genome.fa.s9584.2.7.7.80.10.50.1000.5.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: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2003061

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 921 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)
1150661--1150732	28	2.6	28	88	0	108	23	30	18	27	1.97
1151244--1151290	21	2.2	21	96	0	85	38	17	17	27	1.91
1159405--1159713	53	5.8	53	81	1	343	22	26	19	31	1.98
1160077--1160172	42	2.3	41	84	8	115	34	21	18	25	1.96
1160221--1160300	42	1.9	42	94	0	142	32	18	20	28	1.96
1160289--1160314	13	2.0	13	100	0	52	30	15	23	30	1.95
1160352--1160436	42	2.0	42	90	0	134	29	21	20	29	1.98
1160167--1160523	135	2.6	135	92	0	588	29	20	18	32	1.96
1160424--1160448	13	1.9	13	100	0	50	24	20	24	32	1.98
1160394--1160609	93	2.3	93	91	1	344	30	22	17	30	1.96
1169124--1169160	17	2.1	18	90	5	58	64	13	5	16	1.45
1172880--1172917	18	2.1	19	85	9	53	63	0	28	7	1.23
1174667--1174713	19	2.5	19	100	0	94	25	6	19	48	1.72
1174721--1174774	29	2.0	28	85	10	76	33	3	24	38	1.73
1174765--1174794	14	2.1	14	100	0	60	36	6	20	36	1.79
1175805--1175841	17	2.2	17	86	13	51	37	5	0	56	1.22
1177836--1177881	23	2.0	23	82	0	56	17	15	10	56	1.67
1178582--1178635	15	3.6	14	80	9	63	38	7	7	46	1.60
1178591--1178690	27	3.7	25	78	16	85	37	9	10	44	1.70
1186186--1186215	15	2.0	15	93	0	51	23	20	30	26	1.98
1189953--1189983	13	2.4	13	94	0	53	22	19	16	41	1.89
1199080--1199203	40	3.1	40	89	1	187	30	25	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201374--1201537	43	3.8	43	77	5	129	37	19	18	24	1.94
1201407--1201688	43	6.6	42	72	9	171	32	20	21	25	1.97
1204859--1205038	41	4.4	41	81	4	193	36	17	17	29	1.92
1204880--1205073	82	2.4	82	82	3	212	34	18	17	30	1.93
1204885--1205073	41	4.6	40	79	6	177	33	18	17	30	1.94
1209049--1209168	61	2.0	61	100	0	240	26	16	21	35	1.95
1209969--1210013	20	2.2	21	88	4	65	35	8	4	51	1.54
1213654--1213745	35	2.6	36	86	5	116	69	2	4	23	1.17
1214493--1214520	12	2.3	12	100	0	56	53	0	0	46	1.00
1214437--1214656	76	2.9	75	83	3	273	55	10	0	33	1.39
1214662--1214694	16	2.1	16	100	0	66	57	12	0	30	1.35
1215095--1215137	22	1.9	23	95	4	79	20	20	39	18	1.93
1215055--1215213	77	2.1	77	98	1	311	28	19	27	24	1.99
1215172--1215222	22	2.3	22	96	0	93	21	21	39	17	1.93
1216706--1216740	18	1.9	18	100	0	70	28	22	22	25	1.99
1217235--1217308	25	3.0	24	68	20	62	25	6	4	63	1.37
1220945--1221071	51	2.5	51	89	1	184	18	31	34	15	1.92
1221671--1221718	2	24.0	2	100	0	96	50	0	0	50	1.00
1224111--1224187	3	26.0	3	97	2	147	33	0	0	66	0.92
1226605--1226654	24	2.1	24	96	0	91	16	16	38	30	1.90
1227545--1227608	23	2.9	21	72	19	58	73	0	6	20	1.04
1227569--1227685	53	2.4	50	80	13	127	68	0	5	25	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227563--1227651	33	2.8	32	77	14	85	71	0	7	20	1.10
1227623--1227778	46	3.4	45	79	11	147	66	0	6	27	1.16
1227701--1227731	16	2.0	16	93	6	55	80	0	0	19	0.71
1227566--1227733	46	3.5	46	74	16	146	68	0	5	26	1.11
1227603--1227788	97	1.9	97	80	12	213	66	0	5	27	1.15
1228864--1228992	4	30.8	4	66	23	54	64	0	1	33	1.09
1228864--1229004	30	4.6	30	78	12	137	64	0	1	33	1.07
1228917--1229002	18	4.9	18	76	15	90	62	0	1	36	1.03
1228868--1229013	51	2.8	53	78	14	155	63	1	1	33	1.11
1228864--1229004	46	3.1	46	73	24	127	64	0	1	33	1.07
1228895--1229016	12	9.5	13	74	17	78	63	1	0	34	1.10
1229091--1229143	2	26.5	2	100	0	106	49	0	0	50	1.00
1229131--1229176	23	2.0	24	91	4	76	41	8	4	45	1.55
1229143--1229249	37	3.0	36	77	8	112	39	9	6	44	1.63
