genome.fa.s7964.2.7.7.80.10.50.1000.4.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: VEPZ01007964.1 Hibiscus syriacus cultivar Beakdansim tig00110393_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1737572

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 720 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)
887527--887626	49	2.0	49	100	0	200	24	26	16	34	1.95
888061--888130	34	2.0	35	83	8	90	72	0	10	17	1.10
888078--888116	10	3.8	10	83	6	51	76	0	7	15	0.99
889514--890166	84	7.8	84	83	2	728	23	19	25	31	1.98
890186--890396	84	2.5	84	80	5	237	24	17	25	33	1.96
894330--894363	11	3.3	11	88	12	54	82	0	0	17	0.67
894312--894355	9	4.9	9	80	0	52	79	2	2	15	0.93
894313--894382	18	3.7	19	78	14	65	78	1	4	15	0.98
897424--897483	12	4.9	12	68	11	50	30	1	1	66	1.11
898221--898256	14	2.6	14	95	0	63	41	36	0	22	1.54
899000--899026	1	27.0	1	100	0	54	0	0	0	100	0.00
899638--899712	37	2.0	37	89	0	114	52	9	22	16	1.72
903823--903861	18	2.2	18	90	4	62	66	2	0	30	1.05
904551--904597	2	23.5	2	100	0	94	51	0	0	48	1.00
911251--911280	15	2.0	15	100	0	60	13	46	26	13	1.80
925900--925983	31	2.7	31	98	0	159	51	8	7	33	1.59
925916--925967	18	3.2	18	69	25	60	50	11	9	28	1.70
939441--939481	21	1.9	22	85	5	57	63	17	0	19	1.31
941531--941586	21	2.7	21	88	0	85	32	17	26	23	1.97
945150--945189	20	2.0	21	85	5	55	27	20	10	42	1.83
947502--947546	19	2.3	19	85	11	56	55	6	2	35	1.38
952997--953040	22	2.0	22	90	0	70	40	22	11	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954585--955176	106	5.6	106	91	0	936	34	24	18	23	1.96
955273--955466	84	2.3	83	80	2	217	29	25	20	24	1.99
959856--959896	2	20.0	2	90	5	64	48	0	46	4	1.23
964789--964830	2	21.0	2	100	0	84	50	0	0	50	1.00
965126--965202	2	38.5	2	100	0	154	49	0	0	50	1.00
973005--973046	21	2.0	21	90	9	68	30	0	19	50	1.48
977011--977079	9	7.3	9	79	9	66	15	24	30	28	1.96
977011--977073	19	3.3	19	84	8	67	15	22	31	30	1.95
977076--977104	14	2.1	14	100	0	58	20	55	24	0	1.44
983523--983555	9	3.7	9	84	15	50	12	24	33	30	1.91
985224--985254	16	1.9	16	93	0	53	67	3	0	29	1.06
985626--985668	20	2.2	20	88	8	63	39	4	30	25	1.76
985815--985887	37	2.0	36	84	5	94	47	4	1	46	1.30
989494--990226	366	2.0	366	97	2	1393	27	21	17	33	1.96
992328--992352	10	2.5	10	100	0	50	72	8	0	20	1.10
992994--993025	2	16.0	2	100	0	64	50	0	0	50	1.00
997335--997386	26	2.0	27	85	11	72	46	1	0	51	1.12
999885--999955	20	3.5	20	92	0	115	26	16	35	21	1.95
1000548--1000789	79	3.1	79	92	0	387	38	11	22	27	1.89
1000603--1000746	34	3.9	34	76	19	135	36	12	23	27	1.91
1000637--1000780	45	3.5	41	76	20	140	35	12	24	27	1.91
1003611--1003654	20	2.2	20	87	4	61	27	18	6	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024000--1024037	16	2.3	17	90	9	69	28	21	18	31	1.97
1025544--1025670	18	7.6	17	75	16	72	75	0	15	8	1.03
1025560--1025658	18	5.9	18	76	17	81	75	0	15	9	1.03
1025561--1025658	10	10.3	10	68	22	52	76	0	14	9	1.01
1025606--1025674	29	2.4	29	83	9	88	84	0	10	5	0.78
1025607--1025674	7	9.4	7	82	17	54	83	0	10	5	0.79
1025606--1025679	10	7.7	9	79	13	60	83	0	9	6	0.80
1026451--1026741	143	2.0	143	97	1	557	38	11	20	29	1.87
1026977--1027329	55	6.6	54	82	6	344	29	16	25	28	1.97
1026977--1027240	106	2.5	105	85	2	341	28	15	26	28	1.96
1027136--1027351	110	2.0	110	83	1	272	30	16	23	29	1.96
1032039--1032123	44	1.9	45	90	2	136	25	22	18	32	1.97
1032857--1032914	30	2.0	29	83	10	73	32	0	36	31	1.58
1043090--1043140	25	2.1	25	89	7	79	49	9	7	33	1.65
1046163--1046202	21	1.9	21	85	10	55	42	2	0	55	1.13
