genome.fa.s8460.2.7.7.80.10.50.1000.6.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

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

This is table  6  of  15  ( 1744 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)
1018911--1018958	3	16.0	3	100	0	96	33	0	0	66	0.92
1032895--1032949	27	2.0	27	100	0	110	43	10	25	20	1.84
1036146--1036232	35	2.5	34	80	12	97	55	10	8	26	1.61
1038246--1038467	111	2.0	111	94	0	390	45	10	7	37	1.66
1038754--1038884	50	2.6	50	81	0	154	19	26	34	19	1.96
1039918--1040104	92	2.0	92	100	0	374	20	32	20	26	1.97
1043755--1043866	30	3.6	30	84	9	143	20	19	40	19	1.92
1043754--1043854	34	3.1	34	87	7	138	21	18	39	19	1.92
1044612--1044681	30	2.3	30	97	0	131	18	40	21	20	1.92
1048278--1048427	75	2.0	75	100	0	300	37	22	14	25	1.92
1055720--1055757	20	1.9	20	88	0	58	47	18	0	34	1.49
1055853--1055890	17	2.2	17	86	13	51	36	10	0	52	1.36
1055994--1056061	29	2.3	29	82	9	77	41	17	7	33	1.77
1061188--1061247	31	1.9	31	86	10	86	56	3	5	35	1.37
1064503--1064535	15	2.2	15	94	0	57	27	42	3	27	1.70
1070503--1070573	28	2.5	28	81	4	72	32	15	16	35	1.91
1079611--1079641	16	1.9	16	93	0	53	19	22	16	41	1.89
1080104--1080147	14	3.1	14	83	0	52	22	0	22	54	1.45
1080210--1080275	2	32.0	2	93	6	114	48	3	0	48	1.17
1080635--1080686	21	2.5	21	81	6	61	21	0	28	50	1.49
1080640--1080702	28	2.3	27	88	5	90	23	0	26	49	1.51
1080635--1080706	7	10.3	7	75	0	54	22	0	27	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081397--1081435	14	2.7	15	88	7	55	25	0	28	46	1.53
1081527--1081575	25	2.0	24	88	4	71	42	4	2	51	1.32
1081780--1081866	39	2.3	39	82	6	106	26	27	0	45	1.54
1081780--1081864	19	4.4	19	81	8	100	27	27	0	45	1.54
1081950--1082048	18	5.5	18	74	11	87	45	2	3	49	1.29
1081950--1082042	36	2.6	36	75	5	98	45	2	3	49	1.30
1082021--1082088	2	33.5	2	74	14	59	47	1	2	48	1.26
1081967--1082088	31	4.1	30	75	18	112	45	2	2	50	1.28
1081967--1082087	29	4.1	29	75	18	108	45	2	2	49	1.28
1083226--1083267	22	1.9	23	85	9	61	45	2	2	50	1.27
1084972--1084999	14	2.0	14	100	0	56	50	0	0	50	1.00
1085010--1085039	2	15.0	2	100	0	60	50	0	0	50	1.00
1085412--1085469	20	2.9	20	75	10	73	34	3	0	62	1.12
1085412--1085484	40	1.9	38	86	10	105	34	2	1	61	1.19
1085448--1085510	27	2.4	26	81	7	65	28	1	4	65	1.22
1085654--1085700	21	2.2	21	92	0	76	29	23	19	27	1.98
1086950--1087208	65	4.0	65	88	3	389	33	23	14	28	1.94
1089825--1089905	33	2.5	31	79	13	83	12	12	37	38	1.81
1090430--1090474	18	2.6	18	80	20	51	22	31	8	37	1.85
1093668--1094010	173	2.0	173	100	0	686	32	14	12	39	1.85
1100754--1100787	16	2.1	16	94	0	59	32	8	26	32	1.87
1138243--1138304	24	2.6	24	94	5	108	43	12	11	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147142--1147190	8	6.0	8	78	4	53	34	2	0	63	1.06
1147137--1147178	17	2.5	17	84	0	66	28	0	0	71	0.86
1148809--1148853	21	2.1	21	87	0	63	31	28	24	15	1.96
1152837--1152899	31	2.0	31	84	0	81	34	11	26	26	1.90
1159018--1159049	15	2.1	15	94	0	55	9	15	37	37	1.80
1159203--1159297	32	3.0	31	79	8	104	21	13	26	38	1.90
1159518--1159577	30	2.0	30	93	0	102	30	3	15	51	1.59
1159905--1159982	19	4.3	19	72	18	60	37	3	0	58	1.16
1159946--1159984	17	2.4	16	83	8	51	38	2	0	58	1.12
1163905--1163946	22	1.9	22	95	0	75	14	9	23	52	1.71
1168146--1168217	6	12.0	6	87	0	108	33	15	34	16	1.90
1169273--1169314	18	2.3	18	91	0	66	59	23	14	2	1.47
1174203--1174263	29	2.1	29	81	6	70	26	16	13	44	1.84
1176205--1176266	27	2.2	28	80	11	74	41	1	1	54	1.19
1176247--1176301	25	2.2	26	77	9	60	38	0	1	60	1.08
