genome.fa.s7980.2.7.7.80.10.50.1000.7.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: VEPZ01007980.1 Hibiscus syriacus cultivar Beakdansim tig00110419_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1499237

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 886 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)
1197571--1197631	11	5.2	12	79	16	67	0	18	0	81	0.68
1197566--1197631	33	2.0	34	87	3	98	0	19	0	80	0.72
1197585--1197630	21	2.1	22	88	11	69	0	15	0	84	0.62
1199966--1200036	32	2.2	32	87	5	99	21	18	18	42	1.90
1199977--1200047	32	2.3	31	95	2	124	19	19	18	42	1.90
1203217--1203255	21	1.9	21	89	5	62	48	10	10	30	1.70
1205687--1205807	21	5.8	21	80	10	131	23	17	37	22	1.94
1205687--1205807	63	1.9	63	83	9	158	23	17	37	22	1.94
1207760--1207866	45	2.4	45	85	4	144	30	22	17	28	1.97
1213660--1213740	23	3.6	22	76	6	83	23	27	24	24	2.00
1216402--1216562	65	2.5	64	88	5	236	31	21	18	28	1.97
1216402--1216586	64	2.9	63	82	8	221	30	22	20	27	1.98
1218110--1218162	15	3.6	14	80	12	54	60	1	15	22	1.44
1221122--1221160	20	2.0	20	84	0	51	35	0	17	46	1.49
1222799--1222893	19	5.0	19	80	2	75	40	7	18	33	1.79
1222918--1222961	12	3.6	12	81	3	52	50	2	20	27	1.60
1225815--1225883	30	2.3	31	78	12	72	37	7	23	31	1.82
1231930--1232111	91	2.0	91	97	0	346	32	24	15	28	1.95
1238622--1238687	23	2.9	23	81	4	71	42	15	15	27	1.86
1238636--1238711	23	3.2	24	80	7	77	42	17	13	27	1.86
1239450--1239501	18	2.9	18	88	0	77	55	7	21	15	1.64
1239448--1239648	99	2.0	99	93	1	341	51	8	14	24	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239554--1239600	18	2.7	18	93	3	78	57	10	17	14	1.65
1240875--1240901	13	2.1	13	100	0	54	29	14	11	44	1.80
1244749--1244818	2	35.0	2	100	0	140	50	0	0	50	1.00
1251051--1251230	89	2.0	91	96	2	337	32	24	15	27	1.95
1252268--1252319	23	2.2	23	86	3	68	40	17	15	26	1.89
1252283--1252343	23	2.6	24	82	7	72	44	14	11	29	1.81
1252952--1253128	75	2.3	76	90	1	266	23	32	23	20	1.98
1258893--1258953	23	2.9	19	81	11	59	21	36	26	16	1.94
1260900--1260947	17	2.9	17	80	17	57	14	0	27	58	1.37
1261567--1261724	76	2.1	76	87	2	228	22	33	22	20	1.97
1261543--1261724	76	2.3	77	84	7	224	22	34	23	20	1.97
1262818--1262869	18	2.9	18	85	5	70	57	5	21	15	1.58
1262816--1263014	100	2.0	100	93	2	337	51	8	15	25	1.70
1262922--1262969	18	2.7	18	96	0	87	58	10	16	14	1.63
1266108--1266153	2	23.0	2	100	0	92	50	0	0	50	1.00
1269868--1269932	3	21.0	3	81	6	76	60	0	0	40	0.97
1270058--1270206	45	3.3	45	95	1	262	35	20	20	23	1.96
1270139--1270586	76	5.9	76	92	1	729	35	21	20	23	1.96
1270453--1270684	121	1.9	121	95	0	419	35	21	21	21	1.96
1270518--1270627	45	2.4	45	95	3	193	33	22	22	20	1.97
1270183--1270662	152	3.2	151	86	5	483	35	21	20	22	1.96
1270183--1270662	228	2.1	226	82	6	558	35	21	20	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274053--1274269	114	1.9	114	92	0	362	29	20	15	33	1.94
1278676--1278713	7	5.4	7	100	0	76	60	13	13	13	1.59
1282784--1282827	3	14.0	3	81	9	52	61	0	0	38	0.96
1283516--1283583	21	3.3	21	70	15	61	41	1	2	54	1.24
1283948--1283994	24	2.0	24	95	0	85	4	25	21	48	1.68
1284867--1284905	18	2.2	18	90	0	60	35	0	0	64	0.94
1285962--1286340	41	9.2	41	78	6	334	25	18	20	36	1.95
1286056--1286357	166	1.8	166	83	0	406	26	19	18	35	1.95
1286076--1286357	125	2.3	126	83	3	347	24	19	18	37	1.94
1286439--1286479	21	2.0	21	95	0	73	26	43	7	21	1.79
1290221--1290659	43	10.5	42	76	10	309	27	22	17	33	1.96
1290221--1290595	85	4.6	85	79	10	316	28	21	17	33	1.96
1290421--1290481	30	2.0	30	87	0	86	36	24	13	26	1.92
1294251--1294275	2	12.5	2	100	0	50	48	0	0	52	1.00