1046166--1046199	18	1.9	18	94	5	61	38	2	0	58	1.13
1046436--1046465	14	2.1	14	93	0	51	43	13	26	16	1.85
1055542--1055656	33	3.5	33	81	0	149	25	23	27	23	2.00
1056582--1057052	231	2.0	235	96	3	871	40	11	11	36	1.77
1057101--1057154	17	2.9	19	72	27	62	5	14	29	50	1.66
1057282--1057334	23	2.2	23	83	12	63	41	32	15	11	1.82
1062523--1062581	23	2.6	23	86	0	82	42	6	16	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062495--1062657	87	1.9	87	94	0	290	41	9	14	34	1.79
1062610--1062657	23	2.1	23	92	0	78	35	8	18	37	1.81
1063550--1063601	20	2.6	20	73	11	52	19	17	7	55	1.65
1063039--1064337	363	3.6	364	88	5	2036	27	15	13	44	1.83
1063039--1063935	181	4.9	182	87	2	1297	26	15	13	44	1.83
1063760--1064097	162	2.1	162	89	2	518	27	15	13	43	1.84
1063221--1064279	344	3.0	344	91	3	1665	27	15	13	44	1.83
1063922--1064340	182	2.3	183	89	3	659	26	15	13	43	1.84
1067319--1067437	24	5.0	24	86	4	159	39	19	13	27	1.89
1069988--1070037	23	2.2	23	89	7	75	52	26	0	22	1.48
1072150--1072268	24	5.0	24	84	4	159	40	19	14	26	1.89
1074776--1074827	23	2.3	23	83	6	70	51	23	0	25	1.48
1076704--1076735	2	16.0	2	100	0	64	50	0	0	50	1.00
1076917--1077035	24	5.0	24	86	4	168	39	20	14	26	1.90
1076900--1077053	72	2.1	71	83	5	202	43	18	12	25	1.85
1081216--1081266	2	25.5	2	100	0	102	50	49	0	0	1.00
1081464--1081578	24	4.8	24	84	4	151	39	20	14	26	1.91
1086242--1086328	24	3.6	24	86	7	122	41	17	14	26	1.88
1091537--1091655	24	5.0	24	80	4	132	38	17	14	29	1.89
1097586--1097627	16	2.6	16	92	0	66	40	7	26	26	1.81
1099431--1099548	60	2.0	60	84	3	157	45	3	16	34	1.64
1103679--1103785	31	3.4	31	74	17	103	51	4	7	36	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103917--1103952	16	2.2	16	90	0	54	47	13	0	38	1.44
1112079--1112113	16	2.3	15	90	5	52	45	2	0	51	1.16
1112177--1112242	34	1.9	34	100	0	132	37	12	27	22	1.90
1112588--1112703	61	1.9	61	94	0	205	19	20	33	25	1.97
1115078--1115147	29	2.4	29	95	4	124	40	24	17	18	1.91
1121043--1121136	35	2.7	35	91	0	143	31	9	10	47	1.70
1125181--1125290	35	3.1	35	63	23	84	34	20	14	30	1.93
1125280--1125345	33	2.1	31	83	8	80	36	24	18	21	1.95
1128504--1128566	33	1.9	33	96	0	117	39	25	12	22	1.89
1137781--1137936	78	2.0	78	97	0	294	40	10	19	28	1.86
1138797--1138874	22	3.5	22	91	0	129	35	12	15	35	1.86
1139458--1139517	31	1.9	31	93	6	104	26	26	10	36	1.88
1144067--1144124	22	2.6	22	81	10	73	37	13	10	37	1.79
1144074--1144124	22	2.3	22	89	0	84	37	15	11	35	1.84
1144724--1144823	2	49.0	2	95	2	173	48	3	0	49	1.16
1157313--1157404	48	1.9	48	91	4	150	47	5	11	34	1.63
1158304--1158354	18	2.8	18	78	0	57	49	19	1	29	1.60
1166543--1166637	24	4.0	24	90	0	118	25	17	18	37	1.93
1166570--1166630	12	5.2	11	77	14	68	24	16	19	39	1.92
1172179--1172271	3	31.0	3	100	0	186	0	33	0	66	0.92
1175249--1175301	2	26.0	2	96	3	97	49	0	1	49	1.12
1183596--1183626	5	6.2	5	100	0	62	61	0	38	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185835--1185882	22	2.2	22	92	0	78	33	20	25	20	1.97
1186965--1187043	32	2.4	32	87	8	106	17	7	27	46	1.75
1187070--1187134	33	2.0	33	84	6	87	16	4	33	44	1.69
1187944--1189032	249	4.3	255	89	6	1636	27	12	20	40	1.88
1189486--1189535	22	2.3	22	96	0	91	24	10	28	38	1.87
1196558--1196605	23	2.1	23	96	0	87	37	18	10	33	1.85
1204046--1204088	21	2.0	21	100	0	86	48	13	0	37	1.43
1204451--1204526	36	2.1	36	85	7	100	47	1	3	47	1.29
1205267--1205297	6	5.2	6	92	0	53	35	45	16	3	1.63
1205329--1205486	20	7.9	20	71	14	112	23	17	24	34	1.96

Tables:   1   2   3   4   5   6