genome.fa.s8523.2.7.7.80.10.50.1000.5.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  5  of  18  ( 2060 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)
1119810--1119853	2	22.0	2	100	0	88	50	0	0	50	1.00
1130973--1131019	24	2.0	23	84	16	60	38	8	0	53	1.32
1131379--1131432	26	2.1	25	96	3	99	22	22	11	44	1.84
1132764--1132842	35	2.3	35	86	6	108	39	25	1	34	1.64
1133013--1133297	147	1.9	149	90	1	457	37	5	8	47	1.59
1137065--1137114	20	2.5	20	96	0	91	44	2	28	26	1.65
1141140--1141182	22	2.0	22	85	0	59	32	9	13	44	1.76
1141823--1141859	3	12.3	3	100	0	74	64	0	0	35	0.94
1142458--1142498	2	20.5	2	100	0	82	0	48	0	51	1.00
1142498--1142582	2	42.5	2	100	0	170	49	0	0	50	1.00
1143451--1143501	2	25.5	2	100	0	102	50	0	0	49	1.00
1177901--1177943	2	21.5	2	100	0	86	48	0	0	51	1.00
1178892--1179038	70	2.1	70	85	2	197	39	20	1	38	1.61
1178892--1179038	35	4.2	35	88	3	179	39	20	1	38	1.61
1180070--1180109	21	1.9	21	85	10	55	62	0	2	35	1.09
1180711--1180748	19	2.0	19	100	0	76	21	21	31	26	1.98
1180911--1180935	12	2.1	12	100	0	50	40	16	12	32	1.84
1207157--1207207	24	2.1	24	100	0	102	52	11	3	31	1.56
1216532--1216588	2	28.5	2	100	0	114	49	0	0	50	1.00
1220353--1220394	22	2.0	22	95	4	77	19	11	14	54	1.70
1222045--1222076	2	16.0	2	100	0	64	50	0	0	50	1.00
1224748--1224988	41	5.9	41	85	2	286	26	20	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224752--1224988	123	1.9	124	84	4	318	26	20	16	36	1.93
1228681--1228987	43	7.2	42	78	6	273	25	20	19	34	1.96
1228825--1228991	85	2.0	85	84	2	219	22	20	20	35	1.96
1230134--1230172	20	1.9	21	89	5	62	56	2	0	41	1.13
1230129--1230270	31	4.7	30	75	9	119	50	6	4	38	1.47
1233514--1233562	14	3.5	14	75	8	55	51	0	12	36	1.40
1235947--1236012	30	2.2	30	97	0	123	46	22	22	7	1.77
1239642--1239672	14	2.2	14	94	0	53	51	9	0	38	1.35
1240270--1240321	20	2.5	21	81	3	61	40	19	23	17	1.91
1240310--1240423	20	5.7	20	81	6	104	32	25	17	24	1.97
1240307--1240423	61	1.9	61	83	0	153	34	24	17	23	1.96
1240979--1241015	19	1.9	19	88	0	56	56	21	16	5	1.59
1241030--1241117	33	2.6	33	89	5	133	12	27	20	39	1.88
1241085--1241142	20	2.9	20	80	10	64	13	24	18	43	1.87
1243195--1243264	21	3.3	21	69	0	59	22	40	20	17	1.92
1244618--1244653	14	2.6	14	90	0	54	27	2	25	44	1.68
1244812--1244962	19	8.7	19	64	21	71	15	21	19	43	1.88
1244816--1244942	33	3.9	32	86	8	184	14	22	18	43	1.87
1244809--1244941	66	2.0	66	95	0	239	16	22	18	42	1.89
1247435--1247488	24	2.2	24	90	0	81	38	20	16	24	1.92
1248545--1248602	20	2.9	20	94	0	98	39	24	20	15	1.91
1248621--1248688	19	3.9	18	83	12	81	13	20	17	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248625--1248698	19	4.5	16	83	16	66	13	20	18	47	1.82
1248805--1248841	14	2.6	14	86	0	56	48	21	0	29	1.50
1250709--1250762	20	2.7	20	79	0	72	37	22	22	18	1.95
1250824--1250881	14	3.9	14	79	16	71	10	17	24	48	1.78
1250807--1250897	32	2.8	33	93	3	157	13	18	20	47	1.82
1250882--1250925	20	2.2	20	84	4	54	20	20	20	38	1.94
1251417--1251461	18	2.5	18	88	0	72	13	15	44	26	1.83
1252783--1252841	20	3.0	20	84	0	64	42	20	18	18	1.90
1253106--1253149	22	2.0	22	95	0	79	18	15	45	20	1.85
1253337--1253430	20	4.7	20	80	7	91	23	18	25	32	1.97
1253357--1253434	41	1.9	41	86	0	111	21	16	23	38	1.93
1253317--1253431	20	5.7	19	78	9	86	23	17	24	34	1.96
1254193--1254271	39	2.0	39	97	0	149	45	15	13	25	1.83
1259465--1259579	60	1.9	60	80	0	131	34	20	5	39	1.75
1259778--1259908	60	2.2	60	84	0	172	42	3	22	31	1.71
1264989--1265016	2	14.0	2	100	0	56	50	0	0	50	1.00
