genome.fa.s8717.2.7.7.80.10.50.1000.5.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1896 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)
971799--971843	22	2.0	22	91	0	72	31	24	20	24	1.98
976225--976651	213	2.0	214	99	0	847	32	19	22	26	1.97
976901--976942	2	21.0	2	100	0	84	50	0	0	50	1.00
983277--983366	45	2.0	45	100	0	180	40	13	15	31	1.86
983294--983364	22	3.2	22	65	11	63	42	12	12	32	1.81
990938--990985	6	8.0	6	90	0	78	33	16	12	37	1.86
990938--990985	18	2.7	18	100	0	96	33	16	12	37	1.86
990983--991046	6	10.8	6	86	3	94	34	15	14	35	1.88
990977--991034	29	2.0	30	93	3	100	32	17	15	34	1.91
991056--991254	4	52.8	4	78	16	194	28	50	19	2	1.60
991121--995832	6	783.7	6	71	13	1159	37	49	9	4	1.55
991054--991658	10	62.1	10	79	13	329	32	51	12	3	1.57
991874--995731	14	280.2	14	70	6	1818	37	49	8	4	1.53
994369--995020	22	29.3	22	72	13	106	40	49	7	2	1.45
995295--995831	41	12.4	41	69	17	187	35	50	10	3	1.55
991285--995731	4	1131.8	4	70	6	1938	37	49	8	4	1.54
995811--995853	12	3.6	12	80	0	50	25	44	23	6	1.78
996782--996820	2	21.0	2	85	15	57	53	0	0	46	1.00
998694--999060	139	2.7	139	88	1	515	44	13	11	31	1.79
1008681--1008726	24	1.9	24	95	0	83	30	15	15	39	1.88
1017818--1018173	66	5.4	66	97	0	653	32	17	21	28	1.96
1018135--1018265	48	2.7	48	95	0	235	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019396--1019446	26	2.0	26	84	7	68	5	15	1	76	1.07
1019427--1019476	17	2.9	17	77	14	57	10	16	2	72	1.21
1036450--1036522	36	2.0	36	100	0	146	28	21	13	35	1.92
1036684--1036723	2	20.0	2	100	0	80	50	0	0	50	1.00
1037631--1037842	64	3.3	64	84	5	243	28	25	16	28	1.97
1038702--1038895	98	2.0	98	100	0	388	37	18	13	30	1.89
1039998--1040022	12	2.1	12	100	0	50	16	16	0	68	1.22
1041084--1041125	22	1.9	22	85	9	59	45	0	4	50	1.23
1041296--1041346	23	2.2	23	89	0	75	39	19	5	35	1.76
1041698--1041766	23	3.0	23	85	4	86	43	23	2	30	1.68
1040953--1042383	420	3.5	420	91	7	2346	38	12	7	40	1.72
1042121--1042183	23	2.7	23	87	0	90	38	22	4	34	1.75
1042600--1042685	39	2.2	39	93	0	145	18	13	18	48	1.80
1042940--1042976	18	2.1	18	89	0	56	51	10	5	32	1.60
1043419--1043475	21	2.6	22	88	5	80	38	19	5	36	1.74
1043405--1043475	23	3.2	23	82	8	83	40	21	4	33	1.72
1045374--1046339	395	2.4	395	92	4	1614	31	17	15	35	1.91
1045374--1046339	197	4.9	198	93	4	1616	31	17	15	35	1.91
1046457--1046500	19	2.4	19	92	3	72	56	11	2	29	1.46
1048281--1048346	33	2.0	33	90	0	105	22	48	0	28	1.51
1050566--1051038	181	2.6	182	89	2	691	26	16	14	42	1.87
1052523--1052579	28	2.0	28	100	0	114	35	12	10	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056977--1057018	3	14.0	3	89	0	66	61	0	0	38	0.96
1057836--1057877	21	2.0	21	86	9	59	26	23	19	30	1.98
1057620--1058081	223	2.1	224	88	2	696	36	16	14	32	1.90
1058090--1058190	42	2.4	42	74	8	107	34	22	16	25	1.95
1063678--1063730	14	3.9	13	80	7	54	47	28	0	24	1.52
1063833--1063943	14	8.0	14	73	10	68	45	28	1	23	1.63
1063833--1063940	7	15.7	7	71	5	60	45	29	1	23	1.63
1063850--1063909	21	2.9	20	83	14	77	51	26	0	21	1.48
1065301--1065380	31	2.6	31	100	0	160	26	11	22	40	1.87
1071225--1071265	22	2.0	20	85	9	55	68	4	12	14	1.36
1071255--1071308	23	2.3	23	93	0	99	57	7	16	18	1.62
1072143--1072208	23	2.8	24	83	4	80	22	21	28	27	1.99
1072168--1072219	11	4.6	11	80	4	59	23	23	25	28	1.99
1072261--1072338	14	5.6	14	70	17	54	48	0	2	48	1.15
1086032--1086058	2	13.5	2	100	0	54	51	0	0	48	1.00
1097677--1097980	149	2.0	149	94	0	536	30	15	19	34	1.93
