165--1123269	20	5.0	22	73	16	89	52	1	0	44	1.18
1123166--1123269	11	10.0	10	77	15	63	51	1	0	45	1.18
1123165--1123270	31	3.4	30	74	13	88	51	1	0	45	1.18
1123165--1123268	32	3.3	32	82	6	115	52	1	0	44	1.18
1126599--1126873	135	2.0	135	96	0	505	23	23	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127021--1127086	33	2.0	33	93	0	114	19	24	30	25	1.98
1129178--1129233	2	28.0	2	100	0	112	50	0	0	50	1.00
1133670--1133709	2	20.0	2	100	0	80	50	0	0	50	1.00
1141387--1141427	22	1.9	22	85	5	57	43	4	9	41	1.59
1155288--1155313	6	4.3	6	100	0	52	15	0	15	69	1.20
1159402--1159427	2	13.0	2	100	0	52	50	0	0	50	1.00
1161138--1161180	21	2.0	21	100	0	86	18	27	23	30	1.98
1166560--1166587	10	2.8	10	100	0	56	17	0	28	53	1.44
1166875--1166942	2	34.0	2	72	21	54	47	2	5	44	1.42
1166885--1166943	22	2.7	22	100	0	118	47	3	6	42	1.46
1167256--1167349	20	4.7	20	79	7	91	32	25	17	24	1.96
1167831--1167882	20	2.7	20	80	14	72	46	21	19	13	1.84
1167894--1167976	33	2.5	33	90	2	121	13	25	21	39	1.90
1167947--1168004	20	2.9	19	78	19	64	13	24	17	44	1.85
1170093--1170215	42	2.9	42	78	4	106	22	36	18	21	1.95
1170149--1170215	21	3.2	21	66	6	55	23	35	20	19	1.95
1171568--1171603	14	2.6	14	95	0	63	30	0	25	44	1.54
1171748--1171865	19	6.7	19	66	19	67	13	22	20	43	1.87
1171752--1171845	33	2.8	33	96	0	170	12	23	19	44	1.85
1174136--1174160	12	2.1	12	100	0	50	0	28	0	72	0.86
1174335--1174388	24	2.2	24	90	0	81	40	20	16	22	1.91
1175128--1175241	20	5.7	20	84	6	140	22	19	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175108--1175245	41	3.4	41	83	6	172	21	18	25	34	1.96
1175108--1175263	41	3.8	41	81	3	136	21	20	25	33	1.97
1177185--1177212	3	9.3	3	100	0	56	0	32	0	67	0.91
1178433--1178524	33	2.8	33	76	3	96	10	34	33	20	1.88
1188542--1188788	128	1.9	126	88	3	370	38	15	19	26	1.91
1192129--1192194	3	22.0	3	100	0	132	66	0	0	33	0.92
1193195--1193245	20	2.5	20	90	6	77	33	23	27	15	1.95
1197824--1197870	18	2.8	18	81	12	55	51	0	0	48	1.00
1197827--1197870	17	2.5	19	82	14	58	50	0	0	50	1.00
1199498--1199554	3	18.7	3	85	10	80	63	0	0	36	0.95

Tables:   1   2   3   4   5   6   7   8