genome.fa.s8717.2.7.7.80.10.50.1000.6.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  6  of  16  ( 1896 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)
1178133--1178166	13	2.8	12	87	12	52	23	0	0	76	0.79
1178163--1178193	11	2.8	11	100	0	62	35	6	0	58	1.24
1178005--1178171	4	41.2	4	72	17	89	20	4	2	73	1.12
1178579--1178618	18	2.2	18	95	0	71	17	10	15	57	1.64
1179452--1179497	24	2.0	23	82	4	56	19	15	17	47	1.82
1179664--1179705	2	21.0	2	100	0	84	50	0	0	50	1.00
1179740--1179779	15	2.9	15	85	14	59	45	0	0	55	0.99
1180774--1180829	28	2.0	28	86	6	78	37	3	46	12	1.59
1180782--1180839	28	2.1	28	84	6	75	39	3	46	10	1.55
1181922--1181998	38	2.1	37	92	4	129	32	1	9	57	1.38
1187501--1187571	35	2.0	35	94	0	124	25	19	28	26	1.99
1190927--1191338	40	10.3	40	92	0	644	30	16	10	42	1.82
1190985--1191053	23	3.3	23	64	29	62	33	11	14	40	1.82
1190999--1191063	23	3.1	23	64	32	63	33	12	12	41	1.80
1191145--1191215	23	3.3	23	64	28	66	30	14	8	46	1.74
1191394--1191626	43	5.4	43	84	5	285	28	14	28	28	1.95
1191394--1191626	85	2.7	85	85	5	301	28	14	28	28	1.95
1191371--1191663	128	2.3	128	73	12	283	28	14	25	31	1.95
1193047--1193102	28	2.0	28	86	6	78	37	3	46	12	1.59
1193055--1193112	28	2.1	28	84	6	75	39	3	46	10	1.55
1194197--1194272	36	2.1	37	95	2	136	32	2	6	57	1.38
1195067--1195101	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195625--1195935	43	7.2	42	80	7	297	25	22	5	46	1.73
1195669--1195940	129	2.1	129	83	6	345	25	22	5	46	1.74
1197123--1197152	9	3.3	9	100	0	60	33	0	0	66	0.92
1201119--1201245	61	2.1	62	81	7	145	53	7	0	38	1.34
1201408--1201441	2	17.0	2	100	0	68	50	0	0	50	1.00
1204254--1204285	13	2.5	13	94	0	55	46	34	6	12	1.67
1212760--1212793	16	2.1	17	88	5	52	38	0	17	44	1.49
1213947--1213984	20	1.9	20	88	0	58	34	28	15	21	1.94
1219469--1219562	44	2.1	44	82	7	111	27	24	20	27	1.99
1220748--1220783	17	2.2	16	90	5	54	11	0	30	58	1.33
1221366--1221403	20	1.9	20	88	0	58	31	31	15	21	1.94
1221416--1221594	65	2.8	65	94	1	306	31	23	18	26	1.97
1221416--1221639	65	3.5	64	88	3	236	31	23	17	27	1.97
1225063--1225087	10	2.5	10	100	0	50	92	0	8	0	0.40
1225038--1225085	17	2.8	17	80	3	60	83	6	8	2	0.88
1225102--1225155	6	9.0	6	80	15	51	18	3	9	68	1.32
1225110--1225149	20	2.1	19	86	13	55	20	5	7	67	1.34
1225104--1225154	26	2.0	24	85	14	68	19	3	7	68	1.30
1231282--1231370	32	2.9	30	79	12	101	30	5	10	53	1.57
1232365--1232418	22	2.5	22	87	3	74	68	9	0	22	1.17
1233367--1233398	14	2.3	14	100	0	64	31	18	15	34	1.93
1233654--1233700	22	2.1	22	88	4	67	42	2	2	53	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233648--1233721	32	2.3	32	77	13	82	43	2	2	51	1.30
1233968--1234128	66	2.5	64	82	9	175	34	23	14	27	1.94
1239984--1240064	23	3.6	22	80	8	92	25	24	22	27	2.00
1239982--1240087	44	2.4	44	78	7	124	25	24	23	26	2.00
1240495--1240519	13	1.9	13	100	0	50	40	8	0	52	1.31
1243713--1243757	23	2.0	23	86	0	63	53	2	2	42	1.25
1248222--1248375	31	5.0	31	89	4	206	24	18	17	39	1.92
1249032--1249065	11	3.1	11	86	0	50	35	17	17	29	1.93
1249101--1249131	12	2.6	12	100	0	62	16	9	22	51	1.73
1249097--1249164	34	1.9	35	88	5	102	19	14	19	47	1.83
1252906--1253046	31	4.5	31	90	1	212	21	20	18	39	1.93
1253773--1253817	22	2.0	22	91	0	72	17	22	17	42	1.89
1259342--1259415	22	3.2	22	64	17	60	47	10	12	29	1.75
1259322--1259419	47	2.1	47	100	0	196	50	8	10	31	1.66
1262259--1262721	112	4.1	112	96	0	827	46	14	14	24	1.83
1262592--1263039	181	2.5	181	92	0	734	44	13	15	27	1.83
