genome.fa.s8353.2.7.7.80.10.50.1000.6.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: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2583621

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

This is table  6  of  13  ( 1447 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)
1172280--1172346	34	1.9	34	82	14	84	47	17	11	22	1.80
1172524--1172598	36	2.1	36	92	0	123	28	29	21	21	1.98
1172642--1172682	21	2.0	21	90	4	66	34	19	9	36	1.85
1175073--1175134	18	3.7	18	74	14	53	25	0	4	69	1.08
1178658--1178736	31	2.5	31	81	0	95	27	7	11	53	1.64
1196240--1196284	23	2.0	23	90	0	72	46	2	0	51	1.13
1196238--1196283	12	3.9	12	82	5	58	45	2	0	52	1.13
1200265--1200358	20	4.7	20	80	7	100	34	24	18	23	1.96
1200904--1201069	20	9.1	19	74	16	136	12	22	22	43	1.86
1200909--1200985	39	2.0	39	87	5	111	9	19	25	45	1.80
1200957--1201044	33	2.6	33	92	1	140	11	25	25	38	1.89
1202958--1203041	42	2.0	42	85	0	114	21	39	16	22	1.92
1204439--1204474	14	2.6	14	95	0	63	30	0	25	44	1.54
1204601--1204659	19	3.4	19	73	22	74	13	22	18	45	1.84
1204582--1204658	33	2.3	34	84	6	104	18	22	20	38	1.93
1206952--1206976	12	2.1	12	100	0	50	0	28	0	72	0.86
1207151--1207204	24	2.2	24	90	0	81	38	20	16	24	1.92
1208266--1208363	20	4.9	20	96	0	169	36	22	23	17	1.94
1208288--1208375	40	2.4	35	81	14	99	38	21	23	15	1.92
1208387--1208440	14	3.5	14	77	22	63	11	20	20	48	1.80
1208369--1208439	33	2.2	33	81	0	79	21	18	21	39	1.93
1208384--1208459	33	2.3	33	90	0	116	13	22	22	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208547--1208583	14	2.6	14	86	0	56	48	21	0	29	1.50
1210450--1210516	19	3.5	19	79	4	80	38	23	22	14	1.92
1210431--1210515	20	4.4	19	77	4	71	41	24	18	15	1.89
1210505--1210562	14	3.9	14	79	16	71	48	25	17	8	1.75
1210489--1210567	32	2.4	33	95	2	142	46	24	18	10	1.80
1210596--1210653	14	3.9	14	79	16	71	10	17	24	48	1.78
1210579--1210669	32	2.8	33	93	3	157	13	18	20	47	1.82
1210654--1210708	20	2.8	19	83	8	65	16	23	23	36	1.94
1211866--1211912	20	2.3	20	100	0	94	36	25	23	14	1.93
1211906--1211963	14	3.4	18	71	24	54	46	22	18	12	1.82
1211922--1211979	14	3.9	14	79	16	71	48	25	17	8	1.75
1211906--1211984	32	2.4	33	95	2	142	46	24	18	10	1.80
1212013--1212070	14	3.9	14	79	16	71	10	17	24	48	1.78
1211996--1212086	32	2.8	33	93	3	157	13	18	20	47	1.82
1212071--1212125	20	2.8	19	83	8	65	16	23	23	36	1.94
1212290--1212337	25	2.0	25	91	4	80	35	8	10	45	1.68
1212596--1212662	20	3.4	20	81	2	73	38	23	22	14	1.92
1212651--1212708	14	3.9	14	79	16	71	48	24	17	10	1.78
1212635--1212725	32	2.8	33	93	3	157	47	20	18	13	1.82
1212742--1212799	14	3.9	14	79	16	71	8	17	25	48	1.75
1212737--1212815	32	2.4	33	95	2	142	10	18	24	46	1.80
1212756--1212873	20	6.4	19	75	11	86	13	19	24	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214724--1214759	14	2.6	14	90	0	54	30	0	22	47	1.52
1214876--1214943	19	3.8	19	83	14	92	47	17	20	14	1.83
1214962--1215019	20	2.9	20	97	0	107	15	22	24	37	1.93
1216081--1216134	24	2.2	24	90	0	81	24	16	20	38	1.92
1216309--1216333	12	2.1	12	100	0	50	72	0	28	0	0.86
1218626--1218680	19	3.2	19	68	24	57	47	16	21	14	1.82
1218625--1218785	33	4.9	33	88	3	209	42	19	21	16	1.89
1218948--1218984	14	2.6	14	91	0	65	45	24	0	29	1.53
1220344--1220410	21	3.2	21	68	4	55	19	20	35	23	1.95
1220344--1220465	42	2.9	41	79	7	102	23	18	35	22	1.96
1222465--1222611	20	7.8	19	78	13	117	44	22	21	10	1.83
1222465--1222616	19	8.1	19	78	12	145	44	22	22	11	1.84
1223190--1223242	20	2.7	20	93	0	88	26	20	28	24	1.99
