genome.fa.s9072.2.7.7.80.10.50.1000.7.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: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2600608

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1560 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)
1177544--1177825	141	2.0	141	95	0	510	52	12	12	23	1.71
1178666--1178695	16	1.9	15	93	6	51	26	0	3	70	1.03
1180973--1181099	35	3.6	33	77	9	119	29	19	17	33	1.95
1182014--1182046	3	11.3	3	93	6	59	69	0	0	30	0.88
1184216--1184286	31	2.3	31	85	2	88	50	0	0	49	1.00
1184305--1184339	12	2.9	12	91	0	52	28	48	11	11	1.74
1185492--1185555	24	2.5	24	85	12	74	56	1	0	42	1.09
1185488--1185643	64	2.5	64	87	8	239	56	1	0	41	1.10
1185516--1185616	32	3.2	32	69	16	100	56	0	0	42	1.06
1185609--1185656	16	2.8	18	81	12	57	62	2	0	35	1.07
1187201--1187229	14	2.1	14	100	0	58	55	24	0	20	1.44
1190612--1190669	28	2.1	27	81	9	64	62	8	1	27	1.35
1190907--1190950	20	2.2	20	84	8	54	34	2	0	63	1.07
1191213--1191255	21	2.1	21	86	4	61	41	2	2	53	1.26
1192640--1192813	64	2.7	62	81	9	197	29	18	24	27	1.98
1192767--1192803	19	1.9	19	100	0	74	27	16	35	21	1.94
1192660--1192869	65	3.2	64	82	8	223	28	18	23	29	1.98
1195481--1195584	23	4.7	22	85	4	138	25	22	27	24	1.99
1205052--1205094	16	2.6	16	85	10	52	58	27	0	13	1.37
1207012--1207072	20	2.9	21	87	7	79	18	26	34	21	1.96
1212769--1212973	76	2.7	77	86	6	267	20	23	32	23	1.98
1213435--1213554	21	5.8	20	74	9	100	21	18	25	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213429--1213554	42	3.0	40	87	4	171	21	19	24	34	1.96
1213651--1213683	6	5.5	6	86	13	50	30	51	18	0	1.46
1213651--1213685	18	1.9	18	100	0	70	28	51	20	0	1.47
1214175--1214217	5	8.6	5	84	0	59	4	41	16	37	1.69
1214178--1214215	15	2.5	15	95	0	67	5	44	13	36	1.66
1214325--1214585	82	3.2	82	93	1	441	36	22	18	22	1.95
1214325--1214585	42	6.3	42	92	2	431	36	22	18	22	1.95
1214325--1214585	124	2.1	124	92	2	445	36	22	18	22	1.95
1214619--1214668	21	2.4	21	93	0	82	18	22	30	30	1.97
1229134--1229172	20	1.9	21	84	5	53	38	12	2	46	1.56
1232046--1232085	20	2.1	18	86	9	53	57	10	10	22	1.61
1242084--1242142	20	2.9	21	85	7	86	18	27	23	30	1.98
1242105--1242174	10	7.3	10	72	24	62	15	30	28	25	1.96
1242105--1242172	19	3.5	20	88	9	90	16	27	29	26	1.97
1242135--1242174	9	4.3	9	84	6	53	15	30	30	25	1.95
1242176--1242230	17	3.2	17	97	0	101	18	45	23	12	1.83
1242170--1242237	17	3.2	22	72	23	65	17	44	23	14	1.86
1249402--1249459	10	6.0	9	77	15	53	17	25	25	31	1.97
1249402--1249459	19	2.9	21	80	10	68	17	25	25	31	1.97
1249423--1249472	9	5.3	10	77	20	54	14	30	28	28	1.95
1249423--1249472	19	2.7	19	82	14	68	14	30	28	28	1.95
1249486--1249548	5	11.8	5	77	12	63	19	50	22	7	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249469--1249555	22	4.0	22	95	0	156	18	47	22	11	1.81
1249545--1249575	7	4.4	7	91	0	53	16	29	25	29	1.96
1251065--1251094	13	2.3	13	100	0	60	50	33	6	10	1.62
1252252--1252280	14	2.1	14	93	6	51	24	10	0	65	1.23
1255371--1255406	15	2.5	14	86	8	54	41	8	13	36	1.75
1255657--1255766	54	2.1	54	96	1	204	53	11	5	29	1.59
1257986--1258018	7	4.7	7	100	0	66	42	12	0	45	1.41
1258014--1258075	3	21.0	3	82	9	74	25	0	1	72	0.94
1258393--1258419	5	5.4	5	100	0	54	59	0	40	0	0.98
1266295--1266339	2	23.0	2	95	4	83	51	0	0	48	1.00
1268351--1268457	42	2.6	41	74	15	103	26	19	21	32	1.97
1267957--1268780	257	3.2	257	87	4	1160	33	15	15	34	1.90
1268627--1268729	41	2.5	42	80	1	109	29	19	19	32	1.96
1269046--1269104	3	20.3	3	83	10	70	32	1	0	66	1.02
