genome.fa.s2126.2.7.7.80.10.50.1000.7.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: VEPZ01002126.1 Hibiscus syriacus cultivar Beakdansim tig00004355_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1482737

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 903 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)
1158750--1158813	12	5.0	13	82	16	80	57	0	0	42	0.98
1161693--1161768	37	2.1	37	100	0	152	25	5	23	46	1.73
1162972--1163058	3	29.7	3	71	13	65	33	2	0	64	1.06
1162973--1163042	17	4.1	18	76	23	62	32	2	0	64	1.08
1164442--1164485	3	15.0	3	95	4	81	34	0	0	65	0.93
1164491--1164528	2	20.0	2	89	10	62	52	0	0	47	1.00
1164555--1164863	143	2.2	140	81	13	355	39	7	7	45	1.59
1165174--1165206	17	2.0	17	88	5	50	39	9	0	51	1.34
1167294--1167376	34	2.4	34	95	0	148	31	14	22	31	1.94
1168118--1168173	24	2.3	24	96	0	103	39	16	16	28	1.89
1168699--1168723	8	3.1	8	100	0	50	36	24	24	16	1.94
1169060--1169101	16	2.6	16	96	0	75	19	21	11	47	1.81
1169350--1169416	12	5.8	12	71	7	66	38	23	14	22	1.92
1169372--1169412	11	3.6	11	80	6	55	46	21	12	19	1.82
1169359--1169417	23	2.6	23	91	0	100	38	23	16	20	1.92
1171866--1171918	2	26.5	2	100	0	106	49	0	0	50	1.00
1173490--1173661	42	4.1	41	76	9	154	29	20	20	28	1.98
1173501--1173654	84	1.8	84	90	2	247	26	22	22	28	1.99
1173509--1173694	42	4.5	42	82	3	216	27	20	23	28	1.99
1176524--1176582	20	3.1	19	76	18	68	27	28	20	23	1.99
1177822--1177868	2	23.5	2	100	0	94	51	0	0	48	1.00
1182496--1182543	23	2.1	23	96	0	87	14	29	29	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183416--1183474	20	3.0	20	74	18	70	27	27	22	23	1.99
1185506--1186078	37	15.9	34	77	11	402	22	20	22	34	1.97
1185505--1186079	71	8.0	71	79	10	433	22	20	22	34	1.96
1185890--1186159	79	3.5	77	74	15	263	22	20	22	34	1.97
1185677--1186165	153	3.3	150	84	6	590	22	20	21	35	1.96
1190887--1191015	55	2.3	55	93	2	215	20	24	11	43	1.85
1192993--1193035	20	2.2	20	86	0	59	37	16	11	34	1.85
1203171--1203213	20	2.2	20	86	0	59	37	16	11	34	1.85
1203335--1203437	46	2.3	43	77	12	107	37	21	9	31	1.86
1206877--1206912	3	12.7	3	88	11	58	66	0	0	33	0.92
1206877--1206912	11	3.2	11	88	4	54	66	0	0	33	0.92
1206877--1206913	14	2.6	14	95	0	65	64	0	0	35	0.94
1212226--1212532	41	7.4	41	83	1	330	27	18	18	35	1.94
1213877--1213909	16	2.1	16	100	0	66	42	18	9	30	1.81
1213879--1213918	16	2.5	16	91	0	62	45	20	5	30	1.72
1215984--1216286	85	3.5	85	83	4	335	25	25	17	31	1.97
1216000--1216248	128	1.9	129	86	4	360	24	25	16	32	1.96
1215983--1216286	43	7.1	43	81	7	336	25	25	17	31	1.97
1216168--1216314	42	3.5	41	82	6	154	27	25	17	29	1.97
1216465--1216574	44	2.5	44	93	0	193	29	24	8	38	1.84
1224837--1224872	14	2.5	15	86	4	56	77	0	0	22	0.76
1224837--1224874	20	1.9	20	89	10	60	78	0	0	21	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226018--1226153	70	1.9	72	84	3	186	50	11	8	28	1.69
1228529--1228572	20	2.3	18	82	14	61	25	31	6	36	1.82
1228537--1228581	20	2.2	20	96	0	81	28	26	8	35	1.87
1229295--1229340	16	2.7	18	71	25	53	26	19	15	39	1.91
1229874--1230216	178	1.9	178	90	2	546	35	17	8	38	1.80
1230259--1230289	15	2.1	15	100	0	62	38	19	12	29	1.89
1232998--1233057	18	3.4	17	74	4	57	43	13	31	11	1.80
1234687--1234715	2	14.5	2	100	0	58	51	0	0	48	1.00
1235507--1235552	15	3.3	14	82	8	58	50	15	6	28	1.69
1235689--1235763	18	4.1	18	83	6	96	25	30	20	24	1.98
1247579--1247607	2	14.5	2	100	0	58	51	0	0	48	1.00
1250014--1250055	21	1.9	21	85	9	57	42	2	4	50	1.36
1251755--1251803	3	15.7	3	91	4	71	61	0	0	38	0.96
1251954--1252272	45	7.1	45	91	1	480	33	18	22	25	1.97
