genome.fa.s3805.2.7.7.80.10.50.1000.6.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: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2300233

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  6  of  11  ( 1239 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)
1162377--1162415	17	2.4	16	87	8	60	20	10	0	69	1.17
1168502--1168534	16	2.1	16	94	0	57	57	0	0	42	0.98
1175585--1175639	19	2.5	23	80	13	64	20	3	3	72	1.15
1182409--1182447	20	2.0	20	89	0	60	33	10	23	33	1.88
1185580--1185755	88	2.0	88	96	0	325	43	11	10	34	1.75
1192024--1192175	73	2.1	73	88	0	223	51	11	13	23	1.74
1206768--1206830	16	4.0	16	74	15	51	17	0	23	58	1.38
1206787--1206832	16	3.0	16	78	18	53	21	0	19	58	1.39
1207636--1207685	21	2.4	21	100	0	100	28	32	18	22	1.97
1209296--1209385	45	2.0	45	86	0	126	21	20	24	34	1.96
1213922--1213976	28	2.0	28	96	0	101	5	45	1	47	1.36
1214651--1214740	45	2.0	45	86	0	126	21	20	24	34	1.96
1218925--1218964	20	2.0	20	100	0	80	35	5	25	35	1.78
1220221--1220292	32	2.3	31	80	7	81	34	18	20	26	1.95
1221128--1221185	2	29.0	2	89	0	89	51	3	0	44	1.18
1223785--1223821	19	1.9	19	94	0	65	72	2	0	24	0.97
1226057--1226105	19	2.5	20	86	3	64	51	6	14	28	1.66
1228439--1228525	32	2.7	32	92	0	138	36	13	17	32	1.89
1228450--1228599	32	4.7	32	81	3	122	38	11	20	30	1.87
1228470--1228619	64	2.3	63	79	6	169	36	12	22	30	1.90
1238703--1238743	21	2.0	21	95	0	73	21	14	21	41	1.89
1245593--1245680	46	1.9	46	92	0	149	21	22	10	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246036--1246622	54	10.9	54	86	1	762	32	17	18	31	1.94
1251328--1251753	54	7.9	53	81	3	460	29	16	21	33	1.95
1251728--1251795	34	2.0	34	100	0	136	29	17	23	29	1.97
1251767--1252002	54	4.4	54	85	3	323	31	16	19	32	1.94
1251620--1251907	142	2.0	142	85	2	382	29	14	22	32	1.94
1251766--1252002	107	2.2	108	87	2	343	31	16	18	32	1.94
1252345--1252437	42	2.2	41	82	1	105	23	23	15	37	1.93
1261657--1261687	14	2.2	14	94	0	53	25	9	0	64	1.24
1262623--1262657	2	18.0	2	94	5	63	51	0	0	48	1.00
1262965--1263005	12	3.5	12	80	6	57	43	0	9	46	1.36
1262958--1263008	23	2.2	23	100	0	102	43	0	7	49	1.32
1272691--1272791	6	15.5	6	72	16	53	17	16	13	51	1.76
1272690--1272786	27	3.6	27	90	0	149	17	16	14	51	1.77
1272691--1272730	21	2.0	20	85	5	53	17	17	17	47	1.83
1275733--1275842	47	2.4	48	83	4	145	73	2	16	7	1.17
1275812--1275902	6	14.7	6	71	14	51	78	5	14	2	1.03
1275806--1275902	13	7.1	13	73	15	72	77	5	14	3	1.07
1276935--1277052	32	3.7	32	84	0	155	34	15	17	32	1.91
1276931--1277052	64	1.9	64	86	0	172	33	14	19	31	1.92
1277434--1277690	86	3.0	86	85	3	338	30	22	22	24	1.99
1277758--1278091	85	3.9	84	78	5	341	34	22	18	24	1.96
1278666--1279124	129	3.6	129	76	5	435	27	28	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278943--1279210	135	2.0	134	80	9	302	27	24	16	30	1.97
1284633--1284677	23	2.0	23	90	0	72	35	8	11	44	1.71
1284987--1285022	17	2.1	17	94	0	63	41	22	11	25	1.86
1285249--1285281	16	2.0	17	94	5	59	0	30	0	69	0.88
1286741--1286787	23	2.0	24	84	12	62	17	0	34	48	1.47
1289038--1289068	2	15.5	2	100	0	62	51	0	0	48	1.00
1303902--1303934	16	2.0	17	88	5	50	57	6	18	18	1.60
1307383--1307439	3	19.0	3	86	13	66	31	0	0	68	0.90
1307386--1307453	9	6.3	11	79	19	56	27	0	0	72	0.85
1307502--1307587	33	2.6	33	90	5	129	43	18	11	26	1.84
1311691--1312666	110	8.9	110	89	1	1469	34	22	18	25	1.96
1312785--1313552	84	9.3	82	79	6	746	30	23	19	25	1.98
1312785--1313552	249	3.1	249	89	3	1113	30	23	19	25	1.98
1312785--1313550	333	2.3	328	81	6	848	30	23	19	25	1.98