1299709--1299751	18	2.4	18	80	0	50	41	13	0	44	1.44
1300073--1300113	20	2.0	20	90	0	64	36	17	7	39	1.77
1305453--1305497	20	2.3	19	84	3	54	35	0	2	62	1.08
1305448--1305503	29	2.0	30	83	13	75	37	0	1	60	1.07
1305496--1305562	3	22.3	3	93	0	107	61	0	4	34	1.16
1305887--1306122	112	2.1	113	91	1	377	30	17	14	37	1.90
1305974--1306288	166	1.9	166	98	0	612	31	17	16	35	1.92
1306138--1306948	113	7.2	113	98	0	1543	30	18	14	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307667--1307921	136	1.9	134	92	1	429	38	20	14	26	1.91
1307801--1308004	83	2.4	84	96	2	376	37	22	15	25	1.93
1307666--1308071	219	1.9	218	93	1	697	37	21	14	27	1.92
1312633--1313034	202	2.0	200	98	1	770	39	11	13	35	1.81
1321951--1322008	3	19.3	3	92	0	98	62	0	3	34	1.12
1324200--1324268	21	3.3	21	93	0	111	27	36	17	18	1.94
1330890--1330924	11	3.3	11	92	4	54	65	0	5	28	1.15
1331201--1331229	15	1.9	15	100	0	58	55	0	0	44	0.99
1332398--1332422	13	1.9	13	100	0	50	64	0	0	36	0.94
1332759--1333311	112	4.9	113	87	5	759	28	18	15	37	1.91
1332890--1332934	23	1.9	23	82	13	56	15	26	6	51	1.68
1332777--1333318	226	2.4	221	88	5	754	27	18	14	38	1.90
1333606--1333838	115	2.0	115	94	0	403	31	18	15	34	1.92
1339436--1339501	21	3.0	22	77	16	66	68	1	3	27	1.13
1341705--1341751	3	16.0	3	91	4	78	68	0	0	31	0.90
1344618--1344771	21	7.6	22	69	23	88	46	1	0	51	1.09
1344742--1344769	2	14.0	2	100	0	56	50	0	0	50	1.00
1350964--1350993	2	15.0	2	100	0	60	50	0	0	50	1.00
1351104--1351136	17	1.9	17	100	0	66	42	6	9	42	1.61
1353009--1353099	4	21.8	4	71	16	60	27	1	4	67	1.17
1354740--1354793	26	2.0	27	89	3	83	24	22	20	33	1.97
1355024--1355062	20	2.0	20	89	0	60	15	0	51	33	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356010--1356659	324	2.0	324	96	3	1202	31	19	13	36	1.90
1356903--1356942	16	2.5	16	95	0	71	7	37	20	35	1.81
1358029--1358054	2	13.0	2	100	0	52	50	0	0	50	1.00
1358720--1358781	22	2.7	23	78	9	65	32	20	24	22	1.98
1359754--1359976	113	2.0	110	97	2	419	32	11	17	38	1.85
1360114--1360209	48	2.0	48	95	4	176	25	12	13	48	1.77
1364271--1364331	29	2.1	30	87	3	88	37	22	3	36	1.71
1367622--1367682	21	2.9	21	82	2	77	18	26	31	24	1.97
1371230--1371269	18	2.2	18	90	0	62	27	12	5	55	1.58
1378835--1378937	36	2.9	36	98	0	197	41	16	16	25	1.89
1382691--1382858	57	2.9	57	90	0	264	35	30	19	14	1.91
1382933--1383023	24	3.8	24	77	8	96	37	18	14	29	1.90
1387337--1387504	57	3.0	55	80	4	192	34	27	21	16	1.95
1387579--1387669	24	3.8	24	79	2	94	35	19	17	27	1.95
1389124--1389148	12	2.1	12	100	0	50	24	24	20	32	1.98
1393709--1393756	21	2.3	21	85	7	62	12	25	10	52	1.71
1394723--1394763	17	2.4	17	87	0	55	31	0	0	68	0.90
1395047--1395264	43	5.1	43	90	3	341	20	17	23	37	1.94
1395261--1395378	43	2.8	43	92	3	186	36	20	14	28	1.92
1398540--1398795	125	2.1	124	87	0	359	31	17	18	33	1.94
1398625--1398894	41	6.5	41	70	13	149	33	18	17	31	1.93
1398676--1398939	83	3.2	83	85	1	316	35	19	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398585--1398855	125	2.2	123	82	6	314	35	17	16	30	1.93
1399687--1399801	51	2.3	51	90	0	176	51	10	1	36	1.47
1400861--1400919	24	2.5	23	76	13	57	30	11	3	54	1.53
1403937--1403971	2	18.0	2	94	5	63	51	0	0	48	1.00
1406588--1406686	33	3.0	33	91	1	155	45	14	7	33	1.71
1406681--1406722	21	2.0	21	95	0	75	47	7	14	30	1.71
1409019--1409058	12	3.1	12	80	19	53	20	17	15	47	1.83
1409018--1409057	15	2.9	14	85	14	57	20	17	15	47	1.83
1414473--1414497	2	12.5	2	100	0	50	52	0	0	48	1.00
1414553--1414601	15	3.3	14	83	11	53	75	0	0	24	0.80

Tables:   1   2   3   4   5   6   7   8