genome.fa.s1574.2.7.7.80.10.50.1000.6.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: VEPZ01001574.1 Hibiscus syriacus cultivar Beakdansim tig00003126_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1705968

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 793 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)
1114549--1114596	22	2.2	22	85	7	62	12	6	0	81	0.87
1114548--1114610	22	2.9	21	75	20	58	12	7	0	79	0.93
1114566--1114605	21	2.0	21	90	5	64	15	2	0	82	0.77
1117327--1117645	46	7.1	46	87	4	431	32	20	7	40	1.80
1117327--1117645	90	3.5	89	86	5	444	32	20	7	40	1.80
1120080--1120203	7	16.9	7	74	18	85	61	2	3	33	1.25
1120080--1120217	13	10.8	13	71	19	87	60	2	3	33	1.26
1120080--1120217	3	43.3	3	75	16	102	60	2	3	33	1.26
1120080--1120219	19	6.7	21	76	16	116	60	2	3	33	1.26
1120080--1120227	46	3.4	43	81	14	153	60	2	4	33	1.30
1120736--1120775	16	2.5	16	95	0	71	32	40	10	17	1.83
1127311--1127345	12	2.9	12	95	0	61	14	17	11	57	1.66
1129627--1129699	21	3.5	21	86	0	92	24	0	28	46	1.53
1129628--1129699	7	10.3	7	78	0	63	23	0	29	47	1.52
1139486--1139558	22	3.3	22	88	3	101	20	32	24	21	1.97
1139474--1139557	23	3.7	23	82	3	98	22	30	26	20	1.98
1144725--1144933	65	3.2	65	78	11	223	33	22	17	27	1.96
1144773--1144933	65	2.5	64	89	3	243	32	21	17	28	1.96
1147308--1147370	30	2.1	30	90	0	99	34	7	20	36	1.82
1153305--1153349	16	2.8	17	78	21	53	66	2	8	22	1.30
1153573--1153614	2	21.0	2	85	9	59	52	2	0	45	1.13
1154791--1154847	24	2.4	24	100	0	114	19	7	17	56	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154791--1154855	24	2.8	23	93	6	98	18	9	15	56	1.65
1155262--1155300	3	13.0	3	84	10	53	64	0	2	33	1.08
1155262--1155305	14	3.0	14	86	6	52	65	0	4	29	1.12
1157212--1157378	49	3.4	49	84	1	237	33	14	7	43	1.75
1164479--1164572	38	2.5	38	96	0	170	11	14	40	32	1.83
1166386--1166415	13	2.3	13	94	0	51	80	3	13	3	0.97
1166375--1166446	24	3.1	23	80	5	83	75	11	12	1	1.12
1175185--1175279	47	2.0	46	93	2	163	42	12	17	27	1.86
1183695--1183751	27	2.1	28	86	3	80	73	7	1	17	1.14
1189899--1190030	43	3.1	43	92	0	219	24	19	22	33	1.97
1191484--1191508	12	2.1	12	100	0	50	32	16	16	36	1.90
1194878--1194928	10	5.3	10	79	6	52	84	0	11	3	0.75
1194881--1194930	15	3.5	15	82	17	70	82	0	14	4	0.82
1194876--1194940	20	3.4	19	79	12	62	78	0	12	9	0.96
1198554--1198618	20	3.2	20	89	4	94	55	12	4	27	1.56
1199155--1199462	29	10.6	29	80	6	266	32	3	15	48	1.63
1199147--1199437	87	3.3	86	83	7	329	31	3	15	49	1.61
1199155--1199462	58	5.3	56	81	6	296	32	3	15	48	1.63
1206008--1206073	20	3.2	20	87	6	87	56	12	4	27	1.55
1206611--1206894	29	9.9	27	83	8	246	33	2	14	50	1.54
1206604--1206895	87	3.4	86	82	9	333	32	2	14	50	1.55
1206611--1206894	58	4.9	55	83	9	302	33	2	14	50	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208680--1208794	61	1.9	61	83	3	151	25	16	26	31	1.96
1208870--1209017	45	3.3	45	91	0	242	37	8	20	32	1.84
1228434--1228472	16	2.4	16	100	0	78	33	33	10	23	1.88
1235369--1235412	23	2.0	23	86	13	65	52	6	2	38	1.41
1238853--1238898	20	2.3	19	85	14	58	26	15	8	50	1.73
1253347--1253523	50	3.4	50	71	18	182	51	15	2	29	1.58
1253296--1253511	105	2.1	105	98	0	414	50	16	4	29	1.64
1257619--1257660	22	1.9	22	90	9	68	14	11	4	69	1.34
1257986--1258056	29	2.4	29	84	6	90	78	12	4	4	1.03
1262345--1262386	22	1.9	22	90	9	68	14	11	4	69	1.34
1264368--1264427	16	3.6	16	72	12	50	76	3	13	6	1.11
1264398--1264429	8	4.0	8	95	0	55	84	0	15	0	0.63
1269476--1269522	24	2.0	24	82	0	58	27	23	17	31	1.96
1276430--1276482	22	2.2	25	90	9	85	11	18	11	58	1.62