1252124--1252437	165	1.9	165	90	2	495	35	18	21	25	1.96
1252290--1252459	45	3.8	45	88	3	254	34	19	20	25	1.96
1252079--1252459	210	1.8	210	91	1	629	34	18	21	24	1.96
1253530--1253686	54	2.9	54	86	1	208	29	22	12	35	1.91
1254538--1254723	74	2.5	74	86	6	234	28	18	18	34	1.95
1260406--1260491	43	2.0	43	83	0	109	34	23	11	30	1.90
1262690--1262744	21	2.5	20	80	11	56	67	3	0	29	1.08
1263784--1263842	12	5.2	11	75	20	59	66	1	5	27	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265081--1265117	3	12.7	3	88	5	58	62	0	0	37	0.96
1265083--1265118	17	2.1	17	94	0	63	61	0	0	38	0.96
1271558--1271662	20	5.2	20	98	0	201	35	8	30	25	1.86
1271814--1271888	37	2.0	37	82	10	91	49	4	1	45	1.29
1275815--1275911	21	4.6	21	90	0	158	24	22	26	25	2.00
1276756--1276795	18	2.2	18	95	0	71	47	12	17	22	1.81
1281625--1281677	23	2.3	23	90	0	79	24	24	22	28	2.00
1281670--1281722	21	2.5	21	93	0	88	20	39	16	22	1.92
1282037--1282120	28	3.0	28	100	0	168	39	14	10	35	1.81
1286425--1286506	41	2.0	41	85	4	112	43	13	13	29	1.82
1290323--1290378	29	1.9	29	100	0	112	48	7	3	41	1.48
1292753--1292832	35	2.4	34	80	16	94	38	0	1	60	1.05
1292775--1292812	18	2.0	20	85	10	53	39	0	2	57	1.12
1292977--1293030	17	3.2	17	72	0	54	31	0	3	64	1.11
1294561--1294605	21	2.1	21	83	0	54	24	33	13	28	1.93
1294612--1294705	21	4.5	21	92	5	145	18	34	27	20	1.95
1295228--1295324	33	2.9	34	85	3	133	55	4	3	37	1.35
1295226--1295331	34	3.2	33	82	8	133	54	4	2	37	1.36
1295725--1296733	128	7.9	128	90	1	1623	31	20	25	22	1.98
1295725--1296728	256	3.9	256	96	0	1850	31	20	25	22	1.98
1299626--1299672	23	2.0	24	84	12	62	29	2	8	59	1.39
1306391--1306431	18	2.3	18	91	4	66	29	4	2	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316153--1316245	21	4.5	21	78	4	100	39	18	24	17	1.91
1316153--1316245	41	2.3	41	100	0	186	39	18	24	17	1.91
1316172--1316306	41	3.3	41	84	4	148	38	20	20	20	1.94
1316234--1316327	20	4.7	20	80	2	89	34	24	17	24	1.96
1316843--1316909	19	3.5	19	85	2	89	47	25	16	10	1.78
1316905--1317088	19	10.1	19	76	14	172	11	21	22	44	1.85
1316905--1317088	33	5.0	38	79	11	172	11	21	22	44	1.85
1319090--1319212	42	2.9	42	80	2	122	22	36	17	22	1.95
1319146--1319212	21	3.2	21	66	6	55	23	35	20	19	1.95
1320570--1320605	14	2.6	14	95	0	63	30	0	25	44	1.54
1320766--1320896	19	7.7	19	66	23	94	14	22	19	42	1.88
1320772--1320896	33	3.8	32	86	8	180	14	22	20	43	1.87
1320763--1320895	66	2.0	66	94	0	230	16	22	19	41	1.90
1323179--1323203	12	2.1	12	100	0	50	0	28	0	72	0.86
1323378--1323431	24	2.2	24	90	0	81	38	20	16	24	1.92
1324454--1324511	20	2.9	20	94	0	98	37	22	22	17	1.93
1324530--1324612	19	4.6	19	85	10	104	14	22	19	43	1.87
1326601--1326667	19	3.5	19	83	4	89	37	23	23	14	1.93
1326656--1326713	14	3.9	14	79	16	71	48	25	17	8	1.75
1326640--1326718	32	2.4	33	95	2	142	46	24	18	10	1.80
1326725--1326788	19	3.6	19	72	20	66	12	18	21	46	1.82
1326773--1326826	20	2.8	19	86	5	72	16	24	24	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326761--1326826	19	3.4	19	81	4	78	15	22	24	37	1.92
1327299--1327343	18	2.5	18	85	0	63	11	15	46	26	1.79
1328658--1328695	20	1.9	20	88	0	58	50	21	15	13	1.78
1329234--1329325	20	4.5	21	68	21	61	20	18	18	42	1.90
1329188--1329281	20	4.7	20	80	7	91	24	17	25	32	1.96
1329209--1329343	41	3.3	41	84	4	139	20	20	20	37	1.94
1329270--1329362	20	4.5	21	81	4	109	18	24	17	39	1.91
1329270--1329362	41	2.3	41	98	0	177	18	24	17	39	1.91
1335090--1335136	20	2.3	20	100	0	94	17	4	21	57	1.56
1347686--1347729	23	1.9	23	85	0	61	40	25	11	22	1.87

Tables:   1   2   3   4   5   6   7   8