genome.fa.s6550.2.7.7.80.10.50.1000.7.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: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1576944

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 954 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)
1121822--1121868	18	2.6	18	100	0	94	27	27	12	31	1.93
1122862--1122894	14	2.4	14	94	0	57	39	0	15	45	1.46
1122936--1123065	21	6.3	20	67	20	63	31	0	28	39	1.62
1122984--1123065	21	4.0	21	73	17	73	32	0	25	41	1.56
1122991--1123059	35	2.0	35	85	5	95	33	0	24	42	1.55
1125299--1125806	258	2.0	259	90	1	797	35	6	17	40	1.76
1125752--1125812	27	2.2	28	80	5	72	31	0	26	42	1.55
1125782--1125846	33	1.9	34	84	3	87	27	0	24	47	1.52
1125819--1125958	7	20.1	7	71	15	85	27	0	28	44	1.55
1125871--1125998	21	6.1	21	79	2	141	28	0	27	44	1.55
1125905--1125966	15	4.3	14	78	12	54	25	0	29	45	1.54
1126026--1126084	14	4.3	13	80	6	64	37	0	23	38	1.55
1126026--1126085	28	2.2	28	84	3	77	36	0	23	40	1.55
1126234--1126414	28	6.5	27	67	12	91	30	0	29	39	1.57
1126278--1126358	35	2.3	35	95	0	144	33	0	33	33	1.58
1126319--1126424	55	1.9	55	81	7	126	30	0	26	42	1.62
1126395--1126436	21	2.0	22	85	4	59	23	2	28	45	1.66
1126417--1126473	28	2.1	27	83	9	71	22	0	24	52	1.47
1126450--1126550	21	4.9	21	73	9	55	20	0	28	50	1.49
1126429--1126510	14	5.9	14	71	5	67	19	0	30	50	1.48
1126242--1126502	7	37.3	7	64	21	50	28	0	28	42	1.59
1126450--1126595	14	10.5	14	70	15	63	23	0	29	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126556--1126639	21	4.0	21	72	16	66	32	0	28	39	1.57
1126593--1126649	21	2.7	21	78	10	62	38	0	24	36	1.56
1130897--1130934	2	19.0	2	100	0	76	50	0	0	50	1.00
1134466--1134506	17	2.4	17	100	0	82	41	4	0	53	1.22
1143510--1143630	59	2.1	59	93	0	206	33	23	18	24	1.96
1149173--1149225	24	2.1	24	86	10	70	22	7	0	69	1.13
1149195--1149233	11	3.6	11	83	16	55	25	0	0	74	0.82
1149195--1149241	17	2.9	17	81	9	53	25	2	0	72	0.96
1149200--1149242	9	4.7	9	85	11	52	23	2	0	74	0.93
1149200--1149233	7	4.9	7	86	13	52	23	0	0	76	0.79
1152852--1152903	18	2.8	19	82	11	63	51	1	1	44	1.23
1153554--1153584	2	15.5	2	93	0	53	48	0	3	48	1.17
1154426--1154450	3	8.3	3	100	0	50	36	0	32	32	1.58
1159299--1159474	60	2.9	61	75	7	144	30	19	5	44	1.73
1159599--1159664	29	2.3	29	89	5	98	39	3	27	30	1.72
1170024--1170073	23	2.2	23	82	10	59	28	0	2	70	0.99
1175133--1175172	20	2.0	20	85	0	53	45	12	12	30	1.79
1187884--1187921	19	2.0	20	94	5	69	34	10	5	50	1.59
1189863--1189934	20	3.7	20	84	1	83	34	19	8	37	1.82
1190765--1191067	159	1.9	159	83	4	396	43	6	20	29	1.77
1191199--1191769	285	2.0	285	97	0	1088	31	16	14	38	1.88
1192316--1192348	3	11.0	3	100	0	66	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194429--1194508	39	2.1	39	100	0	160	30	15	12	42	1.83
1197096--1197124	2	14.5	2	100	0	58	51	0	0	48	1.00
1199514--1199631	59	2.0	59	98	0	227	32	3	29	34	1.74
1200136--1200267	47	2.8	46	83	4	183	42	15	8	33	1.77
1202923--1203020	24	4.1	24	85	5	117	38	21	17	22	1.93
1202933--1203015	12	6.8	13	65	15	61	37	22	18	21	1.94
1202933--1203021	24	3.7	24	89	3	126	35	21	19	23	1.95
1204551--1204590	19	2.1	19	90	0	62	37	15	5	42	1.68
1208361--1208398	19	2.0	20	85	15	53	21	15	21	42	1.89
1214222--1214246	12	2.1	12	100	0	50	0	16	0	84	0.63
1222605--1222633	13	2.3	13	94	5	51	10	20	10	58	1.60
1226122--1226179	22	2.6	22	83	0	71	20	22	22	34	1.97
1226297--1226330	17	1.9	17	88	5	50	20	11	14	52	1.73
1228126--1228205	19	4.2	19	77	6	63	17	16	12	53	1.72
