genome.fa.s8736.2.7.7.80.10.50.1000.7.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: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2478687

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

This is table  7  of  13  ( 1494 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)
1067482--1067528	16	3.0	15	84	9	67	21	0	0	78	0.75
1067480--1067523	10	4.4	10	83	16	56	20	0	0	79	0.73
1070597--1070637	13	3.1	13	86	6	64	80	2	14	2	0.92
1070600--1070637	14	2.8	14	88	4	60	78	2	15	2	0.97
1070598--1070648	13	4.0	13	82	12	61	76	3	15	3	1.08
1070584--1070648	25	2.6	25	85	7	80	76	4	15	3	1.07
1072206--1072431	36	6.4	36	76	11	200	28	19	12	39	1.88
1072153--1072396	101	2.4	101	82	4	276	31	17	12	38	1.87
1072212--1072397	102	1.8	101	87	1	273	30	16	12	40	1.86
1072226--1072485	138	1.9	138	85	0	358	27	19	12	40	1.88
1072380--1072561	65	2.7	67	85	3	235	31	21	8	37	1.84
1073268--1073536	106	2.5	102	78	10	274	33	23	18	24	1.97
1074899--1074931	14	2.4	14	95	5	59	27	0	0	72	0.85
1074856--1074924	25	2.8	24	72	20	63	24	5	0	69	1.10
1074927--1074967	2	21.0	2	83	14	50	43	4	0	51	1.23
1074997--1075094	37	2.8	36	82	11	107	27	4	2	66	1.21
1075332--1075392	25	2.6	22	73	14	59	13	4	8	73	1.22
1077590--1077616	2	13.5	2	100	0	54	51	0	0	48	1.00
1083708--1083771	23	2.8	23	97	0	119	28	18	18	34	1.95
1085654--1085710	24	2.4	25	82	5	73	12	0	26	61	1.31
1089981--1090017	14	2.6	14	91	0	56	29	8	27	35	1.85
1092136--1092197	23	2.7	23	87	0	88	50	16	24	9	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092127--1092208	23	3.6	22	80	3	76	51	15	20	12	1.76
1095236--1095272	19	1.9	20	88	5	58	43	2	2	51	1.30
1095589--1095627	20	2.0	20	85	10	53	48	0	7	43	1.31
1098837--1098927	16	5.7	16	75	5	67	18	15	21	43	1.87
1105941--1106123	29	6.4	29	81	8	178	33	4	21	39	1.75
1113220--1113352	58	2.3	58	88	6	191	30	6	23	39	1.79
1113225--1113352	28	4.5	28	90	6	186	31	6	21	40	1.78
1115958--1116002	21	2.2	21	92	4	74	26	0	20	53	1.46
1118414--1118522	46	2.5	43	83	10	132	32	5	1	60	1.30
1118499--1118548	20	2.5	19	78	18	57	30	4	4	62	1.32
1118562--1118641	17	4.6	17	71	22	60	17	7	0	75	1.03
1118562--1118641	26	3.0	25	72	22	74	17	7	0	75	1.03
1118707--1118771	14	4.8	13	74	22	55	16	6	0	76	0.97
1118730--1118802	19	4.0	17	73	19	58	13	10	1	73	1.15
1119259--1119283	2	12.5	2	100	0	50	48	0	0	52	1.00
1121594--1121638	2	22.5	2	100	0	90	48	0	0	51	1.00
1126130--1126179	10	5.2	9	79	9	55	32	32	22	14	1.93
1131380--1131430	21	2.5	21	75	9	52	39	17	23	19	1.92
1138504--1138535	8	4.0	8	91	0	55	12	0	15	71	1.14
1139489--1139597	40	2.8	40	83	4	114	33	19	19	28	1.96
1139602--1139735	40	3.2	42	74	6	112	34	14	18	32	1.92
1140230--1140330	45	2.2	45	80	0	103	37	15	19	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141321--1141367	18	2.7	18	90	3	69	36	8	27	27	1.86
1141731--1142516	270	3.0	258	84	9	1031	39	18	12	28	1.88
1145979--1146006	2	14.0	2	100	0	56	50	0	0	50	1.00
1150241--1150299	29	2.0	29	100	0	118	23	13	13	49	1.78
1154930--1154988	29	2.0	29	100	0	118	23	13	13	49	1.78
1165578--1165658	22	3.7	22	77	8	67	27	32	23	17	1.97
1165596--1165660	23	2.9	23	81	9	71	27	33	21	16	1.95
1170375--1170439	31	2.1	31	88	5	96	40	13	21	24	1.90
1188771--1188978	104	2.0	104	100	0	416	31	20	14	33	1.92
1197556--1197602	24	1.9	25	86	4	69	38	10	21	29	1.87
1197890--1198029	69	2.0	69	98	0	271	23	7	12	55	1.63
1198640--1198717	21	3.8	21	83	3	97	19	21	25	33	1.97
1198719--1198746	6	4.7	6	100	0	56	35	46	17	0	1.49
1199339--1199534	21	9.4	21	76	14	201	38	20	19	21	1.94
