genome.fa.s4920.2.7.7.80.10.50.1000.6.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: VEPZ01004920.1 Hibiscus syriacus cultivar Beakdansim tig00011079_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1590857

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 832 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)
1157665--1157720	8	6.8	8	76	13	51	0	8	8	82	0.86
1157670--1157723	16	3.4	16	82	7	65	0	7	11	81	0.87
1157677--1157726	17	3.1	16	83	8	57	0	10	10	80	0.92
1166927--1167008	30	2.8	30	96	1	148	19	7	12	60	1.54
1170059--1170122	23	2.8	23	95	0	110	28	26	26	18	1.98
1170133--1170355	103	2.2	103	98	0	428	37	25	12	25	1.90
1171107--1171327	64	3.5	64	84	7	254	28	18	19	33	1.96
1175501--1175564	23	2.8	23	87	0	92	28	23	26	21	1.99
1175575--1175797	103	2.2	103	100	0	446	36	25	13	25	1.91
1176567--1176673	45	2.4	45	84	6	128	26	14	22	36	1.93
1176613--1176737	64	2.0	64	85	6	173	28	16	18	36	1.93
1181121--1181170	6	7.8	6	86	8	64	20	0	46	34	1.51
1181529--1181560	17	1.9	16	93	6	55	25	6	15	53	1.65
1185139--1185165	6	4.5	6	100	0	54	18	0	14	66	1.25
1188190--1188259	29	2.4	28	76	9	70	37	12	21	28	1.90
1199614--1199674	23	2.7	23	97	0	113	18	16	9	55	1.67
1200699--1200771	30	2.5	28	75	18	69	56	2	10	30	1.48
1202581--1202647	20	3.2	20	73	19	73	43	4	5	46	1.48
1209048--1209094	22	2.1	23	84	4	60	23	10	25	40	1.87
1213439--1213465	2	13.5	2	100	0	54	51	0	0	48	1.00
1223305--1223400	42	2.3	40	79	8	104	53	3	1	42	1.23
1223334--1223441	57	1.9	57	84	7	148	50	2	1	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223737--1223771	17	2.1	17	94	0	61	31	0	0	68	0.90
1223729--1223783	27	2.0	28	85	3	76	27	1	1	69	1.09
1230984--1231064	42	1.9	42	92	0	135	39	32	1	27	1.64
1233642--1233935	148	2.0	149	99	0	581	30	18	18	32	1.95
1234730--1234822	46	2.0	46	100	0	186	36	19	22	21	1.95
1239768--1239823	28	2.0	28	82	6	69	32	21	16	30	1.95
1245804--1245848	21	2.1	21	87	0	63	31	28	24	15	1.96
1245874--1245918	22	2.0	22	86	4	63	31	33	26	8	1.87
1247131--1247262	31	4.2	31	79	8	142	25	19	20	34	1.96
1247244--1247343	30	3.3	30	91	2	148	21	22	26	31	1.98
1250481--1250525	21	2.1	21	91	0	72	33	26	24	15	1.95
1250551--1250595	22	2.0	22	86	4	63	31	33	26	8	1.87
1251810--1251941	31	4.2	31	80	5	149	25	18	21	34	1.96
1251923--1252022	30	3.3	30	91	2	148	21	22	26	31	1.98
1253765--1253805	21	2.0	21	90	0	64	17	21	17	43	1.87
1253766--1253812	21	2.2	21	84	0	58	21	21	19	38	1.94
1253802--1253854	20	2.7	20	90	0	79	39	20	18	20	1.92
1253841--1253947	20	5.3	20	90	0	160	30	25	19	24	1.98
1257243--1257376	20	6.7	20	93	1	216	37	25	20	16	1.93
1257368--1257421	14	3.5	14	73	22	54	44	20	24	11	1.83
1257348--1257443	33	2.8	33	88	3	129	42	18	23	14	1.88
1257480--1257533	14	3.5	14	73	22	54	11	24	20	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257459--1257553	33	2.8	34	91	3	156	13	23	20	43	1.87
1259076--1259187	42	2.7	42	76	5	111	23	17	38	20	1.93
1259667--1259733	20	3.3	20	89	0	89	40	22	16	20	1.91
1259780--1259846	20	3.3	21	91	4	77	19	17	23	38	1.93
1261188--1261224	19	1.9	19	100	0	74	21	24	21	32	1.98
1261810--1261850	20	2.0	20	95	0	73	58	19	12	9	1.61
1261817--1261879	20	3.2	20	86	4	74	46	23	14	15	1.83
1262250--1262315	22	3.0	22	90	0	105	21	15	39	24	1.91
1262543--1262582	21	1.9	21	94	0	71	45	17	20	17	1.86
1263092--1263125	17	1.9	17	88	5	50	35	0	5	58	1.22
1268473--1268512	21	2.0	20	95	5	71	45	0	0	55	0.99
1275019--1275087	24	2.9	24	80	0	84	53	15	13	17	1.73
1280310--1280462	55	2.8	54	78	9	159	31	23	15	30	1.95
