genome.fa.s8211.2.7.7.80.10.50.1000.6.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: VEPZ01008211.1 Hibiscus syriacus cultivar Beakdansim tig00110833_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2208279

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

This is table  6  of  10  ( 1099 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)
1066120--1066154	17	2.1	17	100	0	70	34	37	5	22	1.78
1069841--1069913	36	2.0	36	84	7	94	49	1	4	45	1.29
1071741--1071774	2	17.0	2	100	0	68	50	0	0	50	1.00
1076195--1076224	15	2.0	15	100	0	60	33	0	40	26	1.57
1077538--1077571	10	3.4	10	83	0	50	58	14	11	14	1.63
1077917--1077979	24	2.5	26	85	10	78	55	11	14	19	1.68
1083738--1083775	15	2.4	17	78	17	53	36	0	0	63	0.95
1083741--1083774	15	2.3	15	94	0	59	32	0	0	67	0.91
1085653--1085722	36	1.9	36	88	5	106	34	1	18	45	1.58
1087023--1087099	39	2.0	39	94	2	138	31	12	7	48	1.70
1088336--1088456	63	1.9	63	100	0	242	31	34	19	14	1.92
1091860--1091904	23	2.0	23	95	4	83	55	31	0	13	1.38
1094622--1094716	50	1.9	49	80	2	109	15	10	18	54	1.69
1095488--1095521	17	2.0	17	88	0	50	14	2	8	73	1.19
1098102--1098159	30	1.9	30	86	6	82	37	17	13	31	1.89
1099635--1099946	43	7.2	40	71	15	164	24	14	7	53	1.67
1099642--1099946	129	2.4	128	74	13	295	24	15	7	52	1.68
1099794--1099967	86	2.0	85	80	7	192	25	17	5	51	1.68
1099817--1099967	42	3.6	41	71	9	117	25	16	5	51	1.67
1101569--1101637	29	2.4	28	76	7	66	52	4	18	24	1.64
1108791--1108924	65	2.0	66	98	1	261	46	5	14	33	1.69
1111022--1111100	37	2.1	39	95	4	144	41	22	17	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119137--1119181	3	15.3	3	81	4	56	31	4	2	62	1.27
1126992--1127301	105	3.0	104	85	2	406	31	16	10	40	1.83
1127419--1127523	28	3.6	28	78	14	122	31	12	13	42	1.81
1127460--1127524	32	2.1	31	91	2	103	38	10	12	38	1.78
1127489--1127631	64	2.2	64	85	6	182	32	13	11	42	1.80
1127420--1127765	189	1.8	186	81	8	421	30	14	11	43	1.81
1127938--1128120	67	2.8	65	82	5	235	27	20	13	38	1.90
1128137--1128218	28	2.9	28	85	0	110	21	14	17	46	1.84
1128281--1128585	134	2.3	135	90	0	468	28	29	18	23	1.97
1128779--1128823	3	15.3	3	81	4	56	31	4	2	62	1.27
1134656--1134723	30	2.3	31	79	7	86	44	7	1	47	1.40
1135510--1136350	416	2.0	418	92	0	1427	30	19	18	32	1.95
1139041--1139065	2	12.5	2	100	0	50	48	0	0	52	1.00
1140172--1140305	3	44.0	3	86	3	142	40	0	2	57	1.11
1147572--1147606	17	1.9	19	88	11	56	37	2	5	54	1.39
1149382--1149722	114	3.0	114	95	0	592	33	15	20	31	1.94
1150696--1151003	145	2.1	145	96	0	571	29	16	22	31	1.96
1151835--1152048	54	3.9	54	86	6	295	39	15	21	23	1.92
1151835--1152048	112	1.9	108	87	5	313	39	15	21	23	1.92
1153093--1153732	76	8.4	76	97	1	1201	22	20	22	35	1.96
1153093--1153732	229	2.8	228	97	0	1201	22	20	22	35	1.96
1153093--1153732	305	2.1	305	99	0	1255	22	20	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153864--1153981	3	39.0	3	83	5	130	38	0	2	58	1.12
1155379--1155454	35	2.2	35	79	9	84	35	3	1	59	1.24
1160438--1160476	20	2.0	20	90	10	62	48	2	0	48	1.15
1167176--1167211	2	17.5	2	94	5	63	47	0	2	50	1.15
1173985--1174026	17	2.5	17	88	7	59	64	2	0	33	1.07
1174355--1174581	118	1.9	119	87	0	330	43	12	14	29	1.83
1174770--1174819	2	25.0	2	95	0	91	50	0	2	48	1.12
1175646--1175690	22	2.0	22	86	0	63	15	24	26	33	1.95
1175839--1175890	23	2.3	23	89	0	77	36	9	11	42	1.74
1177779--1177813	15	2.3	15	95	0	61	34	2	14	48	1.58
1179494--1179573	31	2.6	31	84	4	90	23	17	18	40	1.91
1192194--1192256	23	2.7	24	71	14	60	19	22	11	47	1.80
1203526--1203594	23	3.0	23	89	2	102	36	26	23	14	1.93