1223251--1223304	20	2.7	20	97	0	99	25	18	24	31	1.97
1223191--1223307	61	1.9	61	85	0	162	23	17	24	33	1.97
1223191--1223325	61	2.2	61	81	2	155	22	20	24	32	1.98
1223375--1223415	21	2.0	21	85	0	55	34	31	17	17	1.93
1227310--1227346	10	3.5	11	82	17	51	78	0	2	18	0.87
1230234--1230292	31	1.9	31	86	6	84	38	5	10	45	1.60
1230308--1230385	22	3.7	22	75	13	92	52	12	0	34	1.40
1230308--1230396	40	2.2	40	89	0	133	51	12	0	35	1.40
1230365--1230462	32	3.4	31	72	26	106	52	7	0	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230397--1230439	22	2.0	22	95	0	77	51	6	0	41	1.29
1230347--1230462	54	2.1	54	92	3	189	52	6	0	40	1.28
1230399--1230447	22	2.2	22	85	3	62	55	8	0	36	1.30
1230442--1230572	15	8.5	15	80	13	124	50	2	0	47	1.13
1230322--1230533	72	3.1	66	77	10	183	50	7	0	42	1.29
1230489--1230599	43	2.6	42	81	8	111	47	1	0	50	1.11
1234043--1234092	22	2.3	21	86	6	73	58	14	0	28	1.37
1239313--1239485	69	2.5	69	87	0	256	23	15	16	43	1.86
1241694--1241746	18	2.7	19	77	14	54	35	7	0	56	1.28
1244104--1244211	37	3.0	38	84	7	120	34	6	17	41	1.75
1244602--1244710	37	3.1	37	83	9	120	35	6	17	40	1.75
1243845--1245332	500	3.0	503	96	3	2770	39	13	11	35	1.81
1249608--1249668	21	3.2	21	65	29	64	31	4	21	42	1.74
1249570--1249753	72	2.6	72	85	7	234	32	5	19	42	1.75
1249600--1249753	37	4.2	37	91	5	235	31	5	18	44	1.72
1250525--1250568	12	3.9	12	81	18	51	54	2	0	43	1.12
1250702--1250745	18	2.4	18	84	3	61	45	4	4	45	1.44
1250702--1250884	16	11.5	17	67	20	76	45	5	6	43	1.51
1250705--1250814	46	2.4	46	86	7	145	46	5	4	43	1.47
1250772--1250846	32	2.5	30	85	12	93	48	4	4	44	1.40
1250794--1250846	14	3.8	13	80	12	52	49	1	3	45	1.31
1250840--1250882	18	2.5	17	76	3	50	39	6	9	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250912--1251011	2	51.0	2	68	18	59	46	2	5	47	1.36
1250950--1251286	18	19.6	18	65	20	84	43	5	9	42	1.59
1250945--1250982	20	1.9	20	94	0	67	44	0	2	52	1.14
1250913--1251011	15	6.6	15	70	20	55	46	2	5	46	1.36
1250991--1251138	29	5.1	29	71	19	112	43	6	10	39	1.63
1250978--1251083	52	2.1	47	85	10	140	48	5	9	36	1.59
1251039--1251138	33	3.1	33	87	9	129	41	6	10	43	1.63
1251006--1251274	69	3.9	69	73	17	198	41	5	10	42	1.63
1251146--1251275	36	3.7	36	88	10	198	39	5	10	44	1.62
1251036--1251336	18	16.9	18	69	20	129	40	7	9	42	1.65
1251408--1251454	6	8.5	6	82	17	66	70	0	0	29	0.88
1251410--1251456	10	4.5	10	91	5	67	72	0	0	27	0.85
1251410--1251454	16	2.8	16	89	0	72	71	0	0	28	0.87
1251492--1251600	21	5.0	21	71	20	64	49	3	2	44	1.34
1251693--1251780	2	44.0	2	72	17	67	46	3	2	47	1.31
1251696--1251757	18	3.3	18	76	24	74	46	4	3	45	1.40
1251694--1251758	20	3.3	20	83	16	100	46	4	3	46	1.39
1251693--1251779	38	2.2	40	89	6	142	47	3	2	47	1.32
1251715--1251775	27	2.3	27	80	8	70	47	3	1	47	1.28
1251813--1252585	202	3.8	205	84	7	922	29	11	8	50	1.67
1257782--1257813	2	16.0	2	93	0	55	46	0	3	50	1.17
1259560--1259590	7	4.4	7	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1261418--1261554	21	6.6	21	79	9	138	31	23	22	22	1.98
1261418--1261580	83	2.0	83	95	0	290	31	22	22	23	1.98
1261438--1261573	62	2.2	61	80	10	152	33	21	22	22	1.98
1261569--1261620	21	2.5	21	83	0	68	25	19	25	30	1.98
1261713--1261749	6	6.5	6	87	6	51	32	48	16	2	1.60
1261750--1261800	5	10.4	5	93	2	77	37	17	41	3	1.68
1262396--1263414	42	24.5	42	80	11	1057	34	22	20	23	1.97
1262383--1263507	373	3.0	373	98	0	2178	33	22	21	23	1.97
1263837--1263863	7	3.9	7	100	0	54	40	0	0	59	0.98
1268554--1268578	7	3.6	7	100	0	50	84	0	0	16	0.63

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