1313891--1313963	16	4.8	16	73	20	52	32	0	2	64	1.08
1313892--1313962	29	2.3	32	75	18	78	32	0	2	64	1.08
1314023--1314086	33	1.9	33	93	0	110	40	15	10	32	1.82
1314411--1314495	27	2.9	29	81	8	84	27	3	1	68	1.13
1316590--1316628	16	2.5	15	87	8	51	35	0	0	64	0.94
1316634--1316660	13	2.1	13	100	0	54	62	0	7	29	1.22
1319449--1321669	81	27.4	81	88	0	3191	35	10	21	32	1.88
1328574--1328735	83	1.9	84	79	1	182	30	20	12	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334018--1334050	17	1.9	17	88	11	50	51	18	12	18	1.76
1349538--1349570	16	2.0	17	94	5	59	36	18	15	30	1.91
1351887--1351931	20	2.3	20	80	3	56	46	4	2	46	1.35
1377148--1377919	98	7.8	97	78	8	685	36	15	11	36	1.84
1377148--1377921	199	3.9	201	83	5	878	36	15	11	36	1.84
1377148--1377893	399	1.9	398	84	5	997	36	15	11	36	1.83
1387523--1387579	27	2.1	27	80	6	62	22	14	17	45	1.84
1388128--1388219	29	3.2	29	77	11	91	31	22	23	21	1.98
1396657--1396871	109	2.0	104	90	4	340	33	9	11	45	1.72
1401980--1402055	36	2.1	36	85	7	100	47	1	3	47	1.29
1404114--1404155	15	2.6	16	88	7	59	16	9	2	71	1.23
1404510--1404555	10	4.5	10	86	2	65	86	8	4	0	0.68
1404509--1404557	20	2.5	20	86	3	73	83	10	6	0	0.80
1404510--1404566	10	5.5	11	79	10	57	82	10	7	0	0.84
1404510--1404573	31	2.1	31	87	0	92	79	12	7	0	0.92
1404519--1404566	20	2.3	20	92	3	78	81	10	8	0	0.88
1408844--1408885	15	2.6	16	88	7	59	16	9	2	71	1.23
1409116--1409159	21	2.1	21	87	8	63	34	4	20	40	1.73
1409183--1409219	17	2.2	17	100	0	74	27	10	0	62	1.28
1411234--1411262	8	3.6	8	100	0	58	34	0	13	51	1.42
1412116--1412158	21	2.2	19	83	8	50	18	11	2	67	1.32
1415018--1415044	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416330--1416374	20	2.2	20	96	0	81	20	26	33	20	1.97
1416330--1416384	20	2.8	20	88	0	65	18	29	32	20	1.96
1418039--1418093	28	1.9	29	85	10	78	20	16	9	54	1.68
1418391--1418419	8	3.6	8	100	0	58	34	0	13	51	1.42
1426692--1426752	21	2.9	21	80	7	70	24	32	22	19	1.97
1430933--1430986	24	2.2	24	87	6	74	42	20	9	27	1.82
1434931--1434976	24	1.9	24	81	0	56	32	6	8	52	1.58
1435659--1435765	53	2.0	53	98	1	205	35	16	5	42	1.72
1435777--1435815	2	19.5	2	100	0	78	48	0	0	51	1.00
1436221--1436255	16	2.2	16	89	0	52	80	0	11	8	0.92
1441229--1441287	31	1.9	31	89	0	91	28	25	8	37	1.85
1442038--1442175	14	9.7	14	68	24	58	75	0	18	5	1.04
1442062--1442179	22	5.4	21	75	18	77	76	0	18	5	0.97
1442066--1442182	35	3.4	34	77	16	109	76	0	17	5	0.99
1442064--1442180	25	4.7	24	74	17	71	76	0	17	5	0.96
1442064--1442180	7	16.6	7	67	18	64	76	0	17	5	0.96
1442092--1442189	11	8.2	12	72	17	53	76	0	18	5	0.96
1445496--1446284	134	5.8	135	78	7	703	31	22	14	31	1.94
1445466--1446314	277	3.1	266	78	8	840	31	21	14	31	1.94
1445469--1446317	411	2.1	411	80	5	949	32	21	14	31	1.94
1454446--1454487	20	2.2	20	86	4	59	26	11	16	45	1.82
1454447--1454526	41	1.9	43	82	5	101	25	16	17	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455886--1456338	226	2.0	227	99	0	899	28	21	18	31	1.97
1458921--1458952	16	1.9	17	93	6	57	31	3	3	62	1.26
1466074--1466111	9	4.3	9	83	16	53	2	10	0	86	0.66
1466074--1466109	16	2.2	17	95	5	65	2	11	0	86	0.68
1471217--1471295	40	2.0	40	92	0	131	26	6	29	37	1.81
1474001--1474039	20	2.0	20	84	0	51	33	23	7	35	1.83
1481687--1481964	138	2.0	139	99	0	549	23	20	26	29	1.99
1482030--1482069	20	2.1	18	86	9	53	52	7	20	20	1.70
1482181--1482228	18	2.7	18	77	9	53	41	0	6	52	1.27
1482211--1482283	38	1.9	38	83	10	96	49	4	0	46	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11