genome.fa.s8091.2.7.7.80.10.50.1000.5.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: VEPZ01008091.1 Hibiscus syriacus cultivar Beakdansim tig00110602_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2471235

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

This is table  5  of  11  ( 1255 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)
1010555--1011025	232	2.0	237	96	2	880	23	38	11	26	1.89
1011400--1011438	15	2.5	16	83	4	53	2	12	5	79	1.00
1012407--1012518	42	2.7	41	76	6	109	29	20	24	25	1.99
1012622--1012733	42	2.7	41	77	4	116	30	20	23	25	1.98
1012386--1013156	217	3.6	215	90	1	1168	30	20	16	31	1.95
1012850--1012959	42	2.6	42	75	14	111	30	20	21	27	1.98
1013076--1013143	21	3.3	21	66	12	59	32	22	14	30	1.94
1013064--1013206	41	3.5	41	85	1	196	31	22	20	25	1.98
1012850--1013415	255	2.2	255	91	0	925	32	19	16	31	1.94
1013105--1014169	214	5.0	214	93	1	1679	32	19	15	33	1.93
1013521--1013632	42	2.7	41	77	4	107	30	22	22	25	1.99
1012663--1013628	469	2.1	470	89	1	1486	32	19	15	32	1.94
1013105--1014170	427	2.5	426	91	3	1704	32	19	15	33	1.93
1013735--1013847	42	2.7	41	79	4	127	29	22	23	24	1.99
1013949--1014060	42	2.7	41	77	4	107	31	21	22	25	1.98
1017017--1017060	20	2.2	20	91	0	70	36	22	4	36	1.75
1020409--1020473	32	2.1	32	88	5	98	20	18	38	23	1.93
1029319--1029375	26	2.2	26	87	6	80	35	0	15	49	1.45
1033771--1033802	15	2.1	15	94	0	55	12	9	25	53	1.68
1038731--1038818	31	2.9	29	77	5	86	40	9	6	43	1.63
1041476--1041636	76	2.1	76	91	0	259	34	11	27	26	1.91
1045050--1045091	20	2.1	20	100	0	84	19	9	19	52	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049856--1049922	29	2.3	29	97	0	125	29	20	10	38	1.86
1050351--1050384	16	2.1	16	94	0	59	35	0	26	38	1.57
1053400--1053463	24	2.8	23	80	17	80	20	28	20	31	1.97
1055719--1055756	16	2.4	16	95	0	67	26	7	21	44	1.79
1055962--1055994	14	2.3	15	89	5	50	66	3	0	30	1.06
1064193--1064267	2	38.5	2	94	5	136	49	0	0	50	1.00
1076396--1076443	23	2.1	23	92	0	78	35	8	18	37	1.81
1077059--1077511	179	2.5	181	93	2	761	27	16	13	42	1.85
1077381--1077953	113	5.1	112	91	1	886	25	15	14	45	1.83
1084721--1084753	16	1.9	18	88	11	52	42	0	3	54	1.15
1086369--1086831	149	3.0	155	94	5	839	25	19	17	36	1.94
1097389--1097423	8	4.2	8	89	7	52	28	0	0	71	0.86
1097389--1097421	17	1.9	17	93	0	57	27	0	0	72	0.85
1098903--1098928	11	2.4	11	100	0	52	38	0	0	61	0.96
1099363--1099419	29	1.9	30	85	3	80	45	15	17	21	1.85
1102353--1102391	3	13.0	3	100	0	78	66	0	0	33	0.92
1105279--1105645	159	2.3	157	84	4	470	19	32	9	37	1.85
1106371--1106504	16	8.3	16	69	1	97	43	27	14	14	1.84
1106371--1106454	32	2.6	32	90	0	123	45	28	14	11	1.80
1106399--1106504	49	2.2	48	79	3	122	42	28	16	13	1.85
1106697--1106735	20	2.0	20	90	5	62	56	0	5	38	1.22
1107184--1107276	31	3.0	31	70	7	80	39	24	12	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108642--1108674	10	3.3	10	87	12	50	69	0	0	30	0.88
1118413--1118474	24	2.6	24	89	0	88	14	16	14	54	1.71
1121946--1122025	41	2.0	41	97	0	151	13	20	15	51	1.76
1127285--1128004	156	4.6	156	91	1	1156	22	28	14	34	1.94
1128047--1128298	117	2.2	117	91	0	405	23	25	19	31	1.98
1128047--1128462	117	3.6	116	78	7	326	20	26	18	34	1.96
1132897--1132970	32	2.3	32	79	4	78	47	2	5	44	1.40
1139667--1139723	28	2.1	28	90	3	89	38	7	12	42	1.70
1140675--1140747	26	2.9	25	83	4	101	42	13	26	17	1.87
1146453--1146543	29	3.2	29	83	7	96	38	7	13	40	1.73
1146453--1146548	28	3.4	28	81	9	104	37	8	12	41	1.73
1146630--1146713	29	2.9	28	78	8	78	40	7	8	44	1.62
1148638--1148681	20	2.1	21	88	12	65	38	0	0	61	0.96