1287031--1287086	27	1.9	30	86	13	82	10	16	5	67	1.37
1288979--1289039	26	2.3	26	91	5	97	49	24	4	21	1.69
1300437--1300473	18	2.1	18	94	0	65	13	18	10	56	1.66
1309203--1309252	24	2.0	25	85	11	68	16	20	0	64	1.30
1317550--1317588	21	1.9	19	85	10	51	61	0	20	17	1.34
1319326--1319371	20	2.3	19	85	14	58	26	15	8	50	1.73
1319604--1319839	81	2.9	81	78	5	197	30	19	10	39	1.85
1319828--1320117	68	4.3	68	88	2	413	32	25	14	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319795--1320117	136	2.4	136	86	3	429	31	24	13	29	1.94
1320300--1320443	55	2.6	55	86	2	209	33	16	11	38	1.85
1324614--1324816	101	2.0	101	94	0	352	32	17	27	23	1.96
1328255--1328283	13	2.1	14	93	6	51	24	41	3	31	1.71
1328928--1328997	16	4.4	16	73	8	54	21	18	0	60	1.37
1332753--1332789	13	2.8	13	100	0	74	24	45	0	29	1.53
1332768--1332847	35	2.3	35	91	0	133	27	40	1	31	1.64
1341688--1341714	13	2.1	13	100	0	54	29	22	7	40	1.81
1365082--1365119	15	2.6	14	95	4	67	39	10	0	50	1.37
1377274--1377319	22	2.1	22	83	0	56	2	17	6	73	1.14
1377282--1377332	11	4.6	11	85	4	50	0	15	5	78	0.93
1377282--1377330	22	2.2	22	85	0	62	0	14	4	81	0.83
1377354--1377400	25	2.0	24	84	16	62	0	17	8	74	1.05
1381725--1381773	16	3.0	16	81	3	53	0	14	6	79	0.91
1381741--1381771	11	2.7	11	95	5	53	0	9	0	90	0.46
1381795--1381841	25	2.0	24	84	16	62	0	17	8	74	1.05
1389803--1389906	36	2.9	36	91	1	165	28	35	4	30	1.78
1390295--1390328	17	1.9	18	94	5	61	70	8	20	0	1.13
1390306--1390351	14	3.3	14	82	8	58	73	4	19	2	1.10
1393508--1393550	20	2.2	20	87	4	61	34	9	6	48	1.62
1393892--1393995	36	2.9	36	92	1	174	29	35	4	29	1.78
1394379--1394451	28	2.5	28	80	10	76	75	5	17	1	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394395--1394440	14	3.3	14	82	8	58	73	4	19	2	1.10
1397597--1397639	20	2.2	20	87	4	61	34	9	6	48	1.62
1397981--1398084	36	2.9	36	89	1	165	30	34	4	29	1.78
1410864--1410905	11	3.7	12	87	3	52	14	11	0	73	1.09
1415634--1417913	790	2.9	790	96	0	4172	28	22	14	34	1.93
1421080--1421121	18	2.4	18	88	11	61	2	16	4	76	1.07
1421356--1421412	27	2.2	26	84	9	71	59	0	15	24	1.36
1425128--1425175	21	2.3	20	82	6	60	72	10	6	10	1.26
1427113--1427191	34	2.3	35	86	4	115	26	37	3	31	1.74
1427879--1427911	17	1.9	17	93	0	57	30	33	0	36	1.58
1429991--1430028	20	1.9	20	88	0	58	28	39	0	31	1.57
1430064--1430108	17	2.6	19	83	16	55	17	17	0	64	1.29
1430370--1430411	18	2.4	18	88	11	61	76	4	16	2	1.07
1430363--1430420	18	3.4	18	73	21	54	77	3	17	1	0.99
1433682--1433720	17	2.3	18	82	13	55	20	7	0	71	1.10
1439071--1439105	15	2.3	15	100	0	70	54	0	25	20	1.45
1439071--1439111	15	2.7	15	92	0	55	56	0	24	19	1.42
1442879--1442908	15	1.9	16	93	6	53	53	0	26	20	1.46
1443792--1443871	35	2.2	37	88	4	119	28	3	37	30	1.75
1446598--1446636	20	1.9	21	84	5	53	33	0	38	28	1.57
1448906--1448960	24	2.3	25	75	9	60	27	18	18	36	1.94
1450228--1450301	29	2.5	30	81	16	93	6	16	6	70	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1461025--1461069	23	2.0	23	86	8	65	35	22	20	22	1.96
1462576--1462655	35	2.3	35	91	0	124	30	38	1	30	1.65
1480219--1480252	16	2.1	16	88	0	50	2	11	0	85	0.71
1488144--1488210	29	2.3	30	80	16	79	4	16	2	76	1.08
1488478--1488517	19	2.0	20	90	4	64	65	0	15	20	1.28
1493062--1493188	50	2.5	50	97	0	236	20	18	26	34	1.95
1495705--1495750	17	2.6	17	86	3	65	26	32	0	41	1.56
1499723--1501085	457	3.0	457	98	0	2649	29	22	18	30	1.97
1503266--1503325	24	2.6	23	78	7	68	66	10	15	8	1.43
1526354--1526463	35	3.1	35	82	2	132	27	34	3	34	1.74

Tables:   1   2   3   4   5   6   7