1280380--1280792	51	8.0	51	89	1	565	27	26	14	30	1.95
1282118--1282172	18	2.9	19	77	15	60	5	23	0	70	1.07
1282115--1282206	25	3.8	25	69	24	70	6	20	1	71	1.14
1282112--1282223	46	2.5	45	78	16	124	5	21	0	72	1.10
1282146--1282193	13	3.8	13	77	5	53	6	20	2	70	1.19
1282168--1282230	17	3.4	18	86	10	67	6	19	1	73	1.13
1282114--1282217	45	2.3	46	80	9	126	5	21	0	72	1.12
1282114--1282228	27	4.3	25	75	17	90	6	20	0	72	1.12
1282183--1282233	17	2.8	18	91	5	77	5	19	0	74	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295831--1295879	24	2.1	23	81	7	55	57	4	2	36	1.30
1296266--1297433	582	2.0	582	95	0	2102	33	23	17	24	1.96
1298158--1298201	23	2.0	23	86	4	63	18	18	27	36	1.94
1298377--1298408	16	2.0	16	100	0	64	50	0	6	43	1.27
1299193--1299223	2	15.5	2	100	0	62	51	0	0	48	1.00
1301753--1301777	2	12.5	2	100	0	50	48	0	0	52	1.00
1301865--1301904	7	5.7	7	87	0	53	47	35	0	17	1.48
1301861--1301900	21	1.9	21	94	0	71	50	32	0	17	1.47
1302068--1302132	7	9.4	7	78	9	62	21	0	30	47	1.51
1302068--1302132	27	2.4	27	87	7	87	21	0	30	47	1.51
1302068--1302132	14	4.7	14	76	3	69	21	0	30	47	1.51
1302074--1302139	21	3.1	22	81	12	68	22	0	27	50	1.50
1302377--1302414	7	5.4	7	96	0	58	47	31	0	21	1.51
1302377--1302420	14	3.1	14	90	0	61	45	31	0	22	1.53
1302381--1302420	7	5.7	7	93	0	53	42	35	0	22	1.54
1302595--1302634	21	1.9	21	89	0	62	22	0	30	47	1.52
1302727--1302758	2	16.0	2	100	0	64	50	0	0	50	1.00
1303989--1304041	23	2.4	21	79	14	63	35	0	0	64	0.94
1308718--1308775	24	2.5	22	81	13	64	36	12	1	50	1.50
1309216--1309286	2	37.5	2	76	20	64	50	1	4	43	1.30
1319223--1319247	3	8.3	3	100	0	50	32	0	0	68	0.90
1322813--1322904	31	3.0	31	90	0	130	43	9	11	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326295--1326327	2	16.5	2	100	0	66	48	0	0	51	1.00
1332684--1332729	14	3.2	14	75	6	56	36	0	6	56	1.25
1337317--1337378	6	10.3	6	100	0	124	33	48	17	0	1.48
1337375--1337402	5	5.6	5	100	0	56	39	21	39	0	1.54
1337997--1338049	22	2.4	22	93	0	97	37	28	16	16	1.91
1338038--1338216	41	4.4	41	89	0	295	34	25	20	20	1.97
1338102--1338291	103	1.8	103	90	0	308	33	24	20	22	1.97
1338205--1338291	41	2.1	41	97	0	165	35	24	19	20	1.96
1338038--1338257	82	2.7	82	78	5	205	34	25	20	20	1.96
1338038--1338278	62	3.9	62	75	3	261	34	24	19	21	1.97
1340214--1340238	2	12.5	2	100	0	50	52	0	0	48	1.00
1340559--1340586	3	9.3	3	100	0	56	32	0	0	67	0.91
1343829--1343926	47	2.1	48	90	3	155	46	3	1	48	1.24
1354259--1354419	36	4.4	36	81	4	182	34	22	20	21	1.96
1354260--1354399	73	1.9	73	84	4	185	36	22	20	20	1.95
1354498--1356159	207	8.0	207	92	2	2560	32	16	19	31	1.94
1354980--1355061	42	2.0	42	85	4	112	26	19	20	32	1.97
1355616--1355709	42	2.3	41	84	1	125	23	21	23	31	1.98
1355833--1355914	42	2.0	41	85	2	110	25	20	23	30	1.99
1356029--1356129	42	2.4	42	81	1	123	23	22	22	30	1.99
1363086--1363181	41	2.2	44	82	12	119	50	4	2	43	1.33
1363806--1363837	16	2.0	16	100	0	64	31	18	0	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365469--1365535	25	2.7	25	74	19	68	59	0	4	35	1.18
1367406--1367451	21	2.2	21	84	0	56	39	30	0	30	1.57
1370099--1370124	13	2.0	13	100	0	52	15	7	15	61	1.55
1378423--1378542	59	2.0	59	82	10	147	30	21	6	40	1.79
1380307--1380334	2	14.0	2	100	0	56	50	0	0	50	1.00
1389077--1389116	20	2.0	20	95	0	71	22	7	10	60	1.54
1394989--1395146	21	7.8	20	70	7	77	38	24	17	19	1.92
1395113--1395342	20	11.5	20	80	5	223	36	24	18	20	1.94
1396246--1396270	12	2.1	12	100	0	50	72	0	28	0	0.86
1398553--1398821	19	15.4	19	76	18	291	47	17	21	13	1.82

Tables:   1   2   3   4   5   6   7