1229229--1229355	39	3.3	36	76	11	119	44	7	2	45	1.43
1231050--1231083	5	6.8	5	93	0	59	2	20	55	20	1.56
1242489--1242547	28	2.1	28	90	0	91	38	8	11	40	1.72
1242844--1242878	18	1.9	18	88	0	52	25	8	2	62	1.38
1243405--1243458	2	27.0	2	100	0	108	50	0	0	50	1.00
1246553--1246606	24	2.3	24	93	3	92	20	22	25	31	1.98
1246671--1246779	36	3.2	35	66	26	88	22	14	22	41	1.89
1246640--1246785	67	2.2	67	93	0	247	23	14	20	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246633--1246751	31	3.7	31	69	24	93	23	14	20	42	1.88
1250881--1251178	129	2.3	128	83	2	357	28	18	27	25	1.98
1259084--1259156	30	2.4	30	81	4	85	32	6	15	45	1.72
1259171--1259208	6	6.2	6	93	6	67	52	15	15	15	1.75
1264333--1264385	3	18.0	3	84	3	72	62	0	1	35	1.06
1266127--1266299	54	3.2	54	84	0	211	30	15	17	36	1.91
1266928--1266970	19	2.3	19	87	0	59	13	34	32	18	1.90
1268679--1268741	13	4.8	13	77	12	67	57	1	0	41	1.08
1268755--1268826	20	3.5	20	75	9	72	61	1	4	33	1.24
1270011--1271021	273	3.6	271	81	5	1089	46	7	14	32	1.71
1271126--1271190	31	2.1	31	94	0	112	16	18	13	50	1.78
1273086--1273388	55	5.5	55	83	5	353	34	16	17	30	1.93
1273085--1273381	165	1.8	165	83	4	402	34	16	18	30	1.93
1286200--1286522	55	5.9	55	85	1	396	34	16	17	30	1.92
1291029--1291473	149	3.0	148	87	2	649	32	15	22	29	1.95
1293924--1293975	20	2.6	20	96	0	95	38	26	13	21	1.90
1293965--1294063	21	4.8	20	72	6	72	36	23	19	21	1.95
1294030--1294223	20	9.6	20	80	5	212	35	25	19	19	1.95
1294030--1294223	60	3.2	60	82	0	244	35	25	19	19	1.95
1294604--1294675	33	2.1	34	92	2	119	11	22	19	47	1.80
1294796--1294850	14	3.6	14	73	21	56	40	23	27	9	1.85
1294796--1294866	33	2.2	33	92	0	115	42	25	23	8	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294862--1294959	19	5.7	19	70	22	81	10	24	22	42	1.84
1294884--1294973	14	5.7	14	74	23	81	8	25	23	42	1.83
1294867--1294981	33	3.5	33	95	0	212	9	24	20	45	1.81
1296059--1296427	20	18.5	20	86	4	458	20	18	26	34	1.96
1297488--1297527	10	4.0	10	86	0	53	27	32	0	40	1.57
1297574--1297607	9	3.9	9	84	7	52	35	0	2	61	1.11
1297573--1297611	17	2.4	17	95	4	71	33	0	5	61	1.18
1299512--1299556	3	15.0	3	83	0	54	37	26	31	4	1.76
1299711--1299760	13	3.8	13	86	0	73	16	6	14	64	1.48
1304105--1304146	21	2.0	20	86	4	57	45	0	2	52	1.13
1304105--1304146	20	2.1	20	82	8	50	45	0	2	52	1.13
1305167--1305193	2	13.5	2	100	0	54	51	0	0	48	1.00
1308087--1308169	41	2.0	41	100	0	166	24	19	24	32	1.97
1313105--1313149	19	2.4	19	88	0	63	22	33	28	15	1.95
1313210--1313252	16	2.7	16	96	0	77	20	13	25	39	1.90
1314012--1314075	27	2.3	28	83	2	76	43	23	10	21	1.84
1321457--1321528	36	2.0	36	100	0	144	30	13	22	33	1.93
1327212--1327413	101	2.0	101	100	0	404	27	14	18	38	1.91
1328009--1328109	45	2.2	45	91	0	157	26	21	36	14	1.93
1335552--1335623	23	3.3	23	67	25	73	34	26	6	31	1.83
1335550--1335636	43	2.0	43	100	0	174	35	25	6	32	1.82
1335550--1335615	21	3.1	21	65	26	57	37	24	7	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336375--1336600	123	1.8	123	91	0	371	38	12	19	29	1.88
1336626--1336667	20	2.1	20	86	0	57	40	11	19	28	1.87
1337021--1337086	31	2.1	32	85	2	89	40	10	3	45	1.54
1338216--1338295	38	2.1	39	86	4	110	31	16	10	42	1.81
1339584--1339708	54	2.3	55	84	5	155	41	18	12	27	1.87
1343020--1343079	30	2.0	31	90	9	97	38	11	3	46	1.57
1344085--1344172	24	3.7	24	78	3	97	48	15	13	21	1.80
1344076--1344169	48	2.0	48	89	4	145	50	14	13	21	1.78
1346680--1346728	23	2.2	22	82	10	55	51	26	4	18	1.64
1347608--1347664	30	1.9	30	88	0	87	29	8	19	42	1.81

Tables:   1   2   3   4   5   6   7   8