genome.fa.s7173.2.7.7.80.10.50.1000.8.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: VEPZ01007173.1 Hibiscus syriacus cultivar Beakdansim tig00018827_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1357898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 987 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)
1217021--1217124	33	3.1	33	83	5	129	42	5	5	46	1.51
1217022--1217139	33	3.5	32	80	6	128	43	5	5	45	1.50
1217193--1217232	2	21.0	2	85	10	57	55	0	0	45	0.99
1220561--1220782	43	5.0	45	89	7	330	30	20	7	41	1.79
1220577--1220782	87	2.3	88	90	6	312	29	20	7	41	1.80
1222670--1222748	30	2.6	30	75	18	83	32	17	8	40	1.81
1223042--1223229	82	2.3	84	83	5	231	31	11	19	37	1.88
1223178--1223262	42	2.0	42	82	8	102	30	14	20	35	1.92
1223574--1223684	41	2.7	41	83	6	118	29	13	14	42	1.84
1223598--1223684	41	2.1	41	86	2	120	35	13	10	40	1.79
1224693--1224733	3	14.0	3	89	5	66	34	0	0	65	0.93
1224690--1224733	23	1.9	23	95	0	79	34	0	0	65	0.93
1224696--1224733	20	1.9	20	94	0	67	34	0	0	65	0.93
1228006--1228068	31	2.1	31	88	8	94	15	15	12	55	1.69
1232138--1232279	36	3.9	36	79	8	146	32	19	12	35	1.89
1232348--1232416	36	2.0	36	82	5	88	34	21	8	34	1.84
1235166--1235195	16	1.9	15	93	6	51	40	0	3	56	1.16
1237888--1237926	15	2.7	15	92	4	62	38	0	5	56	1.22
1238487--1238514	14	2.0	14	100	0	56	42	0	7	50	1.30
1239485--1239604	38	3.3	38	82	10	135	45	4	2	47	1.35
1240628--1240735	29	3.7	29	75	10	78	60	10	9	20	1.56
1241619--1241758	3	45.3	3	87	5	172	61	4	0	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242002--1242324	46	7.4	45	71	14	203	25	17	30	25	1.97
1241952--1242407	129	3.5	129	87	1	603	25	17	31	25	1.97
1242175--1242407	40	5.5	43	70	14	137	24	18	32	25	1.97
1242573--1242974	36	11.6	36	74	14	308	39	13	19	27	1.90
1242576--1242637	21	3.2	21	63	25	55	38	11	19	30	1.87
1242648--1242708	21	3.2	21	61	29	55	39	13	21	26	1.90
1242591--1242974	136	2.8	135	82	6	436	38	13	19	27	1.90
1242802--1242923	65	1.9	64	83	8	158	37	16	20	25	1.93
1242866--1242972	37	2.9	37	80	1	99	44	14	16	24	1.84
1243998--1244072	32	2.3	32	84	6	98	32	22	17	28	1.96
1245103--1245137	12	2.8	13	91	4	54	0	14	5	80	0.89
1245114--1245165	21	2.4	22	78	15	63	3	17	3	75	1.11
1248460--1248566	31	3.5	29	71	13	74	59	9	12	18	1.58
1248728--1248810	32	2.6	32	88	0	112	15	53	21	9	1.71
1248918--1249195	145	1.9	146	84	5	375	19	24	21	34	1.97
1249516--1249582	3	21.3	3	79	8	71	59	2	0	37	1.13
1249514--1249572	16	3.8	16	86	4	75	61	3	0	35	1.13
1249519--1249582	13	4.8	13	84	7	65	59	3	0	37	1.13
1258722--1258755	17	2.1	17	94	5	61	23	2	0	73	0.97
1258928--1259063	33	4.0	34	76	11	143	43	8	13	34	1.74
1259140--1259217	35	2.2	35	90	0	120	51	6	17	24	1.69
1259292--1259412	44	2.8	42	79	2	134	26	15	24	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262040--1262077	20	2.0	20	89	5	60	15	5	2	76	1.08
1262084--1262124	2	20.5	2	100	0	82	48	0	0	51	1.00
1262807--1262842	12	3.0	12	88	11	56	16	0	2	80	0.83
1263546--1263583	20	2.0	20	89	5	60	15	5	2	76	1.08
1264292--1264363	27	2.5	29	80	8	76	22	1	2	73	1.04
1265023--1265067	12	3.8	12	83	16	58	15	0	4	80	0.87
1265023--1265067	17	2.7	16	83	10	54	15	0	4	80	0.87
1265058--1265110	22	2.3	24	78	18	60	26	1	7	64	1.31
1262108--1267833	739	7.8	736	93	2	9542	32	10	10	45	1.74
1266483--1266527	12	3.8	12	83	16	58	15	0	4	80	0.87
1266483--1266553	17	4.2	16	78	10	61	19	1	4	74	1.06
1266477--1266552	16	4.8	16	76	14	68	18	2	3	75	1.08
1262124--1267833	746	7.8	739	93	2	9675	32	10	10	45	1.74
1267222--1267257	14	2.6	14	95	0	63	25	5	0	69	1.10
