genome.fa.s1836.2.7.7.80.10.50.1000.6.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: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2428596

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1328 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)
1109088--1109119	3	10.7	3	100	0	64	34	0	0	65	0.93
1114130--1114184	25	2.2	26	80	9	60	74	1	7	16	1.12
1115482--1115524	20	2.1	21	87	8	63	58	4	25	11	1.52
1116442--1116504	30	2.1	30	81	0	72	19	11	11	58	1.61
1116667--1116723	22	2.8	19	76	19	53	22	3	1	71	1.10
1119207--1119502	147	2.0	147	99	0	583	48	6	22	22	1.73
1121435--1121655	63	3.5	62	84	6	259	29	18	19	32	1.96
1121437--1121656	31	7.0	31	74	11	182	28	18	20	33	1.96
1123063--1123105	2	22.0	2	85	4	61	51	0	0	48	1.00
1123572--1124414	449	1.9	449	94	0	1481	25	22	26	25	2.00
1125939--1126237	159	1.9	159	94	1	528	39	13	18	29	1.88
1127809--1127877	23	3.0	23	78	0	84	31	24	24	18	1.98
1128685--1128733	21	2.3	21	100	0	98	26	20	24	28	1.99
1129817--1130896	541	2.0	541	97	0	2061	29	24	4	41	1.75
1132646--1132727	23	3.6	23	89	0	119	30	26	25	17	1.97
1138817--1138898	22	3.8	21	79	10	85	23	29	26	20	1.99
1138817--1138897	23	3.7	23	86	4	105	23	29	27	19	1.98
1139262--1139292	10	3.1	10	100	0	62	41	0	9	48	1.36
1142654--1142693	2	20.5	2	94	5	73	50	0	0	50	1.00
1144821--1144902	42	2.0	42	90	0	128	21	18	21	37	1.94
1145070--1145151	42	2.0	42	87	4	121	21	20	20	36	1.95
1144735--1145607	249	3.5	249	94	0	1523	30	16	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145735--1145924	47	4.0	47	95	3	330	28	23	20	27	1.99
1145735--1145924	95	2.0	93	93	4	328	28	23	20	27	1.99
1146470--1146544	28	2.6	28	89	2	114	26	46	12	14	1.79
1147219--1147256	19	2.0	19	85	10	51	23	0	2	73	0.95
1155782--1155813	15	2.1	15	100	0	64	53	18	21	6	1.67
1156300--1156405	21	5.1	21	74	10	103	22	20	21	34	1.96
1156307--1156402	40	2.3	42	92	3	169	21	20	22	34	1.97
1156988--1157027	5	8.2	5	91	5	64	0	40	2	57	1.12
1157145--1157445	42	7.3	42	93	2	497	36	23	18	21	1.95
1157145--1157445	82	3.7	82	92	1	507	36	23	18	21	1.95
1157479--1157568	21	4.4	21	77	5	94	20	20	26	33	1.97
1157479--1157561	40	2.0	41	88	4	123	21	20	25	32	1.98
1161114--1161143	15	1.9	16	93	6	53	46	3	0	50	1.18
1165646--1165817	86	2.0	86	95	2	310	31	23	6	37	1.81
1168547--1168604	24	2.5	22	83	10	71	50	5	1	43	1.35
1168640--1168700	24	2.6	22	76	19	61	52	3	1	42	1.27
1173115--1173146	16	2.0	16	100	0	64	75	6	6	12	1.19
1176170--1176234	17	4.0	17	71	15	57	35	0	3	61	1.12
1179198--1179240	22	2.0	22	90	0	68	30	16	18	34	1.93
1179284--1179331	22	2.1	23	92	3	80	35	14	18	31	1.91
1179297--1179341	22	2.0	22	86	0	63	42	11	15	31	1.82
1179334--1179402	29	2.5	29	88	6	108	37	14	21	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181827--1181952	58	2.2	58	87	8	188	35	10	10	43	1.73
1186929--1186980	17	2.8	18	74	11	52	51	0	5	42	1.25
1187566--1187674	32	3.4	32	81	3	130	37	28	12	21	1.90
1188366--1188434	31	2.3	31	87	7	97	28	26	13	31	1.93
1190429--1190502	31	2.4	31	81	4	87	32	12	28	27	1.92
1198205--1198270	31	2.1	31	94	0	114	51	19	7	21	1.71
1198921--1198967	4	11.8	4	86	0	67	29	2	19	48	1.60
1199448--1199490	21	2.0	21	86	0	59	72	0	6	20	1.08
1200119--1200181	19	3.2	19	75	4	54	55	12	0	31	1.37
1200084--1200281	64	2.8	68	80	14	208	58	12	1	28	1.43
1200139--1200303	76	2.2	76	87	3	244	56	10	2	30	1.47
1208308--1208362	21	2.8	20	75	10	51	54	12	1	30	1.48
1208385--1208547	76	2.2	74	85	4	211	57	9	2	30	1.44
1208666--1208721	17	3.3	17	75	5	51	71	3	0	25	1.02
