genome.fa.s8164.2.7.7.80.10.50.1000.6.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: VEPZ01008164.1 Hibiscus syriacus cultivar Beakdansim tig00110744_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577652

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

This is table  6  of  11  ( 1239 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)
1123561--1123612	24	2.2	23	86	6	77	21	19	17	42	1.89
1123805--1123841	14	2.6	14	91	4	56	51	21	21	5	1.68
1125962--1126243	140	2.0	140	95	0	501	28	13	14	43	1.83
1126215--1126269	20	2.8	20	77	0	56	34	18	16	30	1.93
1126310--1126401	20	4.6	20	91	0	121	14	20	21	43	1.87
1126384--1126563	20	9.1	20	78	1	128	26	19	21	32	1.97
1126700--1126738	14	2.8	14	84	0	60	43	17	2	35	1.63
1128054--1128178	41	3.0	41	78	8	128	24	18	38	19	1.93
1128070--1128178	42	2.6	42	77	7	116	24	19	37	18	1.94
1128628--1128695	20	3.4	20	91	0	109	41	26	16	16	1.88
1128809--1128879	20	3.5	20	94	0	115	16	23	23	35	1.95
1130712--1130752	20	2.0	20	100	0	82	56	14	14	14	1.69
1130712--1130831	20	6.4	19	74	13	81	47	21	15	15	1.82
1131200--1131263	22	3.0	21	84	11	60	20	14	43	21	1.87
1131208--1131263	22	2.5	23	88	8	89	17	16	44	21	1.86
1131553--1131598	19	2.4	19	85	3	56	26	13	28	32	1.93
1131564--1131600	19	1.9	19	94	0	65	24	13	27	35	1.93
1132014--1132085	3	24.0	3	94	0	126	34	0	1	63	1.03
1144710--1144753	17	2.7	16	85	3	61	84	0	15	0	0.63
1144710--1144755	8	5.5	8	84	7	56	82	0	17	0	0.67
1144710--1144754	18	2.6	17	89	3	63	84	0	15	0	0.62
1145603--1145925	89	3.6	89	95	2	567	29	13	21	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146653--1147453	116	7.0	116	93	1	1251	38	12	18	29	1.88
1147684--1147734	3	17.0	3	87	0	75	37	0	1	60	1.08
1154621--1154746	64	2.0	63	81	4	146	36	11	15	35	1.85
1159453--1159507	21	2.6	21	80	8	58	65	0	3	30	1.10
1162742--1162790	20	2.5	20	83	3	64	30	20	22	26	1.98
1165839--1165868	15	2.0	15	93	0	51	50	0	40	10	1.36
1170745--1170795	22	2.3	22	89	0	75	35	9	3	50	1.54
1171016--1171061	22	2.2	22	85	11	62	32	0	2	65	1.05
1170916--1171138	123	1.8	120	87	5	333	36	7	8	47	1.63
1170916--1171164	123	2.0	120	81	6	288	38	7	8	45	1.61
1171690--1171748	21	3.0	20	71	21	52	30	1	1	66	1.12
1176137--1176169	15	2.2	15	94	0	57	72	0	27	0	0.85
1176136--1176169	8	4.4	8	88	7	52	73	0	26	0	0.83
1180852--1180925	22	3.4	22	88	0	103	35	16	13	35	1.88
1181311--1181835	113	4.7	113	89	2	752	37	12	20	29	1.89
1182308--1182355	3	17.0	3	79	12	57	35	0	0	64	0.94
1182302--1182355	19	2.8	19	86	5	65	33	0	0	66	0.92
1184033--1184081	22	2.2	22	88	0	71	34	10	4	51	1.55
1184200--1184416	121	1.8	119	88	5	330	35	6	9	47	1.62
1184200--1184447	121	2.1	118	81	7	286	38	6	8	45	1.61
1193367--1193439	8	8.4	9	85	11	66	83	0	9	6	0.81
1193376--1193439	17	3.8	17	78	12	69	84	0	9	6	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193377--1193453	8	9.4	8	78	12	59	81	0	12	5	0.84
1193364--1193446	23	3.7	24	75	18	72	81	0	12	6	0.85
1193364--1193453	16	5.4	16	79	10	83	81	0	13	5	0.86
1193412--1193456	13	3.6	13	77	17	51	77	0	22	0	0.76
1194784--1195762	54	18.2	54	83	2	1180	33	21	24	21	1.97
1196624--1196657	15	2.3	15	89	0	50	23	23	20	32	1.98
1207118--1207144	3	9.0	3	100	0	54	66	0	0	33	0.92
1208507--1208567	3	20.7	3	80	9	72	67	1	1	29	1.10
1209050--1209113	20	3.2	20	66	27	55	18	21	9	50	1.75
1208947--1209613	122	5.5	122	84	5	884	25	19	15	39	1.91
1208947--1209708	244	3.2	238	89	4	1092	26	19	15	39	1.91
1209525--1209843	113	2.8	112	85	4	401	28	18	13	39	1.88
1210692--1210739	17	2.9	17	82	14	64	8	16	0	75	1.04
1211419--1211467	17	2.8	17	79	14	55	12	16	0	71	1.14
