genome.fa.s8855.2.7.7.80.10.50.1000.5.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: VEPZ01008855.1 Hibiscus syriacus cultivar Beakdansim tig00112072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1316246

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 571 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)
1121995--1122160	28	5.9	28	80	10	151	32	1	15	50	1.54
1129184--1129373	29	6.8	29	80	8	133	32	3	15	48	1.61
1129218--1129373	27	5.6	27	78	10	136	35	3	12	48	1.60
1129331--1129386	30	1.9	28	89	7	85	32	5	17	44	1.72
1129334--1129397	30	2.2	28	81	8	74	35	4	18	40	1.72
1131728--1131784	28	2.0	28	86	0	78	45	3	15	35	1.64
1145170--1145322	61	2.5	61	91	2	236	24	14	29	32	1.94
1145381--1145422	20	2.1	20	90	0	66	16	9	26	47	1.77
1145482--1145545	31	2.1	31	96	0	119	39	7	18	34	1.80
1148380--1148476	15	6.3	15	78	13	99	83	1	13	2	0.79
1148380--1148478	24	4.2	24	78	16	93	83	1	13	2	0.78
1148379--1148478	1	100.0	1	67	0	56	84	1	13	2	0.77
1152508--1152652	45	3.2	45	91	0	227	37	7	24	30	1.83
1152915--1152959	22	2.0	24	86	8	67	44	37	6	11	1.66
1160806--1160894	42	2.1	42	91	0	142	26	19	19	34	1.95
1160807--1160919	42	2.7	42	84	4	113	28	21	18	31	1.97
1160966--1161307	135	2.5	135	90	2	537	32	17	21	28	1.96
1161284--1161661	107	3.6	105	88	4	505	42	16	16	24	1.88
1161579--1162170	208	2.9	208	90	1	906	39	14	19	26	1.90
1161787--1161967	91	2.0	91	91	4	294	40	13	19	26	1.88
1162340--1162391	3	17.7	3	84	4	70	40	0	0	59	0.97
1162434--1162478	22	2.0	24	86	8	67	44	37	6	11	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172425--1172492	28	2.3	29	85	5	84	52	5	1	39	1.34
1173346--1173387	14	3.3	12	81	18	50	66	11	0	21	1.23
1173371--1173525	75	2.1	74	85	6	206	52	16	5	25	1.64
1173812--1173841	14	2.1	14	93	0	51	30	10	23	36	1.87
1173913--1173945	2	16.5	2	100	0	66	48	0	0	51	1.00
1174123--1174170	20	2.3	21	96	3	89	54	0	27	18	1.44
1174123--1174176	20	2.7	20	91	5	74	57	0	24	18	1.40
1176821--1176869	26	2.0	26	84	8	66	40	6	32	20	1.77
1178817--1178932	60	1.9	60	82	6	146	41	6	19	31	1.78
1187145--1187378	120	2.0	117	92	3	389	38	8	8	44	1.66
1188251--1188374	61	2.0	61	93	0	212	27	17	10	44	1.82
1192991--1193038	18	2.7	18	80	9	62	41	0	4	54	1.20
1195561--1195603	21	2.2	20	83	8	52	48	2	16	32	1.58
1198269--1198484	27	7.7	27	70	9	126	37	12	4	45	1.62
1201513--1201588	38	2.0	38	92	0	125	38	18	11	31	1.87
1201595--1201641	13	3.7	13	71	5	51	25	6	6	61	1.44
1201599--1201657	25	2.4	25	97	0	109	32	3	3	61	1.29
1205101--1205143	15	2.9	15	92	0	68	23	9	37	30	1.86
1205711--1205748	17	2.2	17	95	0	67	39	21	13	26	1.89
1209307--1209376	29	2.4	29	78	2	77	27	14	15	42	1.86
1214814--1214904	36	2.6	33	73	17	85	25	12	18	43	1.84