1264385--1264435	19	2.5	20	78	6	59	62	0	3	33	1.13
1264387--1264424	21	1.9	20	89	10	60	68	0	2	28	1.03
1267588--1267775	60	3.2	60	80	5	211	41	6	19	32	1.78
1269448--1269495	24	2.0	25	83	4	62	50	22	16	10	1.76
1271079--1271212	66	2.0	66	88	0	196	29	23	20	26	1.99
1275147--1275172	12	2.2	12	100	0	52	30	30	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280362--1280401	19	2.1	19	100	0	80	0	45	5	50	1.23
1282940--1282979	19	2.1	19	100	0	80	0	45	5	50	1.23
1292557--1292599	20	2.2	20	86	0	59	34	13	18	32	1.90
1295298--1295645	173	2.0	174	98	1	680	31	16	21	30	1.95
1299964--1300341	189	2.0	189	100	0	756	25	19	17	38	1.93
1301781--1301809	8	3.8	8	90	9	51	10	13	0	75	1.04
1301813--1301890	31	2.6	30	82	8	95	35	7	10	46	1.67
1301997--1302096	29	3.5	29	84	2	139	37	15	10	38	1.80
1307694--1307736	17	2.6	17	85	3	52	32	18	18	30	1.95
1317769--1317843	36	2.1	36	92	0	123	26	6	10	56	1.58
1323442--1323522	30	2.6	31	82	3	92	23	12	12	51	1.73
1323638--1323701	31	2.1	31	82	5	76	34	17	9	39	1.82
1324256--1324355	30	3.4	30	89	6	143	38	6	14	42	1.70
1327574--1327631	24	2.4	24	82	5	64	50	0	0	50	1.00
1335226--1335286	3	20.3	3	100	0	122	67	0	0	32	0.91
1335583--1335628	23	1.9	24	82	8	58	28	15	21	34	1.94
1337608--1337637	7	4.3	7	100	0	60	70	0	0	30	0.88
1339411--1340032	113	5.5	113	98	0	1201	27	17	16	38	1.91
1339411--1340032	225	2.8	226	98	0	1201	27	17	16	38	1.91
1339411--1340032	338	1.8	339	98	0	1201	27	17	16	38	1.91
1340432--1340511	22	3.6	22	75	0	88	41	13	11	33	1.80
1342054--1342280	115	2.0	114	90	2	357	29	20	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344512--1344549	19	2.0	19	85	10	51	0	23	0	76	0.79
1344550--1344593	13	3.5	13	75	6	54	4	13	18	63	1.46
1344534--1344606	25	2.9	25	97	0	137	2	16	13	67	1.35
1344542--1344605	12	5.2	12	70	7	56	3	18	14	64	1.42
1347740--1347793	14	3.8	14	85	2	63	51	9	14	24	1.71
1349399--1349465	28	2.2	29	82	10	73	59	0	7	32	1.25
1349414--1349457	19	2.3	19	84	7	54	61	0	6	31	1.22
1350245--1350325	15	4.9	15	68	19	54	66	2	2	28	1.17
1350232--1350288	27	2.0	29	87	12	84	64	0	5	29	1.15
1353316--1353370	23	2.5	22	74	14	58	14	25	10	49	1.76
1353978--1354033	2	31.0	2	76	20	52	50	0	3	46	1.19
1354100--1354157	3	19.3	3	100	0	116	67	0	0	32	0.91
1354282--1354336	19	2.7	19	86	8	65	56	5	0	38	1.23
1355893--1355942	20	2.4	22	86	6	68	44	0	0	56	0.99
1356365--1356462	51	1.9	51	85	8	137	18	33	30	17	1.94
1356657--1356689	10	3.3	10	95	0	57	30	33	0	36	1.58
1358805--1358841	3	12.3	3	88	0	56	32	27	35	5	1.79
1358811--1358867	9	6.3	9	77	0	51	29	17	36	15	1.91
1364475--1364556	3	27.0	3	80	7	85	35	1	1	62	1.11
1365096--1365200	37	2.8	37	85	0	138	29	14	14	41	1.85
1365930--1367410	106	14.0	106	90	1	2201	23	17	24	34	1.96
1368236--1368290	22	2.5	22	100	0	110	23	12	27	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1368907--1368953	14	3.6	14	77	13	55	2	8	4	85	0.81
1368916--1368949	10	3.3	10	91	4	50	2	8	0	88	0.62
1368907--1368956	15	3.3	15	83	5	57	2	8	4	86	0.78
1373599--1373703	37	2.8	37	86	0	147	29	15	14	40	1.86
1373975--1374063	28	3.2	27	75	9	90	32	12	7	47	1.70
1378200--1378491	117	2.5	117	90	2	444	31	33	16	18	1.93
1379423--1379543	30	4.1	28	83	8	125	41	21	6	30	1.79
1379558--1379598	18	2.3	18	95	4	75	14	21	46	17	1.84
1385647--1385948	117	2.6	116	86	3	403	31	33	15	19	1.93
1386889--1386993	29	3.6	29	81	6	124	40	22	7	29	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16