1212893--1212965	20	3.5	20	77	7	67	21	23	21	32	1.98
1214847--1214896	23	2.2	23	96	0	91	40	20	8	32	1.81
1219960--1220000	21	2.0	20	85	4	55	36	7	19	36	1.80
1220691--1220738	15	3.2	15	84	0	69	33	6	20	39	1.78
1220674--1220738	30	2.2	30	86	5	87	30	7	20	41	1.80
1220695--1220751	30	1.9	30	92	0	96	35	5	19	40	1.74
1220882--1220956	23	3.2	23	81	3	96	22	25	21	30	1.99
1220882--1220953	24	3.0	23	82	9	92	22	25	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220882--1220985	47	2.2	47	84	6	131	20	25	24	30	1.98
1227308--1227564	141	1.8	141	89	0	406	31	15	15	37	1.89
1232242--1232294	19	2.7	19	85	2	70	41	13	11	33	1.80
1234666--1234744	27	2.9	27	94	0	131	26	20	20	32	1.97
1234975--1235017	20	2.2	20	86	0	59	37	20	11	30	1.89
1237558--1237597	13	3.0	13	81	3	53	62	0	25	12	1.30
1244965--1245016	27	1.9	27	96	0	95	26	23	19	30	1.98
1245248--1245290	20	2.2	20	86	0	59	37	20	11	30	1.89
1247952--1248104	60	2.6	59	80	9	168	40	5	20	32	1.77
1247952--1248123	60	2.9	57	79	7	157	41	5	20	31	1.76
1258509--1258644	62	2.1	65	92	6	226	50	6	3	38	1.46
1258629--1258672	21	2.0	22	86	4	63	47	2	9	40	1.48
1260823--1260881	26	2.3	25	75	18	66	47	8	3	40	1.51
1263745--1263814	26	2.7	26	95	0	122	44	2	10	42	1.52
1263839--1264335	26	20.2	26	75	16	348	42	2	10	45	1.50
1263771--1264329	97	5.8	98	88	6	652	43	2	10	44	1.50
1263745--1264031	123	2.4	119	91	5	459	44	2	9	42	1.51
1263745--1264122	123	3.1	119	85	6	417	43	2	10	43	1.52
1263701--1264327	221	2.9	221	90	2	901	43	2	10	44	1.50
1264060--1264327	124	2.2	123	93	2	448	42	2	10	45	1.50
1263771--1264329	195	2.9	192	84	10	639	43	2	10	44	1.50
1264535--1264567	17	1.9	17	93	0	57	36	6	12	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266912--1267001	44	2.0	47	86	6	132	46	13	0	40	1.43
1267232--1267263	17	1.9	16	93	6	55	0	37	0	62	0.95
1267205--1267262	4	14.0	4	75	7	53	1	34	0	63	1.04
1267205--1267262	25	2.3	25	96	0	107	1	34	0	63	1.04
1267324--1267375	25	2.1	25	92	0	86	28	32	9	28	1.89
1267486--1267545	23	2.6	23	97	0	111	23	8	45	23	1.80
1267551--1267658	29	3.8	29	91	4	166	22	30	30	16	1.96
1267666--1267703	19	2.0	19	100	0	76	21	42	15	21	1.89
1267766--1267876	55	2.0	55	100	0	222	16	34	21	27	1.95
1267685--1267960	139	2.0	139	100	0	552	17	32	25	24	1.96
1267773--1267858	27	3.1	27	62	15	68	16	37	22	24	1.93
1267831--1267962	41	3.2	41	66	19	119	16	31	28	23	1.96
1273833--1273946	60	1.9	60	82	10	144	31	19	14	35	1.91
1278604--1278638	16	2.2	16	94	0	61	11	22	22	42	1.85
1278863--1278905	20	2.2	20	82	0	50	13	30	13	41	1.84
1279277--1279317	21	2.0	21	85	0	55	14	9	17	58	1.62
1280567--1280608	21	2.1	19	86	8	57	16	7	0	76	1.00
1292662--1292755	46	2.0	46	95	0	170	20	18	23	38	1.93
1297276--1297309	14	2.4	14	90	0	50	52	20	0	26	1.46
1297550--1297591	22	2.0	22	85	4	59	33	16	16	33	1.92
1308064--1308101	9	4.2	9	89	0	58	7	31	23	36	1.84
1310377--1310503	51	2.5	50	85	1	155	17	29	34	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314155--1314402	29	8.6	29	83	6	288	45	18	4	31	1.69
1314155--1314402	59	4.3	57	81	8	279	45	18	4	31	1.69
1314155--1314404	88	2.9	86	83	9	303	45	18	4	32	1.69
1314358--1314507	59	2.5	59	81	8	137	43	18	4	34	1.70
1314374--1314507	59	2.3	59	88	5	191	44	16	3	35	1.66
1315011--1315056	19	2.3	20	81	7	58	28	28	17	26	1.98
1315091--1315140	21	2.4	21	86	6	75	22	26	16	36	1.94
1315176--1315307	20	6.6	20	82	5	131	31	26	19	22	1.98
1315170--1315287	61	1.9	61	84	0	155	33	25	18	22	1.97
1315193--1315327	41	3.3	41	79	10	159	33	25	17	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12