1149315--1149465	60	2.5	60	77	6	164	44	3	15	35	1.66
1153537--1153616	39	2.1	38	86	9	110	51	10	15	23	1.73
1159362--1159389	14	2.0	14	100	0	56	50	0	0	50	1.00
1166600--1166648	2	24.5	2	100	0	98	51	0	0	48	1.00
1168498--1168522	13	1.9	13	100	0	50	20	0	32	48	1.50
1169094--1169126	13	2.3	15	90	10	52	33	0	18	48	1.48
1170500--1170587	44	2.0	43	88	2	131	20	20	28	30	1.98
1171221--1171251	14	2.2	14	94	0	53	58	25	12	3	1.50
1171214--1171275	24	2.6	24	92	2	99	59	22	11	6	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175720--1175776	29	2.0	29	86	6	80	28	21	7	43	1.78
1175760--1175992	116	2.0	112	83	6	290	27	14	5	52	1.63
1176765--1176843	2	40.0	2	94	2	142	49	1	0	49	1.09
1177491--1177527	18	2.1	18	100	0	74	51	16	10	21	1.74
1182567--1182627	2	31.5	2	90	6	99	49	0	1	49	1.10
1183214--1183253	21	1.9	21	85	10	55	52	0	2	45	1.14
1183941--1183980	22	1.9	20	85	10	53	42	7	0	50	1.30
1186430--1186475	2	23.0	2	81	0	56	47	6	2	43	1.41
1188340--1188379	21	1.9	21	94	0	71	40	2	0	57	1.12
1191731--1191780	16	3.2	16	75	13	59	42	0	2	56	1.11
1192316--1192388	35	2.2	32	83	11	85	30	6	12	50	1.66
1192399--1192465	32	2.1	32	83	8	84	38	0	7	53	1.29
1192463--1192514	17	2.9	19	80	13	65	34	3	0	61	1.14
1194394--1194424	16	1.9	16	93	0	53	22	22	12	41	1.88
1198192--1198399	53	3.9	54	76	8	189	44	4	25	25	1.72
1198166--1198363	106	1.9	106	79	4	229	45	3	22	28	1.69
1198615--1198801	104	1.8	100	86	6	268	32	4	27	36	1.76
1199125--1199150	2	13.0	2	100	0	52	50	0	0	50	1.00
1199187--1199244	26	2.2	26	90	6	91	48	6	3	41	1.47
1199211--1199409	33	6.0	33	86	1	265	46	8	5	40	1.56
1199134--1199251	26	4.5	25	76	11	85	49	4	2	44	1.35
1199452--1199530	34	2.5	30	86	12	97	45	2	3	48	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199485--1199541	11	5.5	11	85	8	66	43	1	5	49	1.35
1199493--1199530	2	19.0	2	84	10	51	47	0	2	50	1.15
1209834--1209911	19	3.8	20	77	15	70	16	25	33	24	1.96
1209834--1209913	20	3.9	20	76	13	65	16	26	32	25	1.96
1213715--1213754	21	1.9	21	85	10	55	35	10	2	52	1.48
1222811--1222861	23	2.2	23	82	0	57	13	31	11	43	1.80
1222819--1222872	23	2.3	23	84	6	74	14	29	12	42	1.83
1224115--1224225	56	2.0	57	87	5	163	27	22	20	28	1.99
1229865--1229912	22	2.2	22	85	3	62	27	18	25	29	1.98
1230293--1230337	21	2.2	20	88	4	63	51	11	0	37	1.38
1240925--1240949	5	5.0	5	100	0	50	20	0	0	80	0.72
1241432--1241514	23	3.6	24	70	22	61	28	0	6	65	1.17
1241437--1241532	45	2.1	44	79	5	102	31	0	5	63	1.16
1241528--1241593	28	2.4	28	86	0	87	51	16	6	25	1.67
1251718--1251770	19	2.7	19	85	2	70	39	11	15	33	1.83
1258698--1258793	29	3.2	30	70	21	85	44	6	17	31	1.74
1266229--1266294	31	2.1	31	86	5	89	25	24	9	40	1.84
1269402--1269441	19	2.0	20	90	4	64	20	22	22	35	1.96
1270408--1270571	38	4.4	36	79	13	181	42	3	9	43	1.55
1277421--1277487	34	1.9	34	82	14	84	47	17	11	22	1.80
1280701--1280839	28	5.1	28	73	15	103	46	0	2	51	1.16
1280724--1280840	15	7.5	15	79	17	123	47	0	1	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280819--1281063	32	7.4	32	73	15	137	34	0	12	52	1.43
1280767--1281157	80	4.8	80	84	9	488	35	0	11	52	1.41
1280919--1280969	14	3.1	17	70	18	54	33	0	11	54	1.37
1280954--1280996	22	2.0	22	95	0	77	37	0	11	51	1.39
1280922--1281172	54	4.6	54	75	11	249	35	0	11	52	1.41
1280819--1281172	166	2.1	166	96	0	645	34	0	12	52	1.42
1281118--1281162	22	2.0	22	91	0	72	42	0	8	48	1.34
1285168--1285209	22	1.9	22	90	9	68	14	11	4	69	1.34
1291807--1291848	22	1.9	22	90	9	68	14	11	4	69	1.34
1294749--1294787	17	2.3	17	86	0	51	51	2	2	43	1.29

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