1218548--1218611	30	2.1	30	86	11	87	51	6	17	25	1.68
1218565--1218611	15	3.1	15	100	0	94	48	6	19	25	1.72
1222660--1222692	3	11.0	3	100	0	66	66	0	0	33	0.92
1223637--1223669	13	2.3	15	90	10	52	0	33	21	45	1.52
1224141--1224214	3	25.0	3	78	13	82	66	1	1	31	1.09
1225323--1225513	43	4.4	43	77	3	188	26	18	20	34	1.96
1234326--1234555	45	5.2	44	82	7	245	36	6	15	40	1.75
1234326--1234536	91	2.3	90	83	6	273	38	6	15	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234638--1234798	58	2.7	58	79	10	148	34	8	15	41	1.78
1237880--1237925	20	2.3	20	100	0	92	26	21	19	32	1.97
1238897--1238959	3	21.3	3	73	15	51	31	3	1	63	1.19
1243824--1243873	7	6.7	7	80	11	55	78	2	18	2	0.95
1245670--1245735	3	22.3	3	77	14	66	31	1	1	65	1.11
1245725--1245762	16	2.4	17	86	8	53	26	2	0	71	1.00
1246728--1246966	109	2.2	109	82	10	276	20	14	18	46	1.84
1246728--1246929	109	1.8	109	84	9	277	22	12	18	47	1.82
1247804--1248067	131	2.0	130	91	0	429	32	10	16	40	1.83
1250600--1250655	2	28.0	2	100	0	112	50	0	0	50	1.00
1251815--1252023	45	4.6	44	81	7	224	36	7	15	40	1.76
1255059--1255109	6	8.2	6	89	6	75	15	1	0	82	0.76
1255060--1255109	25	2.0	25	88	7	75	16	2	0	82	0.77
1255061--1255111	16	3.3	15	81	8	66	17	1	0	80	0.81
1255048--1255111	19	3.3	18	80	10	74	21	1	0	76	0.87
1255109--1255133	2	12.5	2	100	0	50	48	0	0	52	1.00
1262903--1262935	16	2.0	17	88	5	50	48	6	24	21	1.72
1265830--1267291	38	36.9	38	80	9	1418	25	18	16	39	1.91
1265830--1267291	80	18.5	77	80	9	1431	25	18	16	39	1.91
1265830--1267339	118	12.7	118	85	5	1584	25	18	16	39	1.91
1267260--1267369	45	2.4	45	83	0	121	24	20	15	39	1.92
1267929--1268218	134	2.2	134	81	4	352	31	21	16	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268431--1268492	26	2.3	28	78	13	76	24	6	0	69	1.12
1268433--1268473	17	2.4	17	83	0	55	26	4	0	68	1.10
1271271--1271323	20	2.7	20	96	0	97	16	26	18	37	1.93
1273901--1274106	104	2.0	104	88	0	304	22	11	25	40	1.88
1284379--1284433	23	2.4	23	87	3	76	27	25	29	18	1.98
1284395--1284440	23	2.0	23	100	0	92	21	30	26	21	1.99
1288957--1289014	20	2.6	22	89	10	84	25	22	20	31	1.98
1289002--1289163	64	2.5	63	79	9	175	27	22	17	32	1.96
1293145--1293242	20	4.7	20	92	5	151	26	23	19	30	1.98
1295498--1295703	65	3.2	63	78	10	211	27	17	23	31	1.97
1297814--1297852	13	3.1	13	88	3	53	48	2	7	41	1.45
1298343--1298424	23	3.6	22	73	14	78	30	23	24	21	1.99
1298344--1298424	24	3.5	24	73	20	84	30	23	23	22	1.99
1302952--1302982	10	3.1	10	95	0	53	45	12	12	29	1.80
1309211--1309332	63	2.0	62	81	4	147	39	4	8	47	1.55
1315384--1315424	19	2.1	19	86	13	57	51	0	0	48	1.00
1315380--1315425	25	1.9	23	86	8	65	47	0	0	52	1.00
1321403--1321452	20	2.5	20	87	6	66	24	22	16	38	1.93
1323715--1323878	69	2.2	75	76	16	198	30	12	21	35	1.90
1323739--1323870	69	1.9	69	90	3	212	31	12	21	35	1.90
1324558--1324625	17	3.9	17	67	14	57	48	0	1	50	1.10
1325214--1325252	20	2.0	20	84	0	51	43	10	20	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325283--1325309	11	2.5	11	100	0	54	62	0	11	25	1.28
1325962--1326423	230	2.0	229	89	2	714	35	8	19	35	1.83
1340632--1340693	32	1.9	32	86	0	88	20	11	8	59	1.57
1341663--1341708	21	2.2	21	96	0	83	52	10	8	28	1.66
1341437--1341934	247	2.0	247	90	2	786	33	15	14	36	1.88
1342904--1342962	26	2.2	26	88	8	84	30	8	35	25	1.86
1343109--1343171	30	2.1	30	96	0	117	31	15	19	33	1.93
1344568--1344647	3	26.7	3	100	0	160	32	0	0	67	0.91
1351777--1351830	2	27.0	2	100	0	108	50	0	0	50	1.00
1352932--1352980	18	2.8	18	90	3	73	32	8	30	28	1.86

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