genome.fa.s9583.2.7.7.80.10.50.1000.6.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: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1341443

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 696 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)
1155324--1155384	16	3.6	16	71	16	59	36	0	44	19	1.51
1155330--1155391	18	3.3	20	69	17	69	37	0	46	16	1.47
1155323--1155394	36	2.0	36	97	0	135	34	0	47	18	1.49
1157049--1158404	201	6.8	201	85	0	1642	32	18	19	29	1.96
1157048--1158404	401	3.4	401	85	2	1692	32	18	19	29	1.96
1157053--1158406	602	2.2	599	84	3	1723	32	18	19	28	1.96
1158898--1158926	2	14.5	2	100	0	58	51	0	0	48	1.00
1158870--1158947	19	3.9	19	73	6	66	48	1	3	46	1.28
1158879--1158951	37	2.0	37	89	5	112	49	1	4	45	1.29
1158912--1158962	26	2.0	27	92	7	88	47	3	7	41	1.51
1158990--1159030	20	2.1	20	90	4	66	46	0	7	46	1.30
1159040--1159095	14	4.0	14	80	19	55	32	0	1	66	1.03
1159054--1159089	10	3.5	10	88	3	54	33	0	0	66	0.92
1159048--1159103	17	3.5	16	84	13	71	30	0	0	69	0.89
1162127--1162160	11	3.0	11	87	8	50	35	0	0	64	0.94
1163203--1163280	31	2.5	32	85	10	99	46	5	11	37	1.62
1165356--1165408	27	2.0	27	92	0	88	33	26	9	30	1.88
1168411--1168748	167	2.0	170	98	1	655	45	10	19	24	1.81
1169139--1169187	23	2.1	23	85	7	64	59	12	2	26	1.44
1170935--1170960	5	5.2	5	100	0	52	42	19	19	19	1.90
1174651--1174697	23	2.0	23	84	8	60	57	12	2	27	1.47
1182303--1182334	15	2.1	16	94	5	57	9	18	0	71	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182954--1183006	13	3.9	13	80	5	52	35	15	11	37	1.83
1188705--1188760	13	4.3	13	84	4	69	35	17	19	26	1.94
1188696--1188750	26	2.1	26	86	0	74	36	18	20	25	1.94
1188705--1188760	26	2.2	26	90	0	85	35	17	19	26	1.94
1189333--1189374	18	2.4	18	88	7	61	28	2	26	42	1.67
1189333--1189374	9	4.9	9	77	11	52	28	2	26	42	1.67
1192837--1192891	24	2.3	24	100	0	110	27	3	32	36	1.74
1194453--1194494	18	2.4	18	88	7	61	28	0	23	47	1.52
1194453--1194494	9	4.9	9	80	11	52	28	0	23	47	1.52
1194667--1194761	32	3.0	32	95	0	163	28	20	23	28	1.98
1198012--1198067	22	2.6	23	83	11	73	33	16	26	23	1.95
1199231--1199294	32	2.0	32	96	0	119	29	9	26	34	1.88
1199511--1199552	18	2.4	18	88	7	61	28	2	28	40	1.69
1199725--1199815	32	2.8	32	91	0	155	24	20	23	31	1.98
1200130--1200207	35	2.2	35	100	0	156	21	19	28	30	1.97
1200760--1200947	18	10.4	18	87	0	232	30	28	19	22	1.98
1205402--1205455	27	2.0	27	92	0	90	40	7	5	46	1.55
1205575--1205604	14	2.1	15	93	6	53	36	6	3	53	1.44
1209602--1209635	18	1.9	18	88	5	52	26	29	26	17	1.98
1213238--1213286	23	2.1	23	92	0	80	42	24	12	20	1.86
1213247--1213365	21	5.6	21	80	6	123	34	26	16	22	1.95
1213268--1213366	42	2.4	42	91	0	153	32	25	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216083--1216107	6	4.2	6	100	0	50	36	48	16	0	1.46
1222082--1222147	33	2.0	33	100	0	132	15	39	9	36	1.79