1199335--1199595	42	6.3	42	88	6	390	37	21	19	21	1.95
1199332--1199595	82	3.2	82	90	4	406	36	21	19	21	1.95
1199332--1199620	21	14.0	21	76	10	183	36	21	20	21	1.95
1204466--1204543	20	3.8	20	82	1	93	20	30	28	20	1.98
1204462--1204543	40	2.0	40	86	6	112	21	31	26	19	1.97
1206457--1206497	17	2.4	17	100	0	82	31	4	21	41	1.74
1209508--1209539	14	2.3	14	94	0	55	9	21	43	25	1.82
1221373--1221457	39	2.2	39	100	0	170	18	32	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221386--1221450	21	3.2	21	61	12	55	16	33	7	41	1.77
1221595--1221641	17	2.7	17	87	9	60	61	8	19	10	1.53
1224266--1224308	18	2.3	18	88	4	59	27	18	34	18	1.95
1226193--1226237	21	2.1	21	95	0	81	31	26	11	31	1.91
1229436--1229489	14	3.6	14	74	13	54	40	11	12	35	1.79
1229439--1229471	17	1.9	17	93	0	57	36	9	12	42	1.74
1229767--1229897	65	2.0	65	100	0	262	48	9	18	24	1.77
1244928--1245017	33	2.8	33	83	11	107	51	7	13	27	1.68
1249876--1249955	35	2.3	35	93	0	133	42	23	0	33	1.55
1262094--1262282	35	5.3	35	81	6	175	42	5	9	42	1.60
1262356--1262394	16	2.5	16	83	4	53	12	10	0	76	1.01
1262381--1262432	13	3.7	13	77	22	52	30	1	3	63	1.23
1263572--1263597	11	2.4	11	100	0	52	7	7	0	84	0.77
1264145--1264170	13	2.0	13	100	0	52	46	15	7	30	1.74
1264584--1264629	24	2.0	24	87	12	69	41	17	15	26	1.88
1268444--1268555	35	3.2	35	88	0	152	41	22	0	34	1.60
1270324--1270435	35	3.2	35	87	0	152	35	0	21	42	1.53
1270761--1270830	22	3.2	22	71	17	56	55	1	1	41	1.17
1271009--1271089	22	3.7	22	88	4	112	34	22	13	29	1.92
1271051--1271160	40	2.7	40	83	5	123	30	22	10	36	1.87
1271030--1271236	20	10.1	20	71	6	78	29	20	13	36	1.91
1271348--1271402	22	2.5	22	81	0	74	16	43	18	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271753--1271792	20	2.0	20	85	9	55	52	17	15	15	1.75
1271740--1271814	34	2.2	34	92	0	123	49	20	13	17	1.79
1271808--1271845	20	1.9	20	88	0	58	34	13	18	34	1.89
1271837--1271901	20	3.5	20	66	23	61	16	10	20	52	1.73
1271837--1271914	34	2.3	34	93	0	138	16	10	21	51	1.74
1273310--1273475	42	4.0	42	87	3	205	24	37	13	23	1.91
1273575--1273765	21	9.1	21	69	13	115	20	12	33	33	1.90
1273584--1273765	63	2.9	62	73	12	181	19	13	33	33	1.91
1274101--1274250	21	7.0	21	80	8	149	21	38	13	26	1.90
1276127--1276178	20	2.6	20	81	6	61	50	19	7	23	1.73
1276126--1276191	20	3.3	20	78	0	60	51	18	9	21	1.73
1276188--1276245	20	3.0	20	87	2	73	41	22	13	22	1.89
1276261--1276413	20	7.9	20	73	11	131	23	12	21	42	1.87
1276646--1276694	11	4.5	11	89	0	80	63	20	0	16	1.31
1276823--1276863	18	2.3	18	95	0	73	19	2	21	56	1.54
1278916--1278976	24	2.5	24	81	0	59	34	21	18	26	1.96
1279872--1279927	20	2.8	20	76	7	62	32	5	17	44	1.72
1279998--1280087	40	2.2	41	84	7	112	35	11	24	28	1.90
1279938--1280066	20	6.4	20	66	18	63	37	12	23	27	1.90
1280421--1280453	15	2.1	17	88	11	52	75	0	0	24	0.80
1280400--1280458	14	4.4	13	72	20	50	64	1	0	33	1.04
1280578--1280681	39	2.8	37	74	16	99	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283519--1283554	18	2.0	18	88	0	54	16	2	16	63	1.42
1294628--1294686	22	2.7	22	83	0	73	42	15	16	25	1.88
1294727--1294768	21	2.0	22	85	4	59	30	33	16	19	1.94
1295491--1295602	31	3.6	31	90	0	179	39	22	17	20	1.93
1296242--1296284	22	2.0	22	86	9	61	20	27	32	18	1.96
1299002--1299049	2	24.0	2	100	0	96	50	0	0	50	1.00
1300527--1300581	21	2.8	20	83	8	76	47	7	18	27	1.74
1300654--1300696	21	2.0	22	86	4	61	27	34	20	16	1.94
1301026--1301050	11	2.3	11	100	0	50	28	8	28	36	1.85
1301442--1301550	31	3.6	31	91	3	161	39	21	19	20	1.93

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