genome.fa.s8693.2.7.7.80.10.50.1000.6.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: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2243253

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

This is table  6  of  10  ( 1102 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)
1052091--1052184	2	47.0	2	100	0	188	50	0	0	50	1.00
1053866--1054030	89	1.9	88	94	1	294	39	10	6	43	1.65
1060619--1060791	90	1.9	89	94	1	301	38	10	6	44	1.66
1069424--1070669	626	2.0	627	89	1	1917	29	18	17	34	1.94
1078409--1078443	5	6.6	5	87	12	52	40	0	0	60	0.97
1078408--1078443	12	3.2	12	88	11	58	41	0	0	58	0.98
1078655--1078692	17	2.2	17	100	0	76	42	26	5	26	1.76
1082532--1082589	2	29.0	2	100	0	116	50	0	0	50	1.00
1082644--1082694	2	25.5	2	100	0	102	50	0	0	49	1.00
1082767--1082791	2	12.5	2	100	0	50	48	0	0	52	1.00
1087031--1087058	10	2.8	10	100	0	56	60	21	10	7	1.53
1087007--1087066	24	2.5	24	83	2	68	58	23	10	8	1.57
1104428--1104466	12	3.4	11	82	10	51	66	0	2	30	1.05
1104430--1104516	26	3.3	26	70	23	65	66	1	4	27	1.18
1105739--1105810	3	24.0	3	83	10	94	61	0	0	38	0.96
1106057--1106147	40	2.4	37	84	10	107	19	23	12	45	1.84
1106070--1106147	40	2.0	39	87	2	111	19	23	12	44	1.84
1106087--1106922	113	7.5	113	88	4	1113	27	19	13	38	1.90
1107361--1107437	22	3.5	22	89	0	118	36	14	15	33	1.88
1115381--1115435	28	2.0	28	100	0	110	18	7	29	45	1.76
1115409--1115480	36	2.0	36	100	0	144	19	13	27	38	1.90
1116326--1116383	28	2.2	26	84	6	71	60	1	5	32	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117155--1117193	12	3.4	11	82	10	51	66	0	2	30	1.05
1117157--1117243	26	3.3	26	70	23	65	66	1	4	27	1.18
1118421--1118490	3	23.0	3	88	8	106	62	0	0	37	0.95
1120575--1120626	19	2.7	19	100	0	104	46	3	21	28	1.69
1121548--1121583	17	2.0	19	89	10	58	66	2	5	25	1.27
1122523--1122554	14	2.2	15	94	5	57	6	25	0	68	1.12
1124492--1124556	18	3.6	18	97	0	112	35	16	24	23	1.95
1140849--1140883	17	2.1	17	100	0	70	42	5	28	22	1.76
1153095--1153174	23	3.7	22	82	8	94	20	25	31	23	1.98
1161695--1161736	19	2.3	18	88	12	59	71	0	19	9	1.13
1171021--1171076	25	2.2	25	93	6	96	12	17	25	44	1.84
1176680--1176753	35	2.1	35	89	0	112	40	21	1	36	1.62
1177150--1177183	16	2.1	16	88	0	50	47	2	2	47	1.32
1177225--1177258	16	2.0	18	88	11	54	26	2	5	64	1.30
1177719--1177966	130	1.9	130	92	0	415	35	13	15	35	1.86
1178588--1178661	35	2.1	35	89	0	112	40	21	1	36	1.62
1179058--1179305	130	1.9	130	92	0	415	36	15	12	35	1.85
1179072--1179336	130	2.0	129	81	4	300	40	13	12	34	1.82
1179633--1179695	28	2.3	27	78	8	63	46	1	3	49	1.27
1179775--1179808	16	2.0	18	88	11	54	64	5	2	26	1.30
1180184--1180241	29	2.0	29	83	6	73	32	12	27	27	1.92
1180553--1180588	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181394--1181442	21	2.4	20	86	3	62	38	2	4	55	1.31
1181616--1181652	2	19.0	2	94	5	67	48	0	0	51	1.00
1185948--1185992	20	2.2	20	100	0	90	20	8	8	62	1.51
1187928--1187989	22	2.8	22	76	16	65	12	17	14	54	1.70
1189851--1189900	25	2.0	24	85	11	66	22	22	2	54	1.55
1198899--1198961	30	2.1	29	82	8	74	36	9	11	42	1.73
1201497--1201545	15	3.1	15	85	14	64	77	2	0	20	0.87
1201508--1201588	21	3.8	21	67	16	58	71	3	1	23	1.09
1201497--1201582	14	5.9	14	75	17	70	72	2	1	24	1.04
1201497--1201571	22	3.3	23	76	14	75	73	2	1	22	1.04
1202015--1202060	21	2.1	21	84	8	56	45	0	0	54	0.99
1205302--1205432	30	4.4	30	89	0	190	48	5	17	29	1.69
1207167--1207224	20	2.7	20	81	10	62	32	18	20	27	1.97
1208235--1208324	32	2.8	31	81	8	101	32	16	18	32	1.94
