genome.fa.s8194.2.7.7.80.10.50.1000.6.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: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2426039

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

This is table  6  of  13  ( 1464 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)
999684--999719	2	18.0	2	100	0	72	50	0	0	50	1.00
999872--999901	13	2.2	14	94	5	53	26	0	3	70	1.03
1000105--1000154	21	2.3	22	79	10	57	48	2	16	34	1.57
1014697--1015325	314	2.0	314	98	0	1222	39	18	15	26	1.91
1018715--1018758	14	3.1	14	80	0	52	63	9	0	27	1.24
1027293--1027496	99	2.1	98	89	1	318	20	19	25	35	1.96
1028620--1028663	17	2.8	16	83	10	54	6	9	2	81	0.94
1028645--1028788	75	1.9	75	85	4	202	11	20	10	57	1.62
1028645--1028788	74	1.9	75	85	4	202	11	20	10	57	1.62
1039614--1039640	2	13.5	2	100	0	54	51	0	0	48	1.00
1043482--1043520	20	2.0	20	94	0	69	35	2	10	51	1.50
1048333--1048533	43	4.7	43	87	0	258	30	23	19	25	1.98
1048347--1048558	43	4.9	43	86	0	217	30	24	18	26	1.98
1052892--1052949	18	3.2	18	76	11	64	24	5	0	70	1.07
1052893--1052971	36	2.1	39	84	11	103	27	5	0	67	1.12
1057691--1057719	14	2.0	15	93	6	51	62	0	0	37	0.96
1059914--1059957	15	2.7	17	79	10	56	45	0	0	54	0.99
1064878--1064930	18	2.9	18	94	0	88	20	22	30	26	1.98
1070871--1070997	58	2.2	57	76	13	125	48	2	4	44	1.36
1080291--1080405	18	6.5	17	69	14	54	35	1	1	60	1.17
1080304--1080356	26	2.1	25	85	3	70	24	1	3	69	1.15
1080344--1080401	27	2.2	26	80	17	66	39	1	0	58	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090525--1090590	34	1.9	34	87	0	96	45	1	7	45	1.41
1102634--1102975	22	15.6	22	85	0	452	43	0	8	47	1.37
1102634--1102975	66	5.2	65	93	1	504	43	0	8	47	1.37
1102999--1103057	31	1.9	31	89	0	91	45	8	3	42	1.51
1105118--1105155	20	1.9	20	88	0	58	42	13	2	42	1.57
1116635--1116687	24	2.2	24	83	10	63	45	1	0	52	1.11
1116737--1116784	17	2.8	17	80	3	51	60	8	4	27	1.44
1117212--1117290	32	2.5	32	93	0	140	39	7	21	31	1.81
1118992--1119048	28	2.0	28	86	6	80	29	17	26	26	1.97
1119478--1120144	138	4.8	137	86	5	909	22	18	25	32	1.97
1119478--1120144	277	2.4	272	89	4	996	22	18	25	32	1.97
1120146--1120192	20	2.4	21	82	13	64	31	0	23	44	1.54
1121133--1121216	42	2.0	42	88	4	125	25	16	30	27	1.97
1123000--1123032	13	2.5	13	85	14	50	57	0	0	42	0.98
1122979--1123048	35	2.0	35	81	10	81	55	2	0	41	1.14
1123398--1123452	29	1.9	28	85	3	74	38	1	25	34	1.67
1125572--1126021	229	2.0	228	94	1	785	45	8	7	39	1.61
1126087--1126136	20	2.5	20	81	12	75	52	10	16	22	1.73
1126254--1126300	20	2.4	19	79	10	58	55	8	17	19	1.67
1128615--1128680	33	2.0	33	87	0	96	28	1	45	24	1.62
1130473--1130535	19	3.4	19	95	2	110	31	3	9	55	1.48
1130618--1131839	200	6.1	199	96	1	2164	37	14	15	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130618--1131839	396	3.1	398	96	0	2243	37	14	15	32	1.88
1133300--1133361	18	3.4	18	88	0	88	38	6	33	20	1.79
1133300--1133361	6	10.3	6	83	0	61	38	6	33	20	1.79
1133315--1133365	3	17.0	3	83	0	66	37	3	33	25	1.74
1133303--1133365	12	5.2	12	90	0	81	36	6	33	23	1.80
1134727--1135576	182	4.7	184	97	1	1604	35	15	15	34	1.89
1134727--1135576	365	2.3	365	97	1	1598	35	15	15	34	1.89
1138125--1138187	23	2.7	23	90	0	90	36	6	19	38	1.77
1138125--1138197	23	3.2	23	86	3	85	35	5	19	39	1.75
1138554--1138616	23	2.7	23	90	0	90	36	6	19	38	1.77
1138554--1138626	23	3.2	23	86	3	85	35	5	19	39	1.75
1139203--1139245	9	4.9	9	77	5	52	37	0	0	62	0.95
1154063--1154189	28	4.4	28	74	14	114	42	0	1	55	1.15
1154078--1154249	63	2.7	63	92	6	283	42	1	1	54	1.18
