genome.fa.s9623.2.7.7.80.10.50.1000.7.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: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3488723

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2083 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)
1193906--1193930	2	12.5	2	100	0	50	48	0	0	52	1.00
1195561--1195590	15	2.1	15	93	6	53	26	23	0	50	1.50
1200271--1200572	150	2.0	149	98	1	579	29	22	18	29	1.98
1204414--1204501	9	9.7	9	81	10	65	77	0	19	3	0.91
1204429--1204504	9	8.7	9	78	11	77	81	0	18	0	0.69
1204439--1204488	15	3.2	15	86	10	73	86	0	14	0	0.58
1204430--1204486	24	2.3	24	90	3	87	84	0	15	0	0.63
1204430--1204503	23	3.2	22	75	17	71	82	0	17	0	0.67
1204495--1204531	11	3.3	11	88	7	56	83	13	2	0	0.74
1204495--1204531	6	6.3	6	90	6	58	83	13	2	0	0.74
1205666--1206383	53	13.8	52	85	8	842	31	19	26	22	1.98
1205666--1206383	104	6.9	104	84	8	833	31	19	26	22	1.98
1205666--1206365	210	3.4	208	84	7	903	31	18	26	23	1.98
1213454--1213493	13	2.9	14	85	7	55	45	7	12	35	1.70
1213951--1213996	22	2.1	22	100	0	92	21	21	39	17	1.93
1213994--1214052	23	2.6	23	91	0	91	30	20	27	22	1.98
1219891--1219958	29	2.3	29	85	7	84	47	5	1	45	1.36
1227451--1227629	27	6.6	27	84	0	196	31	25	27	15	1.95
1227451--1227629	54	3.3	54	86	1	243	31	25	27	15	1.95
1227451--1227629	81	2.2	81	81	2	216	31	25	27	15	1.95
1228107--1228232	42	3.0	42	75	0	126	38	5	29	26	1.79
1235061--1235401	180	1.9	180	91	0	565	40	18	7	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236941--1237072	43	3.1	43	98	0	255	29	20	16	33	1.95
1242056--1242208	64	2.4	63	81	6	157	31	19	23	25	1.98
1243737--1243780	23	1.9	23	100	0	88	20	29	22	27	1.99
1243735--1243795	23	2.7	23	84	0	86	16	26	27	29	1.97
1247104--1247260	64	2.5	62	79	7	163	31	21	23	23	1.98
1248779--1248838	23	2.6	23	89	0	84	21	25	23	30	1.99
1253782--1253843	23	2.6	23	92	5	97	19	29	24	27	1.98
1260115--1260262	74	2.0	74	100	0	296	36	12	25	25	1.91
1260354--1260511	21	7.8	20	72	7	86	38	25	17	18	1.92
1260478--1260767	20	14.5	20	82	5	284	37	25	17	20	1.94
1260498--1260767	60	4.5	60	87	3	321	36	25	17	20	1.94
1261447--1261492	24	2.0	23	87	12	67	26	15	21	36	1.93
1263920--1264084	33	4.7	34	81	13	183	46	18	21	13	1.83
1263934--1264122	19	10.7	19	78	17	219	45	17	21	15	1.85
1263920--1264122	52	3.9	52	86	10	281	45	18	21	14	1.85
1264131--1264280	19	8.4	19	82	14	203	14	22	17	46	1.84
1264112--1264280	52	3.2	52	98	0	320	13	24	17	44	1.85
1264112--1264262	33	4.4	33	71	18	137	13	24	17	44	1.85
1264387--1264423	14	2.6	14	91	0	65	45	21	0	32	1.52
1264488--1264523	12	3.0	12	83	0	54	63	16	0	19	1.30
1265820--1265882	21	3.0	21	70	9	65	20	19	36	23	1.95
1266393--1266449	14	3.7	14	77	20	60	45	22	21	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266374--1266466	33	2.8	33	95	0	168	47	21	20	10	1.80
1266337--1266471	19	7.6	19	76	16	128	45	23	19	11	1.82
1266467--1266595	19	7.3	19	75	17	125	8	17	28	45	1.77
1266467--1266558	33	2.8	33	93	3	150	7	18	28	45	1.76
1266643--1266964	93	3.6	92	91	6	503	47	19	11	21	1.81
1266801--1266992	81	2.4	82	83	2	289	46	19	12	21	1.82
1268680--1268749	14	4.6	14	80	16	86	44	22	24	8	1.81
1268708--1268772	19	3.7	19	72	19	68	46	21	21	10	1.82
1268694--1268767	33	2.2	33	97	0	139	47	21	21	9	1.79
1268768--1268882	19	6.3	19	78	11	105	10	22	23	43	1.84
1268809--1268883	39	1.9	38	89	2	114	12	25	21	41	1.87
1268965--1269032	31	2.2	32	89	2	102	45	20	22	11	1.83
1269407--1269521	20	5.7	20	82	6	151	21	18	26	33	1.96
1269406--1269538	40	3.3	40	81	5	169	19	18	27	35	1.95