1278304--1278347	2	22.0	2	100	0	88	50	0	0	50	1.00
1278461--1278486	2	13.0	2	100	0	52	50	0	0	50	1.00
1280158--1280196	11	3.5	11	79	6	51	33	5	2	58	1.33
1284863--1284902	2	20.0	2	100	0	80	50	0	0	50	1.00
1286414--1286446	2	16.5	2	100	0	66	51	0	0	48	1.00
1287923--1287955	16	1.9	18	88	11	52	66	3	0	30	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292125--1292149	7	3.6	7	100	0	50	28	0	24	48	1.52
1298599--1298647	2	25.0	2	95	4	91	48	0	0	51	1.00
1324122--1324237	60	1.9	60	80	3	135	36	12	12	38	1.81
1325695--1325733	19	2.1	19	95	0	69	28	15	23	33	1.95
1337153--1337182	6	5.0	6	91	0	51	46	16	3	33	1.64
1338547--1338915	20	18.5	20	85	4	458	34	26	18	20	1.96
1339589--1339635	24	2.0	24	87	8	69	25	14	21	38	1.92
1339810--1339834	12	2.1	12	100	0	50	72	0	28	0	0.86
1342134--1342402	19	15.4	19	78	18	309	46	18	21	13	1.83
1342134--1342424	33	8.5	34	80	15	268	46	18	21	13	1.84
1342162--1342424	52	5.0	52	97	1	492	46	17	22	14	1.84
1342431--1342531	19	5.6	19	85	12	142	14	23	17	43	1.87
1342638--1342674	14	2.6	14	91	0	65	45	21	0	32	1.52
1342655--1342727	38	1.9	38	97	0	137	53	16	1	28	1.51
1344593--1344649	14	3.7	14	77	20	60	45	22	21	10	1.82
1344574--1344666	33	2.8	33	95	0	168	47	21	20	10	1.80
1344537--1344671	19	7.6	19	76	16	128	45	23	19	11	1.82
1344667--1344795	19	7.3	19	75	17	125	8	17	27	46	1.77
1344667--1344758	33	2.8	34	93	3	152	7	18	27	46	1.76
1344839--1345218	93	4.1	93	98	0	744	46	18	12	22	1.83
1344839--1345218	185	2.0	186	98	0	744	46	18	12	22	1.83
1346924--1347013	14	5.7	14	74	23	81	42	23	25	8	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346916--1347030	33	3.5	33	95	0	212	45	20	24	9	1.81
1346923--1347035	19	6.8	18	72	23	88	43	22	24	9	1.83
1347047--1347102	14	3.7	14	78	17	58	10	23	23	42	1.85
1347042--1347121	32	2.4	33	89	6	117	10	25	22	42	1.84
1347042--1347088	18	2.9	17	75	18	55	10	21	23	44	1.83
1347086--1347163	41	1.9	41	91	0	129	12	26	17	42	1.86
1347086--1347162	21	3.8	20	84	5	100	12	25	18	42	1.86
1347244--1347311	33	2.1	33	88	0	100	48	17	23	10	1.78
1347492--1347546	22	2.5	22	81	0	74	20	16	40	23	1.91
1347692--1347885	20	9.6	20	82	5	221	19	19	25	35	1.95
1347692--1347885	60	3.2	60	83	0	253	19	19	25	35	1.95
1347878--1347954	21	3.7	20	70	13	57	27	16	23	32	1.96
1347940--1347991	20	2.6	20	96	0	95	21	13	26	38	1.90
1349437--1349496	31	1.9	32	83	10	79	50	0	11	38	1.39
1351140--1351259	35	3.4	35	77	2	107	17	27	19	35	1.94
1351947--1351999	21	2.4	23	78	15	58	39	9	0	50	1.35
1353133--1353191	31	1.9	31	89	0	91	27	11	6	54	1.62
1353182--1353249	27	2.6	26	88	4	75	36	10	2	50	1.52
1353191--1353249	27	2.2	27	96	0	109	37	8	3	50	1.49
1358910--1358965	29	1.9	29	82	7	69	32	7	21	39	1.80
1362554--1362901	177	2.0	174	93	1	588	43	12	9	35	1.75
1383522--1383615	49	1.9	49	91	0	152	26	25	27	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393757--1393816	24	2.5	24	86	2	86	25	21	31	21	1.98
1398705--1398849	70	2.1	70	98	0	281	29	9	17	42	1.81
1398736--1398846	35	3.2	35	69	19	113	28	10	18	42	1.83
1401274--1401658	128	3.0	128	100	0	770	36	14	15	33	1.87
1409068--1409909	280	3.0	280	99	0	1648	32	16	19	30	1.95
1411255--1411306	20	2.6	20	96	0	95	38	26	13	21	1.90
1411362--1411730	20	18.5	20	85	4	458	34	26	18	20	1.96
1412413--1412459	24	2.0	24	87	8	69	25	14	21	38	1.92
1412634--1412658	12	2.1	12	100	0	50	72	0	28	0	0.86
1414940--1415246	19	17.4	19	80	16	376	46	18	20	14	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18