1154244--1154305	19	3.3	19	78	15	58	37	1	0	61	1.06
1154908--1154968	31	2.0	31	83	0	77	49	6	3	40	1.45
1161345--1161389	22	2.0	22	100	0	90	26	0	13	60	1.34
1161878--1161921	22	2.0	23	82	8	56	29	9	2	59	1.41
1162480--1162517	16	2.3	17	86	13	53	28	5	2	63	1.30
1171626--1171673	13	3.5	13	81	10	60	72	0	2	25	0.95
1171618--1171662	15	2.9	15	83	9	56	73	2	2	22	1.05
1171631--1171674	18	2.3	19	92	7	72	72	0	2	25	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171921--1171966	2	25.0	2	79	16	55	52	0	0	47	1.00
1173536--1173996	105	4.4	105	92	0	724	23	18	24	33	1.97
1183924--1183978	23	2.4	24	79	14	62	70	1	1	25	1.06
1183916--1183993	18	4.6	17	75	15	65	67	3	1	26	1.15
1188934--1188967	17	1.9	18	88	5	52	47	0	5	47	1.26
1192820--1192876	30	1.9	30	85	0	78	54	10	8	26	1.63
1194744--1194881	45	3.1	45	92	0	222	27	21	9	42	1.83
1196842--1196964	32	3.9	31	75	10	97	26	19	19	34	1.96
1196838--1196933	32	3.0	32	83	3	122	25	19	22	32	1.98
1196842--1196947	32	3.3	32	76	10	101	23	19	20	35	1.96
1197969--1198020	22	2.5	22	90	6	81	28	25	13	32	1.93
1198086--1198133	18	2.7	18	96	0	87	18	39	18	22	1.92
1199558--1199589	2	16.0	2	100	0	64	50	0	0	50	1.00
1201905--1202140	119	2.0	119	98	0	454	40	14	11	33	1.81
1203604--1203649	14	3.3	14	81	0	56	30	0	6	63	1.20
1203597--1203650	28	1.9	28	88	0	81	35	0	5	59	1.21
1203597--1203642	21	2.2	21	84	0	56	34	0	6	58	1.24
1207845--1207877	16	2.0	17	88	5	50	36	0	3	60	1.12
1207932--1207978	19	2.6	18	86	6	60	31	2	4	61	1.27
1215712--1215770	32	1.9	31	90	10	95	27	20	6	45	1.76
1217550--1217795	123	2.0	123	100	0	492	26	17	20	35	1.95
1217820--1217913	47	2.0	47	100	0	188	21	10	36	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220830--1220859	3	10.3	3	92	7	53	33	0	0	66	0.92
1223261--1223674	206	2.0	207	99	0	821	39	10	10	38	1.75
1225980--1226018	13	3.0	13	100	0	78	30	30	15	23	1.95
1234807--1234854	3	15.7	3	82	4	60	31	0	4	64	1.12
1240213--1240287	32	2.3	32	83	0	96	34	9	22	33	1.86
1241267--1241390	64	1.9	65	88	4	189	37	18	16	26	1.92
1241883--1241918	17	2.0	19	89	10	58	44	5	11	38	1.63
1242049--1242122	31	2.4	30	82	8	87	31	18	16	33	1.93
1243145--1243209	21	3.0	21	65	20	53	32	27	15	24	1.95
1243141--1243285	43	3.4	43	86	1	184	30	31	15	22	1.95
1243396--1243514	43	2.8	43	84	2	141	31	30	16	21	1.96
1243662--1243767	36	2.9	36	88	0	158	22	20	14	42	1.88
1243662--1243784	36	3.4	36	87	0	156	23	21	13	41	1.89
1243762--1243845	31	2.8	30	75	12	82	34	20	11	33	1.89
1243733--1243973	94	2.5	93	83	9	283	27	22	14	35	1.93
1244017--1244131	33	3.4	33	73	14	92	31	17	14	36	1.90
1243980--1244160	69	2.6	67	76	17	174	27	17	14	40	1.88
1244231--1244685	129	3.5	129	83	1	527	26	31	16	25	1.96
1245239--1245521	145	1.9	146	81	9	337	32	22	25	19	1.97
1255454--1255491	20	1.9	20	94	0	67	31	31	15	21	1.94
1255502--1255661	65	2.5	64	85	5	198	31	23	16	27	1.96
1256707--1257128	211	2.0	211	100	0	844	40	17	15	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265591--1265687	48	2.0	48	100	0	194	34	12	20	32	1.90
1266284--1266492	65	3.2	63	80	9	235	26	17	23	32	1.97
1266456--1266511	20	2.8	20	94	0	94	17	14	35	32	1.90
1267674--1267700	6	4.5	6	100	0	54	51	0	0	48	1.00
1270590--1270650	20	2.8	22	69	19	56	54	0	0	45	1.00
1270583--1270671	32	2.6	37	76	16	102	58	0	0	41	0.98
1270635--1270677	24	1.9	24	86	13	65	60	0	0	39	0.97
1275148--1275193	23	2.0	23	100	0	92	34	13	8	43	1.74
1277735--1277776	17	2.5	17	100	0	84	11	19	28	40	1.87
1283228--1283268	14	2.9	14	85	7	55	14	0	34	51	1.43

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