1223619--1223756	59	2.4	59	83	3	181	24	34	18	23	1.96
1224049--1224075	7	3.9	7	100	0	54	25	0	0	74	0.83
1224991--1225016	2	13.0	2	100	0	52	50	0	0	50	1.00
1226840--1226870	16	1.9	16	93	0	53	45	12	3	38	1.59
1228922--1228977	3	18.7	3	100	0	112	33	0	0	66	0.92
1231551--1231589	19	2.1	18	85	4	51	20	7	0	71	1.10
1231723--1231786	27	2.4	27	82	15	71	28	6	1	64	1.27
1237949--1238010	32	1.9	32	90	0	97	41	19	19	19	1.90
1240410--1240649	75	3.3	73	79	12	228	32	15	22	30	1.95
1241987--1242065	22	3.6	22	91	0	131	31	16	13	37	1.88
1242735--1242870	45	3.0	45	89	2	209	22	24	21	32	1.98
1242880--1243432	45	12.2	45	90	2	759	24	22	18	34	1.96
1242880--1243432	227	2.5	224	87	3	603	24	22	18	34	1.96
1243739--1243807	23	3.0	23	93	0	120	14	50	11	23	1.75
1251274--1251346	36	2.0	36	81	5	85	39	21	4	34	1.73
1259142--1259198	19	2.8	21	81	7	73	14	28	33	24	1.94
1262944--1262985	21	2.0	20	86	4	57	38	2	7	52	1.42
1265193--1265234	21	2.0	20	86	4	57	38	2	7	52	1.42
1267435--1267476	21	2.0	20	86	4	57	38	2	7	52	1.42
1269689--1269730	21	2.0	20	86	4	57	38	2	7	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273176--1273499	180	1.8	180	95	0	594	32	18	17	31	1.95
1275300--1275330	15	2.1	15	93	0	53	41	3	0	54	1.16
1275559--1275593	18	1.9	18	88	0	52	28	37	17	17	1.92
1286490--1286562	36	2.0	36	89	0	110	36	19	8	35	1.81
1289373--1289420	14	3.4	15	81	16	50	33	2	0	64	1.05
1289383--1289450	19	3.6	19	72	18	54	30	1	4	63	1.23
1290863--1291028	89	1.9	89	94	0	296	24	25	21	28	1.99
1291938--1291986	10	4.7	10	80	9	62	59	22	10	8	1.56
1292209--1292251	12	3.7	12	81	6	61	23	25	23	27	2.00
1292763--1292810	10	4.4	10	78	19	51	54	25	12	8	1.65
1292770--1292811	14	3.3	14	75	25	56	52	26	14	7	1.67
1292763--1292811	24	2.0	24	100	0	98	53	24	14	8	1.68
1293566--1293602	20	1.9	19	89	10	58	18	21	10	48	1.78
1295600--1295629	2	15.0	2	100	0	60	50	0	0	50	1.00
1301844--1301958	58	2.0	58	87	0	167	38	10	13	38	1.78
1306212--1306261	23	2.3	23	86	6	68	44	2	0	54	1.11
1306308--1306347	16	2.5	16	100	0	80	40	0	0	60	0.97
1311134--1311186	24	2.2	24	86	6	81	9	15	15	60	1.58
1324166--1324232	2	34.0	2	77	14	68	53	2	1	41	1.25
1324845--1324928	21	4.1	21	67	21	70	48	0	1	50	1.08
1326393--1326466	38	1.9	38	94	0	130	12	37	6	43	1.69
1327160--1327224	28	2.4	28	94	2	114	13	9	35	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327808--1327855	18	2.7	18	93	3	80	29	25	8	37	1.85
1328381--1328441	32	1.9	32	86	0	86	32	16	16	34	1.91
1328646--1328702	2	28.5	2	100	0	114	49	0	0	50	1.00
1331371--1331405	18	1.9	18	88	0	52	28	17	0	54	1.43
1332716--1332786	18	4.2	18	72	17	71	14	14	50	21	1.77
1332716--1332781	31	2.1	31	91	0	105	15	13	50	21	1.78
1336560--1336591	15	2.1	15	94	0	55	53	15	25	6	1.65
1341252--1341297	22	2.1	22	95	0	83	47	4	15	32	1.65

Tables:   1   2   3   4   5   6

The End!