1103313--1103357	23	2.0	23	90	0	72	22	26	26	24	2.00
1107560--1107657	12	8.6	12	72	19	59	78	0	14	7	0.95
1107570--1107750	7	25.7	7	70	15	74	77	0	15	7	0.98
1107571--1107719	56	2.7	56	81	8	178	77	0	14	8	0.99
1107573--1107759	12	16.6	11	68	15	73	77	0	14	7	0.97
1107559--1107762	19	10.5	19	67	18	84	76	0	15	7	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109027--1109140	35	3.2	34	76	13	106	42	14	21	21	1.89
1109388--1109582	55	3.5	55	80	0	228	30	19	23	26	1.98
1109388--1109590	110	1.8	110	90	0	325	30	20	23	26	1.99
1109875--1109905	2	15.5	2	100	0	62	48	0	0	51	1.00
1111862--1111905	23	1.9	23	86	9	63	45	4	0	50	1.22
1111865--1111905	17	2.6	17	81	14	52	46	4	0	48	1.23
1111877--1111925	21	2.3	21	85	0	62	42	8	0	48	1.32
1111880--1111935	21	2.7	21	80	5	60	42	8	0	48	1.34
1115005--1115108	26	4.1	26	71	16	76	38	1	7	51	1.42
1115030--1115096	28	2.2	30	82	10	75	41	2	4	50	1.37
1115145--1115202	21	2.8	21	78	5	64	41	6	0	51	1.28
1115520--1115564	24	1.9	23	82	13	56	60	4	15	20	1.52
1116338--1116369	2	16.0	2	100	0	64	50	0	0	50	1.00
1118793--1118833	14	2.9	14	82	13	57	58	2	0	39	1.11
1119657--1119788	43	3.1	43	67	16	128	30	17	17	34	1.93
1119647--1119886	86	2.8	86	91	0	374	30	16	19	34	1.93
1119678--1119813	43	3.2	43	67	15	127	31	19	17	31	1.95
1124417--1124465	22	2.2	22	81	0	62	30	22	22	24	1.99
1129742--1129777	13	2.8	13	82	0	54	16	22	50	11	1.77
1131870--1131914	22	2.0	23	83	12	58	64	2	28	4	1.25
1136490--1136542	3	17.7	3	77	14	56	37	1	0	60	1.08
1137232--1137264	12	2.8	12	86	13	50	36	6	30	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138626--1138658	9	3.8	9	84	8	50	45	0	0	54	0.99
1144917--1144957	7	5.6	7	85	8	55	75	0	24	0	0.80
1144911--1144957	12	3.9	12	82	15	53	76	0	23	0	0.78
1147670--1147724	20	2.8	20	80	0	65	29	21	20	29	1.98
1147565--1148516	119	8.0	119	96	0	1733	33	16	18	31	1.93
1147789--1147843	20	2.8	20	80	0	65	30	23	18	27	1.97
1147908--1147962	20	2.8	20	82	0	74	29	23	20	27	1.99
1148027--1148081	20	2.8	20	82	0	74	29	23	20	27	1.99
1148146--1148200	20	2.8	20	82	0	74	29	23	20	27	1.99
1148265--1148319	20	2.8	20	82	0	74	29	23	20	27	1.99
1148384--1148438	20	2.8	20	82	0	74	29	23	20	27	1.99
1148683--1148746	3	20.7	3	84	9	76	37	1	0	60	1.06
1149446--1149478	12	2.8	12	86	13	50	33	6	33	27	1.81
1150815--1150847	9	3.8	9	84	8	50	45	0	0	54	0.99
1154566--1154725	87	1.8	88	89	1	250	33	26	14	25	1.94
1159170--1159240	6	11.3	6	77	14	72	21	1	0	77	0.85
1159168--1159237	3	24.3	3	73	16	51	22	1	0	75	0.88
1159820--1159858	19	2.1	19	100	0	78	10	35	5	48	1.59
1164872--1164973	45	2.3	47	83	8	124	24	30	19	25	1.98
1164992--1165091	30	3.3	30	90	0	155	36	20	16	28	1.93
1165513--1165612	30	3.3	30	91	0	155	24	14	39	23	1.91
1165531--1165612	15	5.5	15	76	0	83	21	13	41	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167456--1167490	18	1.9	18	100	0	70	40	22	5	31	1.78
1169128--1169186	31	1.9	31	86	6	84	47	0	3	49	1.18
1170993--1171019	11	2.5	11	100	0	54	14	0	0	85	0.61
1171097--1171123	3	9.0	3	100	0	54	33	0	0	66	0.92
1171149--1171318	4	40.8	4	72	22	95	20	5	1	73	1.09
1171246--1171318	26	2.7	27	91	6	112	24	0	0	75	0.81
1173949--1174211	95	2.7	95	89	3	402	33	17	17	31	1.94
1175342--1176387	84	12.5	84	84	1	1283	32	25	19	22	1.97
1178005--1178171	15	10.3	16	68	18	89	20	4	2	73	1.12
1178015--1178087	13	5.5	13	79	14	69	17	4	1	76	1.01

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16