1231427--1231475	24	2.0	24	88	0	71	36	22	20	20	1.95
1231480--1231539	23	2.6	23	75	0	66	33	20	21	25	1.97
1234516--1234569	22	2.5	22	84	0	72	37	18	20	24	1.94
1237698--1237769	35	2.2	33	85	11	96	37	16	30	15	1.90
1237707--1237774	35	1.9	36	93	3	120	36	17	30	14	1.90
1237892--1237933	13	3.0	14	79	10	50	45	0	0	54	0.99
1248777--1250297	6	254.3	6	96	1	1762	25	1	40	32	1.64
1255731--1255793	23	2.7	23	82	0	90	17	25	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255731--1255827	46	2.1	47	83	9	119	19	23	24	31	1.98
1258134--1258172	2	19.5	2	100	0	78	51	0	0	48	1.00
1260165--1260193	2	14.5	2	100	0	58	48	0	0	51	1.00
1261243--1261301	2	30.0	2	80	10	50	45	0	1	52	1.10
1261235--1261319	39	2.2	40	91	6	138	38	0	2	58	1.11
1266953--1267043	31	2.9	31	90	1	128	25	18	19	36	1.95
1267059--1267106	17	2.8	17	93	0	78	27	31	8	33	1.86
1270924--1271030	42	2.6	40	79	5	115	30	21	21	26	1.98
1271170--1271841	39	17.2	39	88	1	963	35	15	16	32	1.90
1271235--1271296	19	3.2	19	67	13	54	37	17	19	25	1.94
1271380--1271444	22	3.2	22	62	28	52	30	15	16	36	1.90
1272731--1272770	14	2.7	15	88	7	64	22	37	22	17	1.94
1279624--1279693	12	5.8	12	71	6	52	52	18	11	17	1.73
1279624--1279693	24	2.9	24	80	0	86	52	18	11	17	1.73
1279675--1279730	24	2.3	24	78	0	67	48	14	12	25	1.78
1281824--1281856	17	1.9	17	100	0	66	66	6	6	21	1.35
1284371--1284440	12	5.8	12	71	6	52	50	18	12	18	1.78
1284369--1284432	24	2.7	24	77	0	74	51	18	12	17	1.76
1288965--1289001	2	18.5	2	100	0	74	51	0	0	48	1.00
1289183--1289224	12	3.5	12	78	12	50	50	16	11	21	1.77
1289166--1289276	24	4.7	24	75	4	91	49	15	13	21	1.78
1298020--1298100	36	2.2	36	82	0	99	34	12	37	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298388--1298438	25	2.0	25	81	7	59	23	7	39	29	1.83
1299345--1299435	27	3.3	27	92	1	137	13	21	49	15	1.78
1299836--1299905	33	2.1	33	84	10	90	24	14	5	55	1.60
1300085--1300148	22	3.0	22	73	11	62	15	3	6	75	1.14
1304912--1304953	19	2.4	18	80	11	52	35	30	2	30	1.71
1305309--1305338	2	15.0	2	92	0	51	46	0	0	53	1.00
1305619--1305695	12	6.4	12	68	20	54	77	0	19	2	0.88
1305615--1305705	16	4.7	18	66	25	51	76	0	18	4	0.94
1305616--1305722	10	11.9	9	69	21	64	77	0	17	4	0.93
1305615--1305694	28	2.8	28	76	16	83	77	0	20	2	0.88
1305628--1305721	36	2.5	35	83	11	100	77	0	17	5	0.94
1305612--1305722	14	8.6	14	71	24	68	77	0	18	4	0.93
1305674--1305723	13	3.7	14	75	15	52	78	0	14	8	0.97
1305613--1305722	26	4.5	24	72	18	84	77	0	18	4	0.94
1307818--1307904	42	2.1	42	82	6	106	28	20	20	29	1.98
1308478--1308528	23	2.3	22	79	3	57	3	15	5	74	1.16
1314800--1314847	24	2.0	24	100	0	96	37	12	12	37	1.81
1315755--1315820	24	2.8	24	88	4	89	12	16	43	27	1.83
1320292--1320330	19	2.0	20	95	5	71	23	30	30	15	1.95
1320288--1320347	26	2.4	24	88	5	84	20	28	35	16	1.94
1320320--1320411	17	5.4	17	98	0	175	14	23	44	17	1.85
1320288--1320330	7	6.4	7	94	5	72	23	30	30	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320415--1320475	9	6.3	10	76	14	65	27	27	24	19	1.99
1320405--1320475	19	3.7	19	86	1	88	28	29	23	18	1.98
1327635--1327664	13	2.2	14	94	5	53	23	30	30	16	1.96
1327635--1327664	7	4.4	7	91	8	53	23	30	30	16	1.96
1327641--1327705	30	2.2	29	84	13	87	18	24	40	16	1.91
1327654--1327707	17	3.4	16	75	19	60	18	24	40	16	1.90
1327701--1327773	19	3.8	19	90	3	110	27	30	24	17	1.97
1327703--1327791	9	9.1	10	76	12	87	29	28	22	20	1.98
1327701--1327791	20	4.7	19	93	1	110	28	27	24	19	1.99
1329923--1329974	25	2.1	26	85	7	72	55	1	3	38	1.29

Tables:   1   2   3   4   5   6   7   8