genome.fa.s521.2.7.7.80.10.50.1000.5.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: VEPZ01000521.1 Hibiscus syriacus cultivar Beakdansim tig00000999_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1347562

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 591 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)
1127961--1127992	16	2.0	16	100	0	64	43	12	6	37	1.68
1128422--1128760	168	2.0	169	94	0	599	37	14	24	23	1.92
1129906--1129997	20	5.0	20	71	20	83	35	5	15	43	1.69
1129890--1130001	52	2.2	51	95	1	197	31	6	14	48	1.68
1130450--1130518	30	2.2	30	85	15	95	34	5	15	43	1.71
1130458--1130530	30	2.4	31	86	13	107	32	6	15	45	1.72
1130599--1130656	21	2.8	21	97	0	107	20	39	18	20	1.92
1130705--1130776	20	3.7	19	94	3	117	16	27	22	33	1.95
1130868--1130907	20	1.9	21	85	10	55	37	37	10	15	1.80
1142414--1142442	2	14.5	2	100	0	58	51	48	0	0	1.00
1143014--1143118	34	3.1	34	90	0	147	42	25	7	23	1.80
1153947--1154001	23	2.4	23	93	0	92	50	7	25	16	1.70
1162571--1162615	22	2.0	22	100	0	90	31	22	13	33	1.92
1164906--1164949	21	2.1	21	82	0	52	43	2	9	45	1.48
1164915--1165025	47	2.4	48	81	7	138	43	3	10	42	1.57
1164928--1164976	26	1.9	25	83	4	62	42	4	14	38	1.64
1169727--1169834	44	2.5	43	75	4	117	38	6	16	37	1.75
1170912--1170972	23	2.7	23	86	0	86	27	24	26	21	1.99
1171238--1171286	25	2.0	25	100	0	98	42	16	4	36	1.67
1171589--1171637	20	2.5	20	100	0	98	30	28	16	24	1.96
1178914--1178966	24	2.5	21	78	21	65	24	20	13	41	1.88
1178935--1178985	21	2.5	20	78	9	59	23	15	11	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182753--1182777	2	12.5	2	100	0	50	48	0	0	52	1.00
1182959--1183027	31	2.2	32	84	7	88	55	10	7	27	1.60
1183478--1183516	21	1.9	20	84	5	51	43	2	0	53	1.14
1184151--1184183	2	17.0	2	93	6	59	51	0	0	48	1.00
1190032--1190062	8	3.9	8	100	0	62	38	0	0	61	0.96
1191094--1191153	24	2.4	25	78	10	61	73	0	10	16	1.09
1191103--1191154	24	2.1	26	85	7	72	75	0	9	15	1.05
1191119--1191204	39	2.2	39	79	6	93	75	3	8	12	1.15
1191208--1191258	23	2.1	23	85	10	66	72	1	1	23	1.05
1191132--1191227	29	3.3	28	72	15	79	73	3	9	13	1.19
1191207--1191322	15	7.9	14	72	16	65	69	2	6	21	1.22
1191278--1191319	10	4.4	9	85	8	57	73	0	4	21	1.01
1191090--1191326	20	12.3	19	66	20	73	71	2	8	17	1.23
1191278--1191332	11	4.9	11	79	18	51	70	0	3	25	1.03
1191423--1191456	17	2.1	15	89	10	50	61	0	0	38	0.96
1191428--1191474	21	2.2	21	82	10	60	63	0	2	34	1.06
1192593--1192641	18	2.7	20	72	18	52	46	8	4	40	1.52
1196959--1197134	51	3.4	51	88	1	262	27	24	15	31	1.96
1197146--1197532	54	7.2	54	93	0	643	18	24	18	38	1.93
1197146--1197532	107	3.6	108	94	1	643	18	24	18	38	1.93
1197146--1197517	161	2.3	162	92	1	622	18	24	18	37	1.93
1197537--1197610	37	2.0	37	84	5	96	21	18	16	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202669--1202819	72	2.1	72	93	0	257	23	26	13	37	1.91
1203480--1203611	55	2.4	56	91	2	198	21	21	12	43	1.86
1203498--1203612	55	2.1	55	96	0	212	24	23	10	41	1.85
1205625--1205670	18	2.5	19	79	13	51	67	0	0	32	0.91
1209223--1209256	13	2.6	13	95	0	59	64	0	2	32	1.08
1209769--1209837	26	2.6	27	90	4	113	52	2	18	26	1.60
1213438--1213476	12	3.2	12	85	7	53	30	0	0	69	0.89
1213837--1213889	21	2.5	21	93	0	88	30	32	20	16	1.95
1213879--1213972	44	2.3	41	85	10	122	23	22	20	34	1.97
