genome.fa.s7808.2.7.7.80.10.50.1000.5.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: VEPZ01007808.1 Hibiscus syriacus cultivar Beakdansim tig00110129_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1698870

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 791 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)
1183994--1184033	20	2.0	20	85	0	53	65	2	30	2	1.19
1189525--1189732	15	13.5	15	79	7	229	48	0	2	49	1.18
1189525--1189732	30	6.7	30	86	8	265	48	0	2	49	1.18
1189677--1189777	22	4.5	22	70	20	82	42	0	7	49	1.32
1189712--1189880	54	3.1	54	88	3	268	37	1	9	52	1.42
1189757--1190014	134	1.9	134	91	0	426	34	1	12	51	1.47
1189890--1189997	32	3.7	32	75	23	137	34	0	13	50	1.48
1189923--1189965	22	2.0	22	100	0	86	34	0	13	51	1.42
1189891--1190029	54	2.6	54	97	0	260	35	0	11	51	1.43
1190044--1190102	31	1.9	31	89	0	91	42	11	6	38	1.68
1190230--1190276	20	2.3	20	96	0	85	27	25	27	19	1.99
1191861--1191972	55	2.0	56	89	3	172	25	17	17	38	1.92
1195598--1195894	164	1.8	164	86	0	432	47	12	12	27	1.77
1195735--1196374	183	3.5	182	84	3	784	47	11	13	28	1.77
1196430--1196474	23	2.0	23	86	8	65	40	20	8	31	1.83
1196372--1196595	87	2.6	88	94	2	400	31	14	12	41	1.82
1196517--1196561	23	2.0	23	95	0	81	37	20	8	33	1.83
1197103--1197145	16	2.8	16	86	10	54	39	0	0	60	0.97
1197831--1197958	60	2.1	60	89	0	202	40	21	7	30	1.80
1198550--1198646	47	2.1	47	86	3	133	34	27	5	32	1.79
1202884--1202925	3	14.0	3	100	0	84	0	33	0	66	0.92
1204149--1204208	31	1.9	31	96	0	111	30	20	16	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204148--1204219	31	2.4	31	88	2	101	29	18	18	34	1.94
1206221--1206310	47	1.9	47	95	0	162	32	31	4	32	1.78
1206422--1206506	27	3.0	28	71	19	86	49	1	2	47	1.22
1206490--1206515	12	2.2	12	100	0	52	42	0	0	57	0.98
1206512--1206569	26	2.2	26	84	12	73	60	0	0	39	0.97
1207589--1207625	17	2.2	17	90	0	56	45	0	8	45	1.32
1208498--1208676	89	2.0	89	92	0	295	26	7	18	46	1.77
1209672--1209706	18	1.9	18	88	11	54	42	2	0	54	1.15
1225235--1225273	20	2.0	20	100	0	78	28	25	25	20	1.99
1226251--1226301	23	2.2	24	85	3	68	37	25	17	19	1.94
1226380--1226419	21	1.9	21	89	0	62	37	17	17	27	1.92
1227439--1227471	18	1.9	18	88	11	52	30	18	0	51	1.46
1230459--1230498	21	1.9	21	89	0	62	37	17	17	27	1.92
1232756--1232802	20	2.3	21	85	10	62	10	19	27	42	1.84
1232847--1232893	3	16.3	3	82	8	62	61	0	4	34	1.15
1232855--1232896	14	3.0	13	86	13	57	61	0	2	35	1.09
1232847--1232893	20	2.3	20	100	0	94	61	0	4	34	1.15
1233070--1233161	42	2.2	42	84	1	123	34	18	20	26	1.96
1233303--1233409	42	2.6	42	83	1	126	34	21	19	24	1.96
1233036--1233513	248	1.9	248	91	1	780	36	16	16	30	1.91
1242339--1242398	3	20.0	3	86	6	68	58	0	1	40	1.08
1242339--1242395	22	2.5	22	85	2	69	57	0	1	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242359--1242398	20	2.0	20	95	5	71	62	0	2	35	1.09
1247634--1247987	54	6.6	54	82	3	428	33	19	16	30	1.94
1247634--1247987	108	3.3	108	87	3	498	33	19	16	30	1.94
1253604--1254276	54	12.3	54	86	4	806	33	20	17	28	1.95
1253646--1254277	162	3.9	162	86	4	888	33	20	17	28	1.96
1254612--1254655	22	2.0	22	86	0	61	34	27	11	27	1.91
1260722--1260780	21	2.8	21	86	0	82	49	22	6	22	1.73
1262528--1262631	40	2.6	41	83	3	131	35	14	17	32	1.90
1274930--1274992	21	3.0	21	100	0	126	42	4	19	33	1.72
1279221--1279260	20	2.0	20	90	0	62	17	32	22	27	1.96
1283533--1283578	13	3.6	13	88	5	67	19	52	19	8	1.72
1293954--1294068	35	3.3	35	86	6	144	34	20	23	21	1.96
1302195--1302306	8	13.5	8	72	22	56	73	0	5	20	1.09
1302206--1302283	26	3.0	26	76	14	63	71	1	5	21	1.12