1208233--1208341	31	3.5	31	79	7	130	29	16	19	34	1.94
1212389--1212418	15	1.9	16	93	6	53	16	30	0	53	1.44
1214216--1214259	23	1.9	23	81	9	54	50	18	6	25	1.71
1215540--1215577	15	2.5	15	88	12	60	34	18	0	47	1.49
1222846--1223198	130	2.7	129	85	3	431	30	17	21	30	1.96
1223087--1223277	91	2.1	91	86	2	260	30	19	20	29	1.97
1224559--1224654	7	14.4	7	72	16	53	5	18	0	76	0.98
1224558--1224600	15	2.9	15	86	3	61	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224545--1224612	22	2.9	24	84	10	88	5	16	0	77	0.95
1230859--1230902	21	2.1	21	91	4	72	11	11	31	45	1.76
1238625--1238662	20	1.9	20	94	0	67	23	21	18	36	1.95
1243001--1243076	35	2.2	35	90	4	118	39	22	1	36	1.63
1243471--1243718	130	1.9	130	90	0	397	35	14	13	35	1.86
1244047--1244109	28	2.3	27	78	8	63	46	1	3	49	1.27
1244179--1244212	16	2.0	18	88	11	54	64	5	2	26	1.30
1249028--1249086	18	3.4	18	68	13	52	13	13	20	52	1.74
1250069--1250104	15	2.4	15	90	0	63	38	13	22	25	1.91
1250153--1250204	24	2.2	24	82	0	59	21	1	36	40	1.64
1252920--1252989	34	2.1	34	91	0	113	22	14	18	44	1.86
1255758--1255819	17	3.6	17	76	6	63	33	12	14	38	1.84
1258452--1258521	12	5.8	12	80	6	79	51	18	15	14	1.77
1258450--1258558	48	2.3	47	85	3	137	47	17	16	18	1.83
1258450--1258558	24	4.5	25	78	6	109	47	17	16	18	1.83
1259685--1259720	18	2.0	18	88	0	54	30	16	0	52	1.44
1260995--1261049	10	6.6	9	84	16	50	23	23	34	18	1.96
1261016--1261046	7	4.3	7	92	8	53	25	25	35	12	1.92
1260996--1261075	8	10.5	8	74	24	68	21	23	38	16	1.92
1261023--1261119	13	7.3	13	89	2	131	18	20	43	17	1.88
1263206--1263275	12	5.8	12	80	6	79	51	18	15	14	1.77
1263204--1263312	48	2.3	47	85	3	137	47	17	16	18	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263204--1263312	24	4.5	25	78	6	109	47	17	16	18	1.83
1264437--1264472	18	2.0	18	88	0	54	30	16	0	52	1.44
1265764--1265794	7	4.3	7	92	8	53	25	25	35	12	1.92
1265755--1265867	13	8.3	13	92	3	100	19	22	42	15	1.89
1265745--1265823	8	10.5	8	75	22	75	21	24	39	15	1.91
1265771--1265867	13	7.3	13	91	2	140	18	21	43	16	1.88
1269466--1269530	25	2.6	25	90	0	94	41	0	9	49	1.35
1279011--1279050	3	13.7	3	94	5	73	32	0	0	67	0.91
1284192--1284339	44	3.4	43	70	9	122	38	12	18	30	1.88
1284187--1284358	87	2.0	87	83	4	222	36	13	18	30	1.90
1287112--1287174	17	3.7	17	77	6	56	33	12	14	39	1.84
1287179--1287226	17	2.7	18	87	6	71	41	20	4	33	1.72
1288739--1288812	18	4.2	17	75	11	60	35	6	17	40	1.76
1288739--1288812	17	4.2	17	76	11	69	35	6	17	40	1.76
1293364--1293429	17	3.8	17	80	6	69	37	6	15	40	1.72
1294512--1294589	29	2.7	29	80	6	86	44	5	24	25	1.74
1294512--1294589	15	5.4	14	72	18	61	44	5	24	25	1.74
1303261--1303314	21	2.5	20	77	11	54	25	3	1	68	1.16
1303279--1303329	22	2.4	21	81	12	59	27	3	1	66	1.20
1303378--1303409	2	16.0	2	100	0	64	50	0	0	50	1.00
1306953--1307327	81	4.6	80	84	4	403	27	23	11	37	1.89
1307283--1307536	68	3.7	68	87	1	366	30	22	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308047--1308234	55	3.4	55	93	2	299	31	18	12	37	1.87
1311225--1311260	17	2.2	16	90	5	54	13	8	2	75	1.15
1311225--1311260	8	4.4	8	89	6	54	13	8	2	75	1.15
1312947--1313246	118	2.6	118	82	1	334	39	13	13	34	1.83
1313054--1313592	226	2.4	225	86	2	735	38	13	15	32	1.86
1313874--1313911	2	19.5	2	83	5	51	5	0	50	44	1.24
1317132--1317235	54	1.9	54	96	0	190	38	13	22	25	1.91
1320784--1320908	66	1.9	66	86	0	178	24	39	1	35	1.65
1320781--1320921	66	2.1	65	80	6	167	22	41	2	34	1.66
1322177--1322513	162	2.1	163	90	2	536	27	14	12	46	1.80

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