1269526--1269552	14	1.9	14	100	0	54	11	22	29	37	1.89
1269541--1269623	21	4.0	21	73	6	78	25	16	24	33	1.96
1273633--1273662	2	15.0	2	100	0	60	0	50	0	50	1.00
1274082--1274139	19	3.1	19	87	0	80	31	25	15	27	1.96
1274243--1274312	21	3.4	21	70	7	63	20	18	27	34	1.96
1274238--1274315	40	2.0	40	92	0	129	21	16	24	37	1.94
1274726--1274813	19	4.4	19	72	17	79	29	28	6	35	1.83
1276373--1276471	38	2.4	41	78	16	114	22	8	29	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276382--1276468	38	2.3	38	89	0	129	24	9	26	40	1.85
1277897--1278140	27	8.7	27	74	10	177	43	3	15	37	1.64
1277913--1278129	117	1.9	117	91	1	355	43	3	15	37	1.64
1279400--1279437	17	2.2	18	85	4	51	28	21	15	34	1.94
1279405--1279454	26	1.9	26	95	0	91	28	20	18	34	1.95
1279897--1279930	14	2.4	14	100	0	68	11	17	26	44	1.83
1287972--1288023	20	2.5	22	78	18	65	32	28	17	21	1.96
1290725--1290886	65	2.5	64	83	6	213	27	15	26	30	1.96
1290834--1290884	19	2.7	19	80	19	63	27	15	33	23	1.95
1291095--1291134	20	2.0	21	85	14	57	45	7	5	42	1.54
1291920--1291963	21	2.1	21	91	0	70	40	15	36	6	1.74
1292762--1292822	21	2.9	21	75	4	61	29	6	40	22	1.79
1297403--1297442	21	1.9	21	85	10	55	35	10	2	52	1.48
1299370--1299532	65	2.5	64	83	3	211	27	15	26	30	1.96
1299484--1299530	19	2.5	19	83	10	62	25	17	31	25	1.97
1299749--1299788	20	2.0	21	85	14	57	45	7	5	42	1.54
1300739--1300841	10	10.6	10	79	13	117	12	21	29	36	1.90
1300739--1300841	19	5.3	19	85	9	111	12	21	29	36	1.90
1308056--1308125	9	7.3	9	70	12	50	15	25	25	32	1.95
1308061--1308111	19	2.6	19	81	12	59	13	21	25	39	1.90
1308143--1308176	17	2.0	17	100	0	68	17	41	23	17	1.90
1313883--1314242	195	1.8	195	83	0	477	39	10	11	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315748--1315879	67	2.0	67	93	0	228	30	17	10	41	1.83
1319302--1319364	23	2.7	23	92	0	99	38	20	4	36	1.74
1319729--1319791	23	2.7	23	92	0	99	38	20	4	36	1.74
1320151--1320258	42	2.6	42	100	0	216	37	10	10	42	1.73
1322675--1323166	183	2.7	183	95	0	878	32	18	15	34	1.91
1325013--1325105	3	31.0	3	82	0	60	19	33	11	35	1.88
1325014--1325109	12	8.2	12	80	6	81	18	33	12	35	1.89
1325063--1325117	12	4.6	12	90	0	83	18	34	10	36	1.86
1325059--1325122	6	10.7	6	79	0	65	18	32	9	39	1.83
1326649--1326859	109	1.9	109	97	0	395	28	12	16	42	1.84
1327699--1328655	200	4.8	200	96	0	1760	30	16	15	37	1.90
1326758--1328655	398	4.8	399	96	1	3450	30	16	15	37	1.90
1328774--1328822	19	2.6	19	93	0	80	57	10	2	30	1.43
1330614--1330679	33	2.0	33	88	5	98	24	46	0	28	1.52
1330713--1330777	21	3.1	21	93	0	103	16	30	10	41	1.83
1332778--1332830	24	2.2	24	83	6	63	26	7	13	52	1.66
1332970--1333012	20	2.3	18	85	14	61	20	16	11	51	1.75
1332975--1333035	20	3.1	19	79	9	68	18	14	11	55	1.68
1332998--1333335	161	2.1	162	90	0	534	28	17	13	41	1.86
1336286--1336327	22	1.9	22	90	9	68	47	4	16	30	1.67
1339262--1339376	59	1.9	59	82	6	144	40	20	9	30	1.84
1340768--1341041	137	2.0	138	96	2	509	47	5	5	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358225--1358269	20	2.3	19	84	3	54	35	0	2	62	1.08
1358220--1358275	29	2.0	30	83	13	75	37	0	1	60	1.07
1358268--1358370	3	34.0	3	88	5	154	63	0	2	33	1.10
1358623--1359458	113	7.4	113	96	0	1407	28	19	14	37	1.91
1360113--1360537	82	5.2	81	91	3	631	35	21	13	29	1.92
1360113--1360537	163	2.6	164	90	4	664	35	21	13	29	1.92
1368960--1369004	20	2.3	19	84	3	54	35	0	2	62	1.08
1368955--1369010	29	2.0	30	83	13	75	37	0	1	60	1.07
1369003--1369106	3	34.7	3	92	0	172	62	0	2	34	1.10
1369378--1369775	131	3.0	132	97	2	743	36	17	9	36	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18