1226161--1226315	65	2.4	65	81	5	190	25	19	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226206--1226363	65	2.4	65	82	2	183	27	17	22	32	1.96
1232082--1232121	21	1.9	21	90	10	64	32	7	5	55	1.50
1237492--1237559	30	2.3	29	82	9	84	51	1	1	45	1.19
1237621--1237674	23	2.3	24	93	3	92	44	0	7	48	1.31
1239580--1239740	2	81.0	2	78	12	172	47	3	0	48	1.22
1239704--1239898	13	15.1	13	67	18	88	42	4	5	47	1.46
1239770--1239871	28	3.5	28	81	12	93	43	4	5	46	1.49
1239832--1239882	18	2.8	18	82	11	68	45	1	5	47	1.38
1240134--1240169	11	3.3	11	88	0	54	52	13	2	30	1.55
1240162--1240218	23	2.6	21	76	10	60	38	3	1	56	1.27
1242049--1242090	23	1.9	23	85	9	61	45	9	0	45	1.36
1242102--1242138	18	2.1	18	100	0	74	48	0	18	32	1.49
1244615--1244649	2	17.5	2	100	0	70	48	0	0	51	1.00
1251741--1251791	20	2.5	20	83	6	57	35	15	29	19	1.93
1251759--1251965	95	2.2	93	81	8	222	31	15	25	27	1.96
1251928--1251988	22	2.9	21	81	13	72	31	18	27	22	1.97
1251928--1251988	21	2.9	20	80	17	70	31	18	27	22	1.97
1252329--1252926	57	10.5	57	91	0	955	35	11	19	33	1.87
1256731--1256782	21	2.5	21	96	0	95	34	26	15	23	1.94
1257396--1257878	57	8.5	57	93	0	806	36	11	18	32	1.88
1264790--1264829	21	1.9	22	90	10	66	12	10	40	37	1.77
1265267--1265320	18	2.8	20	86	13	85	46	11	9	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265257--1265319	19	3.3	19	82	12	83	49	9	12	28	1.72
1268448--1268485	20	1.9	20	88	0	58	21	21	39	18	1.93
1268449--1268514	33	1.9	33	84	6	87	19	22	36	21	1.95
1269660--1269708	19	2.6	19	87	6	64	32	18	22	26	1.97
1271839--1271928	13	6.7	13	86	6	117	14	25	18	41	1.89
1271837--1271927	27	3.4	27	89	3	139	14	26	18	40	1.89
1279845--1279907	33	1.9	33	96	0	117	25	19	26	28	1.98
1279979--1280009	7	4.4	7	95	0	53	19	0	22	58	1.40
1287168--1287222	28	2.0	28	92	0	92	7	45	1	45	1.41
1287894--1287981	44	2.0	44	88	0	131	20	20	22	36	1.95
1289278--1289312	18	1.9	18	88	0	52	54	0	17	28	1.43
1292507--1292561	28	2.0	28	92	0	92	7	43	1	47	1.41
1293236--1293325	45	2.0	45	86	0	126	21	20	24	34	1.96
1294626--1294660	18	1.9	18	88	0	52	54	0	17	28	1.43
1297269--1297331	33	1.9	33	100	0	126	23	19	28	28	1.98
1302073--1302277	98	2.1	98	98	0	394	22	11	19	45	1.83
1303636--1303680	2	23.0	2	86	4	65	53	0	0	46	1.00
1303880--1303915	2	18.0	2	88	11	56	50	0	2	47	1.15
1303932--1303972	19	2.2	19	86	8	57	41	0	12	46	1.41
1303947--1304106	37	4.3	37	79	7	153	43	3	10	43	1.53
1303971--1304105	36	3.6	37	76	6	121	42	3	10	42	1.56
1304095--1304150	22	2.5	23	77	13	64	46	1	1	50	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304965--1305013	22	2.3	22	82	10	57	63	16	8	12	1.51
1309043--1309112	34	2.1	34	100	0	140	28	24	21	25	1.99
1311669--1311722	23	2.4	22	81	6	63	22	24	24	29	1.99

Tables:   1   2   3   4   5

The End!