1302195--1302307	16	6.9	16	69	19	65	73	0	5	20	1.08
1304310--1305179	85	10.2	85	80	3	892	25	18	20	35	1.96
1304299--1305179	169	5.2	170	83	3	988	25	18	21	34	1.96
1317943--1317967	11	2.3	11	100	0	50	56	0	0	44	0.99
1320098--1320138	16	2.5	17	92	8	75	24	14	14	46	1.82
1324923--1324961	20	2.0	20	85	10	53	46	5	10	38	1.60
1325707--1326514	86	9.5	85	82	3	847	24	18	21	35	1.95
1325717--1326463	169	4.4	169	86	1	920	24	18	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332302--1332381	21	3.8	21	77	12	83	17	25	32	25	1.97
1332302--1332383	20	3.9	21	78	10	78	17	25	31	25	1.97
1336155--1336194	21	1.9	21	85	10	55	35	10	2	52	1.48
1340179--1340269	30	2.9	30	81	4	110	46	8	1	43	1.42
1340242--1340439	65	2.9	66	79	14	229	53	12	1	33	1.47
1340289--1340843	42	12.7	42	69	22	258	50	12	0	36	1.45
1340266--1340366	23	4.6	23	74	9	102	54	12	1	30	1.49
1340354--1340507	46	3.3	50	81	15	145	49	10	0	39	1.42
1340289--1340607	164	1.9	167	87	5	468	51	12	0	35	1.46
1340493--1340547	28	2.0	28	100	0	110	54	16	0	29	1.42
1340453--1340758	67	4.1	76	75	18	324	51	13	0	34	1.42
1340575--1340628	23	2.4	23	93	3	92	57	16	0	25	1.40
1340645--1340689	23	2.0	23	90	0	72	55	15	0	28	1.41
1340676--1340706	16	1.9	16	93	0	53	61	16	0	22	1.34
1340453--1340744	142	2.0	145	90	5	459	51	13	0	34	1.42
1340668--1340841	54	3.4	53	81	16	242	50	12	0	36	1.44
1340890--1340926	15	2.5	15	100	0	74	0	37	0	62	0.96
1343051--1343096	8	5.5	8	83	16	58	86	8	4	0	0.68
1343051--1343107	27	2.2	26	90	3	87	84	10	5	0	0.77
1343051--1343107	28	2.1	26	90	6	87	84	10	5	0	0.77
1349576--1349613	13	2.9	13	84	7	51	18	13	18	50	1.78
1353791--1354167	34	10.9	35	85	3	487	34	22	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353791--1354167	105	3.6	105	92	1	600	34	22	20	22	1.97
1354493--1354594	42	2.5	41	83	1	132	26	21	19	32	1.97
1354173--1355258	214	5.1	214	88	5	1559	32	15	19	32	1.93
1354173--1355656	417	3.6	413	84	7	1681	32	15	19	32	1.93
1355069--1355440	181	2.0	182	90	1	584	31	15	19	33	1.93
1355528--1355630	43	2.5	41	76	7	100	24	22	21	32	1.98
1355605--1355712	56	1.9	56	90	0	171	25	22	24	27	2.00
1366630--1366907	18	15.5	18	65	17	98	53	6	3	35	1.46
1366750--1366922	7	23.3	7	69	19	66	53	6	3	36	1.43
1366732--1366881	23	6.4	23	69	20	73	54	5	4	36	1.42
1366738--1366901	49	3.2	48	71	17	118	52	6	4	37	1.46
1366816--1366922	39	2.8	39	74	17	105	52	6	2	38	1.42
1369185--1369292	54	2.0	54	98	0	207	32	31	13	22	1.93
1370197--1370266	24	3.0	24	83	8	74	34	24	24	17	1.96
1370215--1370285	22	3.1	22	82	13	74	38	25	18	18	1.93
1370316--1370356	21	2.0	21	95	4	75	34	26	14	24	1.94
1373343--1373377	14	2.4	14	95	4	61	40	14	0	45	1.45
1375528--1375568	20	2.0	20	100	0	82	19	29	0	51	1.47
1379724--1379761	19	2.0	19	94	0	67	71	0	10	18	1.14
1383771--1383818	21	2.3	21	88	0	69	16	25	18	39	1.91
1385353--1385394	23	1.9	21	85	9	57	69	2	4	23	1.20
1388925--1388974	26	1.9	26	95	0	91	32	18	22	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400138--1400213	18	4.3	18	71	22	63	60	2	1	35	1.19
1400151--1400219	10	7.4	10	71	25	62	60	1	1	36	1.14
1400137--1400221	14	6.3	13	76	14	68	60	2	1	36	1.18
1400146--1400221	8	9.1	8	73	21	59	61	1	1	35	1.12
1400509--1400555	24	1.9	25	82	4	60	42	2	6	48	1.40
1400669--1400747	2	39.5	2	97	0	149	50	0	0	49	1.00
1401660--1401741	39	2.1	39	88	4	121	36	15	0	47	1.46
1402025--1402050	13	2.0	13	100	0	52	23	0	7	69	1.14
1407722--1407855	67	2.0	67	100	0	268	31	17	23	26	1.97
1416187--1416268	32	2.6	32	83	9	89	4	18	6	70	1.26

Tables:   1   2   3   4   5   6   7