1193141--1193256	54	2.1	54	91	0	187	29	19	22	28	1.98
1193798--1193913	21	5.3	21	76	15	87	21	20	26	31	1.98
1193841--1193927	23	3.9	23	80	8	108	22	21	25	29	1.99
1204451--1204514	23	2.5	26	82	9	71	53	0	3	43	1.16
1204564--1204608	22	2.0	22	86	8	63	57	0	0	42	0.98
1204772--1204817	22	2.1	22	84	8	58	65	2	2	30	1.16
1205957--1206022	3	22.0	3	84	6	89	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205957--1206022	15	4.4	15	90	7	107	60	0	0	39	0.97
1206169--1206438	120	2.3	118	88	3	382	24	18	16	40	1.91
1206385--1206584	36	5.6	36	96	0	364	19	21	11	47	1.81
1206528--1206953	113	3.8	112	86	6	546	29	18	14	38	1.90
1207658--1207874	114	1.9	114	92	1	364	29	19	16	33	1.94
1207684--1207909	114	2.0	114	86	6	323	31	19	15	33	1.93
1209250--1209324	13	5.7	13	79	20	77	0	13	2	84	0.74
1216468--1216499	15	2.1	15	94	0	55	46	6	18	28	1.73
1220329--1220390	23	2.6	24	79	5	63	53	0	3	43	1.17
1220440--1220484	22	2.0	22	86	8	63	57	0	0	42	0.98
1220648--1220693	22	2.1	22	84	8	58	65	2	2	30	1.16
1221954--1222007	3	18.0	3	92	7	92	64	0	0	35	0.94
1233352--1233408	22	2.6	22	97	2	107	47	12	14	26	1.79
1233860--1233927	34	2.0	34	100	0	136	23	14	14	47	1.82
1236330--1236397	29	2.3	31	80	12	88	48	8	16	26	1.75
1237606--1237650	20	2.3	20	85	11	58	35	0	26	37	1.57
1238472--1238539	34	2.0	34	100	0	136	26	5	20	47	1.73
1238472--1238524	17	3.1	17	70	20	56	28	5	20	45	1.74
1248210--1248442	90	2.6	87	84	4	272	21	25	17	35	1.95
1252716--1252863	15	9.5	15	82	10	181	47	0	1	50	1.09
1252843--1253044	32	7.2	32	67	30	167	35	0	10	53	1.40
1252866--1252908	22	2.0	22	100	0	86	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252761--1252918	69	2.3	67	84	6	203	43	0	5	51	1.25
1252843--1253620	54	14.4	54	72	19	486	34	0	12	53	1.41
1253019--1253065	22	2.4	19	86	13	60	29	0	17	53	1.44
1252843--1253305	80	5.8	80	82	6	537	33	0	12	53	1.42
1253099--1253172	22	3.2	22	67	20	60	27	0	14	58	1.37
1252843--1253607	160	4.9	157	79	13	796	33	0	12	53	1.42
1253235--1253428	32	6.7	32	74	21	212	36	0	11	52	1.37
1253273--1253364	22	3.7	22	71	25	76	36	0	10	52	1.37
1253353--1253406	14	3.6	14	72	18	54	37	0	5	57	1.22
1253294--1253605	80	3.8	80	93	3	500	33	0	13	52	1.40
1253634--1253690	30	1.9	30	92	0	96	45	7	7	40	1.58
1254736--1254774	17	2.3	18	82	13	55	41	0	0	58	0.98
1260573--1260620	24	2.0	24	95	0	87	54	18	20	6	1.65
1261789--1262142	35	9.8	38	69	20	108	44	3	6	45	1.46
1261789--1261859	36	1.9	36	85	5	97	46	1	5	46	1.35
1261891--1262116	34	6.5	34	74	19	175	45	3	7	43	1.48
1261825--1262086	110	2.4	109	79	15	288	44	3	6	45	1.47
1261996--1262124	31	3.9	31	71	16	98	46	3	6	43	1.47
1263699--1263738	4	10.0	4	86	10	55	20	5	0	75	0.99
1263796--1263845	20	2.5	20	83	6	57	20	8	0	72	1.10
1269102--1270143	165	6.3	164	83	5	1029	30	23	20	25	1.98
1269094--1270143	249	4.2	245	81	5	1053	30	23	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269094--1270120	329	3.1	328	80	6	986	30	23	20	25	1.99
1270932--1271092	64	2.5	62	80	5	178	31	19	24	24	1.98
1271063--1271111	19	2.6	19	100	0	98	22	28	24	24	1.99
1271119--1271156	20	1.9	20	94	0	67	28	21	23	26	1.99
1271994--1272031	8	4.8	8	96	0	67	26	10	23	39	1.87
1272284--1272416	30	4.4	30	94	0	230	26	18	22	32	1.97
1273714--1274027	37	8.8	34	69	21	107	43	4	7	44	1.51
1273697--1274059	36	10.1	35	68	21	116	43	3	7	45	1.49
1273750--1274009	108	2.4	105	78	15	269	42	4	7	45	1.53
1273723--1274053	35	9.1	39	70	18	155	44	4	6	44	1.50

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