genome.fa.s8973.2.7.7.80.10.50.1000.7.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: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2070395

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

This is table  7  of  11  ( 1243 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)
982444--982517	20	3.7	20	77	10	87	21	21	20	36	1.95
982514--982559	21	2.2	21	92	0	74	39	17	26	17	1.91
983214--983268	28	2.0	28	100	0	110	12	25	7	54	1.63
989347--989384	12	3.1	12	88	3	58	2	7	28	60	1.38
990106--990236	51	2.6	51	85	0	172	21	6	39	32	1.80
993305--993375	30	2.4	30	83	4	81	19	29	2	47	1.64
994003--994233	116	2.0	116	97	0	435	48	16	10	25	1.78
996431--996479	20	2.5	20	96	0	89	20	38	4	36	1.72
998375--998427	14	3.3	16	76	15	56	41	22	1	33	1.65
998537--998603	23	2.9	23	81	0	89	29	23	26	19	1.98
1012699--1012888	95	2.0	95	88	0	281	29	11	19	40	1.86
1013301--1013347	18	2.6	18	96	0	85	27	25	21	25	1.99
1022984--1023061	31	2.5	31	87	0	111	23	12	12	51	1.74
1024420--1024528	31	3.5	31	86	5	123	50	14	11	22	1.76
1032354--1032379	13	2.0	13	100	0	52	61	0	0	38	0.96
1032372--1032431	3	19.7	3	81	10	68	31	1	1	65	1.13
1037610--1037669	28	2.2	27	82	11	70	21	23	5	50	1.68
1037653--1037875	63	3.5	63	86	1	311	23	20	16	40	1.91
1039740--1039773	2	17.0	2	87	0	50	44	0	5	50	1.26
1040012--1040091	12	6.4	12	75	16	65	82	3	10	3	0.92
1040001--1040091	39	2.4	37	81	10	94	80	4	10	4	1.00
1040068--1040092	13	1.9	13	100	0	50	80	4	16	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041082--1041124	18	2.4	18	88	0	59	48	9	30	11	1.71
1041151--1041226	32	2.4	32	86	4	100	28	14	25	31	1.95
1041487--1042428	129	7.3	127	79	3	538	27	25	17	28	1.98
1041694--1042231	256	2.1	256	85	3	726	27	25	16	29	1.97
1041678--1042398	129	5.6	128	79	4	637	27	25	17	29	1.97
1042598--1042624	13	2.1	13	100	0	54	62	0	0	37	0.95
1042617--1042662	3	15.7	3	86	4	67	34	0	2	63	1.07
1047451--1047476	2	13.0	2	100	0	52	50	0	0	50	1.00
1050058--1050106	23	2.1	23	85	7	64	57	14	2	26	1.48
1050278--1050341	25	2.6	25	92	5	103	14	46	18	20	1.83
1050299--1050354	12	4.7	12	71	8	51	14	50	19	16	1.79
1053406--1053450	20	2.2	20	84	7	56	64	0	22	13	1.28
1060285--1060333	23	2.1	23	81	7	55	59	14	2	24	1.46
1074960--1075001	17	2.5	17	88	0	57	26	0	2	71	0.98
1076488--1076533	12	3.6	12	81	16	56	45	17	19	17	1.85
1076494--1076534	12	3.1	13	80	19	57	46	14	17	21	1.84
1078826--1078865	21	1.9	21	94	0	71	30	15	7	47	1.72
1078860--1078958	33	3.0	33	94	1	164	32	7	15	45	1.73
1078944--1078998	13	4.2	13	75	13	58	34	3	12	49	1.59
1079394--1079449	15	3.6	15	79	9	67	32	12	12	42	1.80
1079413--1079446	18	1.9	18	94	5	61	38	11	11	38	1.79
1081028--1081072	19	2.3	20	88	3	65	13	22	40	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081028--1081072	10	4.6	10	83	5	65	13	22	40	24	1.90
1082415--1082712	147	2.0	148	96	1	553	36	21	11	30	1.89
1087189--1087230	22	1.9	22	85	0	57	21	2	28	47	1.63
1090473--1090541	26	2.7	26	84	4	77	44	2	2	49	1.32
1101887--1102329	223	2.0	223	93	0	751	43	15	10	30	1.81
1112324--1112371	20	2.4	20	89	0	69	27	14	25	33	1.94
1112442--1112490	20	2.5	20	89	0	71	28	16	24	30	1.96
1112310--1112588	119	2.3	118	93	1	486	30	17	16	36	1.91
1112462--1112640	98	1.8	98	95	0	322	30	14	14	40	1.86
1112584--1113242	249	2.6	249	95	0	1151	33	18	16	31	1.93
1113552--1113614	9	6.9	9	81	15	67	3	25	0	71	1.01
1113545--1113613	28	2.5	28	95	0	120	2	24	0	72	0.98
1113553--1113616	8	7.4	8	83	15	67	3	25	0	71	1.00
1121039--1121109	3	22.7	3	85	8	88	60	1	0	38	1.06