1271588--1271612	13	1.9	13	100	0	50	44	8	0	48	1.32
1276650--1276686	20	1.9	18	89	10	56	32	5	0	62	1.18
1276803--1276841	18	2.3	18	86	8	55	25	0	5	69	1.09
1278933--1278987	26	2.1	26	89	0	83	21	0	7	70	1.11
1278959--1278998	17	2.3	18	95	4	73	15	0	12	72	1.12
1283502--1283550	24	2.0	24	88	7	73	16	28	10	44	1.80
1298179--1298219	17	2.4	17	83	0	55	21	2	0	75	0.92
1301346--1301639	145	2.0	146	99	0	581	32	19	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307337--1307395	24	2.5	24	97	0	109	49	10	13	27	1.74
1308699--1308745	20	2.4	19	80	13	51	48	0	4	46	1.21
1309730--1309766	13	2.8	13	83	0	56	8	24	8	59	1.53
1311125--1311158	6	5.7	6	85	0	50	32	20	0	47	1.51
1311125--1311160	18	2.0	18	94	0	63	30	22	0	47	1.52
1311369--1311415	24	2.0	24	82	0	58	34	23	23	19	1.97
1312668--1312791	47	2.8	46	85	7	166	31	20	7	41	1.79
1312681--1312805	47	2.9	41	82	12	130	32	20	7	40	1.79
1317098--1317131	16	2.1	16	88	0	50	23	5	17	52	1.66
1323395--1323447	2	26.5	2	100	0	106	50	0	0	49	1.00
1323743--1323804	26	2.4	26	83	5	81	61	4	1	32	1.27
1325510--1325873	143	2.5	143	76	5	356	29	15	17	37	1.91
1332660--1332700	21	2.0	21	90	4	66	68	7	19	4	1.32
1333838--1333902	34	1.9	34	96	0	121	46	18	9	26	1.79
1354867--1354920	17	3.2	17	72	0	54	31	0	3	64	1.11
1356499--1356592	21	4.5	21	90	5	136	18	32	27	21	1.96
1357115--1357211	33	2.9	34	85	3	124	56	4	2	37	1.30
1357113--1357218	34	3.2	32	82	8	122	55	4	1	37	1.32
1357611--1358109	128	3.9	128	95	0	872	32	19	24	23	1.98
1372870--1372925	22	2.5	22	97	0	103	19	28	26	25	1.99
1380016--1380095	3	26.7	3	97	0	151	31	0	1	67	0.99
1381817--1381864	21	2.2	22	77	3	53	31	2	10	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382423--1382461	16	2.4	16	82	4	51	35	5	2	56	1.35
1384494--1384534	3	13.7	3	100	0	82	34	0	0	65	0.93
1384967--1385009	11	3.9	11	84	0	59	46	30	2	20	1.63
1384972--1385018	22	2.1	22	88	0	67	46	34	0	19	1.50
1386394--1386595	104	2.0	101	87	2	287	33	11	12	42	1.79
1389823--1389851	15	1.9	15	100	0	58	6	17	13	62	1.52
1389824--1389857	15	2.3	15	89	0	50	11	14	14	58	1.63
1391188--1391268	3	26.3	3	79	9	83	39	2	0	58	1.12
1391170--1391285	35	3.5	32	80	9	115	41	2	0	55	1.20
1391188--1391268	16	4.9	17	79	11	89	39	2	0	58	1.12
1394546--1394601	21	2.7	21	94	0	103	46	21	16	16	1.84
1394846--1394870	6	4.2	6	100	0	50	16	16	16	52	1.76
1394856--1394897	20	2.1	20	82	8	50	16	14	11	57	1.66
1398774--1398935	83	2.0	81	95	4	290	26	17	29	26	1.97
1400219--1400325	36	2.9	36	83	6	128	39	17	17	25	1.92
1400219--1400351	37	3.6	36	79	8	108	36	18	17	27	1.93
1400667--1400742	37	2.1	37	85	9	102	44	17	17	21	1.86
1400748--1401459	56	12.8	56	91	1	1112	33	17	23	25	1.96
1401421--1401572	45	3.2	45	81	17	205	31	14	24	29	1.94
1401413--1401723	110	3.0	99	81	11	370	30	14	24	30	1.94
1401467--1401866	110	3.8	105	79	10	394	30	14	24	30	1.95
1401637--1401866	55	4.6	48	77	13	155	29	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402106--1402177	3	23.3	3	77	8	65	38	2	0	58	1.13
1403912--1404081	87	2.0	83	94	4	295	28	9	16	45	1.78
1405677--1405896	85	2.6	85	84	3	264	29	17	20	32	1.96
1406209--1406292	42	2.0	43	86	6	118	61	16	1	20	1.40
1407902--1408008	52	2.0	54	91	8	175	37	6	16	39	1.75
1410063--1410939	440	2.0	436	97	1	1677	38	13	16	31	1.88
1411512--1411546	18	1.9	19	88	11	56	60	8	2	28	1.41
1416677--1416707	4	8.0	4	92	7	55	22	0	0	77	0.77
1417677--1417706	13	2.4	12	94	5	51	83	0	0	16	0.65
1420045--1420118	2	37.0	2	100	0	148	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13