1270393--1270441	19	2.6	19	87	9	66	28	18	28	24	1.98
1272058--1272145	23	3.9	22	77	10	88	27	22	23	26	2.00
1272062--1272158	44	2.2	43	83	10	117	27	21	23	26	1.99
1277806--1277853	21	2.3	21	100	0	96	16	18	39	25	1.91
1277923--1278085	65	2.5	62	80	7	175	31	18	20	29	1.96
1281240--1281546	136	2.4	128	83	7	377	39	14	19	26	1.91
1281240--1281546	68	4.7	67	80	6	324	39	14	19	26	1.91
1281365--1281548	31	5.5	31	68	14	98	39	14	20	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283384--1283429	2	23.0	2	95	0	83	47	0	2	50	1.13
1285517--1285572	27	2.1	27	89	0	85	48	5	21	25	1.71
1287740--1288019	29	9.7	29	78	9	250	60	7	12	19	1.55
1287794--1288006	29	7.3	29	83	6	261	60	7	14	17	1.56
1287736--1288002	117	2.3	115	82	8	297	59	7	14	19	1.58
1290681--1290757	33	2.4	32	84	4	109	42	15	9	32	1.78
1291153--1291189	19	1.9	19	94	0	65	32	29	16	21	1.95
1291206--1291287	41	2.0	42	87	2	121	21	21	19	36	1.95
1291206--1291270	21	3.1	21	70	12	62	18	21	18	41	1.90
1291215--1291280	21	3.2	20	73	14	62	19	22	19	37	1.94
1291296--1291343	20	2.4	20	89	0	78	25	29	20	25	1.99
1292164--1292217	24	2.2	24	86	0	72	24	14	18	42	1.88
1292404--1292440	14	2.6	14	91	4	56	51	21	21	5	1.68
1294063--1294118	22	2.5	23	80	8	71	17	12	44	25	1.84
1294279--1294431	20	7.6	20	70	12	107	25	15	24	33	1.95
1294255--1294431	40	4.4	41	84	3	216	26	15	23	35	1.94
1294258--1294372	21	5.6	21	72	13	96	23	14	23	38	1.92
1294255--1294431	81	2.2	82	82	7	218	26	15	23	35	1.94
1294457--1294493	19	1.9	19	88	0	56	24	16	27	32	1.96
1294733--1294770	2	19.0	2	94	0	67	50	0	2	47	1.15
1295121--1295229	54	2.0	54	94	0	191	50	6	4	38	1.49
1295711--1295744	12	2.8	12	81	0	50	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295707--1295753	23	2.0	22	84	8	58	34	2	0	63	1.06
1295727--1295794	32	2.1	33	83	2	84	35	2	1	60	1.21
1296255--1296733	181	2.6	182	88	2	676	39	12	8	38	1.74
1297840--1297992	40	3.8	40	84	7	179	38	24	16	20	1.92
1297840--1298012	20	8.6	21	78	12	150	38	24	15	21	1.92
1298005--1298055	18	2.7	19	72	6	59	35	21	9	33	1.86
1298819--1298852	12	2.8	12	90	0	50	55	29	0	14	1.40
1298976--1299031	24	2.3	24	90	0	85	30	14	16	39	1.88
1299206--1299230	9	2.8	9	100	0	50	76	0	24	0	0.80
1301295--1301330	18	2.0	18	94	0	63	55	25	2	16	1.55
1301710--1301791	42	2.0	42	90	0	128	31	20	17	30	1.95
1301857--1301994	38	3.5	38	70	21	122	50	17	1	30	1.55
1301895--1301948	28	1.9	28	84	0	72	48	20	0	31	1.50
1301912--1301948	14	2.6	14	100	0	74	48	21	0	29	1.50
1301846--1302003	80	2.0	79	96	1	289	50	18	1	30	1.55
1303385--1303462	21	3.8	20	75	11	59	26	17	30	24	1.97
1306156--1306213	20	2.9	20	92	0	89	17	17	24	41	1.90
1308808--1308833	11	2.4	11	100	0	52	76	0	0	23	0.78
1308810--1308852	17	2.4	19	84	7	54	74	2	2	20	1.04
1309068--1309152	39	2.1	41	78	10	95	65	2	5	25	1.27
1309195--1309258	23	2.7	23	83	7	67	64	0	3	32	1.10
1309213--1309296	23	3.5	23	74	16	73	67	0	5	26	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309231--1309300	27	2.8	24	76	14	79	71	0	5	22	1.07
1310077--1310143	12	5.5	13	75	22	65	2	17	2	76	1.05
1310076--1310143	27	2.8	25	81	14	79	4	17	2	75	1.10
1311349--1311382	7	4.7	7	92	7	59	55	14	14	14	1.69
1313424--1313518	38	2.5	38	82	1	111	70	3	7	18	1.24
1313641--1313705	8	8.4	8	89	6	62	50	4	1	43	1.32
1313648--1313707	2	31.0	2	88	6	88	51	1	1	45	1.21
1319447--1319479	15	2.1	16	88	5	50	54	33	3	9	1.47
1321420--1321485	10	6.6	10	79	17	75	16	40	18	24	1.90
1321420--1321485	20	3.3	20	97	0	123	16	40	18	24	1.90

Tables:   1   2   3   4   5   6   7   8   9