1123448--1123481	17	1.9	18	88	5	52	82	8	5	2	0.93
1125294--1125339	22	2.1	22	91	0	74	17	41	23	17	1.90
1131067--1131126	23	2.9	20	87	9	77	21	33	26	18	1.96
1131109--1131148	21	1.9	21	89	0	62	25	40	25	10	1.86
1134492--1134523	16	2.1	15	94	5	55	18	15	0	65	1.27
1134519--1134560	16	2.4	18	76	15	52	19	11	0	69	1.19
1138743--1138839	16	6.3	15	75	10	88	19	5	2	73	1.13
1138743--1138839	21	4.7	20	72	11	88	19	5	2	73	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138743--1138839	5	18.8	5	76	10	88	19	5	2	73	1.13
1145147--1145171	2	12.5	2	100	0	50	48	0	0	52	1.00
1145975--1146021	5	9.0	5	78	17	51	17	6	0	76	0.98
1146246--1146270	13	1.9	13	100	0	50	16	8	4	72	1.24
1146317--1146358	11	3.7	11	84	15	59	83	0	14	2	0.75
1146317--1146358	22	1.9	21	90	9	66	83	0	14	2	0.75
1149589--1149618	16	1.9	15	93	6	51	20	10	3	66	1.35
1157509--1157548	21	1.9	21	94	0	71	42	17	5	35	1.71
1174566--1174753	94	2.0	94	100	0	376	40	17	12	29	1.86
1177107--1177159	14	3.8	14	89	0	79	30	20	18	30	1.97
1182325--1182838	258	2.0	255	98	1	1001	33	19	20	26	1.96
1190603--1190633	2	16.0	2	93	6	55	51	0	0	48	1.00
1190790--1190844	13	4.2	13	85	0	74	36	12	18	32	1.88
1190653--1190818	85	2.0	85	80	7	194	31	18	19	30	1.96
1193758--1193795	19	2.0	19	85	10	51	39	2	2	55	1.28
1197143--1197330	39	4.9	37	79	13	170	43	2	9	44	1.51
1197151--1197253	39	2.6	41	90	7	176	46	1	5	45	1.38
1199430--1199454	13	1.9	13	100	0	50	44	16	16	24	1.86
1199640--1199696	25	2.5	21	75	20	60	17	5	1	75	1.07
1202025--1202062	18	2.1	18	85	14	51	5	13	0	81	0.85
1205080--1205264	99	1.9	99	90	0	298	37	17	17	27	1.92
1206079--1206139	31	2.0	31	93	0	104	27	8	22	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213547--1213585	6	6.3	6	85	14	53	17	17	0	64	1.30
1213547--1213590	18	2.3	19	81	18	56	15	20	0	63	1.31
1214126--1214159	7	4.9	7	100	0	68	55	14	0	29	1.40
1218770--1218815	23	2.1	22	84	8	58	13	2	28	56	1.48
1221746--1221781	18	2.0	18	88	0	54	30	2	2	63	1.22
1226626--1226710	31	2.7	32	78	7	93	27	29	28	15	1.96
1240878--1241114	20	10.6	20	71	19	168	42	10	24	22	1.85
1240866--1241095	46	5.0	46	92	0	397	43	10	22	23	1.84
1241082--1241182	47	2.1	47	87	3	141	46	6	20	25	1.76
1240878--1241156	20	12.4	21	68	21	122	43	10	22	23	1.83
1254161--1254206	20	2.3	19	85	14	58	26	15	8	50	1.73
1263298--1263373	31	2.5	31	93	0	125	25	28	10	35	1.89
1264018--1264069	24	2.0	27	82	10	65	32	0	9	57	1.31
1264117--1264142	5	5.2	5	100	0	52	61	0	0	38	0.96
1271257--1271338	23	3.7	23	71	12	80	25	25	18	30	1.98
1276109--1276149	2	20.5	2	100	0	82	48	0	0	51	1.00
1284905--1284933	14	2.0	15	93	6	51	75	0	13	10	1.04
1287991--1288039	18	2.5	20	77	19	57	24	6	4	65	1.33
1287996--1288040	18	2.5	18	89	7	65	26	6	4	62	1.39
1291563--1291679	40	2.9	40	94	0	207	22	18	25	33	1.97
1291784--1292051	45	6.0	45	88	1	367	39	7	19	33	1.79
1297561--1297605	18	2.5	18	92	7	74	26	4	4	64	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316752--1316795	21	2.1	21	87	4	63	15	20	0	63	1.31
1317853--1317903	24	2.1	24	88	0	75	25	33	17	23	1.96
1333467--1333571	53	2.0	53	92	0	174	29	40	16	14	1.87
1333708--1333741	16	2.1	17	94	5	61	55	17	23	2	1.55
1337540--1337582	20	2.2	20	95	0	77	18	9	9	62	1.51
1338977--1339061	12	7.5	11	70	21	61	77	0	18	3	0.91
1338966--1339063	23	4.4	22	77	12	76	76	0	17	6	0.98
1338976--1339030	22	2.5	22	85	8	76	78	0	20	1	0.85
1338976--1339028	7	7.1	7	76	19	54	79	0	18	1	0.83
1338976--1339028	15	3.6	14	78	16	54	79	0	18	1	0.83

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