1213901--1214126	42	5.4	41	85	7	210	23	20	22	34	1.97
1213885--1214126	105	2.3	103	83	6	294	23	20	21	34	1.96
1213893--1214035	63	2.3	62	85	4	180	23	20	22	32	1.98
1213912--1214119	63	3.3	61	78	13	190	22	20	22	35	1.96
1213924--1214126	84	2.4	84	84	8	299	23	19	22	34	1.96
1214950--1215169	42	5.2	43	84	8	276	39	21	17	21	1.93
1214974--1215237	21	12.6	22	70	20	76	35	23	18	21	1.96
1221452--1221487	12	3.0	12	91	0	54	38	8	0	52	1.32
1226257--1226310	21	2.6	21	87	0	63	33	22	22	22	1.97
1226318--1226411	41	2.3	41	90	3	145	31	19	23	25	1.98
1226342--1226489	21	7.1	21	71	17	94	29	20	23	25	1.99
1226297--1226489	62	3.1	62	88	5	268	32	19	22	25	1.98
1227183--1227265	42	2.0	42	97	0	157	36	24	19	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227187--1227348	65	2.5	64	92	3	258	36	24	19	19	1.95
1227250--1227344	42	2.2	42	94	3	163	34	26	20	18	1.96
1234137--1234168	13	2.5	13	94	0	55	34	28	6	31	1.82
1243774--1243807	14	2.4	14	95	0	59	5	70	17	5	1.28
1252323--1252598	138	2.0	138	95	0	498	42	14	17	25	1.87
1255013--1255151	69	2.0	69	98	0	269	29	9	35	25	1.87
1263312--1263370	21	2.8	21	80	10	84	8	27	40	23	1.83
1277653--1278616	227	4.2	228	79	2	873	31	21	21	24	1.98
1278482--1278757	138	2.0	138	100	0	552	28	21	21	28	1.99
1278696--1278948	123	2.1	123	97	0	479	34	19	24	21	1.97
1278819--1279388	228	2.5	226	87	5	810	31	20	25	22	1.98
1286774--1286804	2	15.5	2	93	0	53	51	0	0	48	1.00
1288491--1288525	18	2.1	18	89	10	56	48	5	11	34	1.63
1290587--1290615	15	1.9	15	100	0	58	48	3	0	48	1.18
1290559--1290679	63	1.9	61	82	11	147	42	9	5	42	1.60
1291049--1291084	17	2.2	16	90	5	54	36	0	0	63	0.94
1291047--1291085	19	2.1	19	85	9	53	38	0	0	61	0.96
1292145--1292279	15	8.5	15	73	17	103	43	0	4	51	1.27
1292241--1292295	18	3.3	18	68	19	55	34	0	12	52	1.40
1292227--1292302	32	2.4	32	95	0	134	38	0	9	52	1.33
1292339--1292391	14	3.5	14	72	18	52	37	0	5	56	1.23
1292332--1292764	32	14.6	32	70	25	264	35	0	12	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292353--1292409	18	3.4	18	69	18	59	33	0	12	54	1.38
1292394--1292458	22	3.0	22	95	0	121	36	0	12	50	1.40
1292470--1292512	22	2.0	22	100	0	86	34	0	13	51	1.42
1292556--1292700	22	6.0	22	70	20	101	35	0	13	51	1.41
1292416--1292925	188	2.7	185	89	3	691	33	0	13	52	1.41
1292689--1292742	14	3.6	14	72	18	54	37	0	5	57	1.22
1292394--1292947	269	2.1	264	90	6	879	34	0	13	52	1.41
1292741--1292888	26	5.8	25	70	20	101	29	0	17	52	1.45
1292658--1292942	81	3.5	80	93	4	455	32	0	14	52	1.42
1292905--1292947	22	2.0	22	100	0	86	34	0	13	51	1.42
1292972--1293030	31	1.9	31	92	0	100	42	10	6	40	1.65
1293048--1293090	16	2.7	16	92	0	68	23	6	6	62	1.45
1293542--1293623	30	2.7	31	84	3	114	43	0	3	52	1.18
1293575--1293623	20	2.6	19	87	6	64	44	0	2	53	1.12
1295653--1295681	14	2.0	15	93	6	51	68	6	0	24	1.13
1296957--1296991	17	2.1	17	89	10	54	40	0	0	60	0.97
1302753--1302796	23	1.9	23	100	0	88	25	13	11	50	1.75
1305239--1305294	25	2.2	26	90	3	87	58	12	8	19	1.60
1313091--1313122	3	10.7	3	93	0	55	31	0	3	65	1.08
1320575--1320622	18	2.6	18	76	3	51	62	0	0	37	0.95
1324272--1324305	16	2.1	16	88	5	50	47	0	5	47	1.26
1327841--1327882	21	2.0	21	100	0	84	23	19	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345656--1345685	2	15.5	2	93	6	53	46	0	0	53	1.00

Tables:   1   2   3   4   5

The End!