1203585--1203650	21	3.0	22	82	10	82	33	27	22	16	1.96
1206102--1206139	20	1.9	20	100	0	76	31	21	23	23	1.98
1206912--1206963	18	2.9	18	85	0	68	23	19	26	30	1.98
1208392--1208420	2	14.5	2	100	0	58	48	0	0	51	1.00
1208654--1208681	2	14.0	2	100	0	56	50	0	0	50	1.00
1213533--1213582	3	16.0	3	79	8	55	32	4	4	60	1.34
1218164--1218190	9	3.0	9	100	0	54	33	0	22	44	1.53
1221218--1221308	38	2.5	35	84	15	105	10	23	39	26	1.87
1222203--1222267	29	2.2	29	88	0	94	35	3	40	21	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233157--1233186	15	1.9	16	93	6	53	70	6	0	23	1.11
1234551--1234750	99	2.0	100	99	0	393	31	12	14	43	1.81
1244443--1244505	33	1.9	33	84	9	85	25	11	4	58	1.51
1247702--1247731	14	2.1	14	100	0	60	13	6	20	60	1.55
1250632--1250729	39	2.5	39	93	0	160	31	25	17	25	1.97
1258405--1258509	53	2.0	53	90	0	165	41	9	25	22	1.84
1261127--1261176	25	2.0	25	84	7	66	2	30	4	64	1.23
1261237--1261291	20	2.8	19	75	8	56	12	9	7	70	1.32
1261665--1261708	18	2.4	19	96	3	81	65	0	0	34	0.93
1261670--1261730	26	2.3	27	80	8	72	67	1	0	31	1.01
1261855--1261908	27	1.9	28	85	7	74	37	5	3	53	1.42
1267035--1267137	43	2.5	41	83	10	120	43	0	2	52	1.22
1267063--1267141	21	3.6	22	76	22	78	45	0	2	51	1.14
1273342--1273379	3	12.7	3	88	0	58	28	2	2	65	1.19
1278277--1278320	17	2.6	17	77	0	52	59	0	0	40	0.98
1279347--1279384	16	2.4	16	82	4	51	63	0	5	31	1.17
1279508--1279618	51	2.2	51	98	0	213	56	3	9	29	1.49
1279591--1279647	23	2.6	21	76	17	53	56	1	3	38	1.27
1280160--1280261	34	2.9	36	85	7	154	28	15	11	44	1.82
1280809--1281573	105	7.3	105	89	3	1055	22	17	26	33	1.96
1282356--1282535	65	2.8	65	91	1	290	36	12	21	30	1.90
1282487--1282571	37	2.3	37	87	2	118	41	14	20	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282321--1282636	167	1.9	167	93	2	546	36	12	20	29	1.90
1282485--1282789	36	8.9	34	68	20	165	36	13	21	28	1.91
1282420--1282777	102	3.5	102	91	2	562	35	13	20	30	1.91
1282687--1282784	34	2.8	33	84	9	115	35	13	23	27	1.92
1282724--1282781	15	3.6	15	70	17	53	31	15	24	29	1.95
1283646--1283696	22	2.3	22	96	0	93	25	11	27	35	1.91
1284355--1284424	8	8.9	7	75	18	50	0	14	7	78	0.95
1284347--1284430	17	5.1	16	73	19	59	0	14	8	77	0.99
1288324--1288358	16	2.2	16	89	0	52	62	0	5	31	1.18
1288378--1288473	50	1.9	50	81	8	115	64	3	5	27	1.30
1288478--1288586	49	2.2	51	96	3	204	55	3	11	29	1.51
1289125--1289226	34	2.9	36	88	7	163	27	15	12	44	1.83
1289571--1289634	29	2.2	28	89	8	94	54	9	0	35	1.33
1290184--1290423	6	39.8	6	76	15	156	0	17	49	33	1.47
1290192--1290419	2	111.5	2	75	4	123	0	16	49	34	1.46
1291372--1291439	31	2.1	34	84	13	90	42	0	1	55	1.08
1300440--1300734	156	1.9	155	87	0	428	45	8	14	31	1.75
1303361--1303437	31	2.5	31	82	4	84	45	10	12	31	1.76
1303383--1303446	31	2.1	31	84	0	83	46	14	14	25	1.81
1307152--1307177	5	5.2	5	100	0	52	0	0	57	42	0.98
1310231--1310546	156	2.0	157	91	2	510	44	18	6	29	1.75
1314813--1314841	14	2.1	14	100	0	58	62	0	6	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317861--1317989	60	2.2	60	84	2	161	34	8	17	39	1.80
1317888--1318003	60	1.9	60	87	6	173	31	8	21	37	1.84
1318143--1318196	29	1.9	29	85	7	76	61	16	7	14	1.55
1323461--1323498	14	2.7	14	95	0	67	10	13	18	57	1.63
1323734--1323835	23	4.3	23	71	13	82	12	13	17	55	1.68
1323702--1323835	47	2.9	48	80	4	148	12	12	17	57	1.65
1327258--1327330	30	2.4	30	80	13	78	45	10	5	38	1.63
1327811--1327885	38	2.0	37	84	5	98	49	4	0	46	1.20
1332235--1332286	12	4.2	12	74	13	52	65	0	0	34	0.93
1350112--1350165	26	2.0	27	85	3	74	29	0	25	44	1.54

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