genome.fa.s1174.2.7.7.80.10.50.1000.5.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

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

This is table  5  of  11  ( 1247 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)
982802--982861	3	21.0	3	77	16	65	36	0	0	63	0.95
983860--983891	13	2.3	15	89	10	50	43	37	0	18	1.51
984280--984373	5	19.0	5	69	16	54	23	2	1	73	1.01
984284--984399	4	28.2	4	72	21	73	25	2	1	70	1.09
988407--988754	156	2.2	156	92	1	563	36	21	13	27	1.91
988244--989173	356	2.6	356	94	0	1617	37	22	13	26	1.91
988563--988954	200	2.0	200	90	1	624	37	21	13	27	1.91
988763--989104	156	2.2	156	93	1	578	36	22	14	26	1.92
989076--989450	112	3.3	112	83	5	416	37	25	14	22	1.92
990241--990301	5	12.0	5	81	15	56	37	0	0	62	0.96
990241--990302	3	22.0	3	75	18	62	37	0	0	62	0.95
998807--998851	19	2.2	21	80	19	67	28	13	31	26	1.94
998812--998856	19	2.4	19	96	0	81	26	13	35	24	1.92
1007312--1007351	7	5.6	7	83	16	55	75	0	15	10	1.05
1007303--1007351	14	3.2	16	83	13	68	75	0	14	10	1.04
1007303--1007351	23	2.2	22	89	10	73	75	0	14	10	1.04
1007313--1007372	15	4.0	15	82	6	59	75	0	16	8	1.04
1007304--1007371	22	3.1	21	83	8	66	76	0	14	8	1.01
1008692--1009406	161	4.4	161	85	2	837	34	19	19	26	1.95
1008692--1009451	81	9.4	81	80	5	700	35	19	18	26	1.95
1012733--1012786	21	2.6	21	100	0	108	44	3	24	27	1.70
1015167--1015201	3	11.7	3	100	0	70	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015646--1015685	20	2.0	20	85	0	53	72	5	0	22	1.04
1019691--1019739	3	16.3	3	100	0	98	32	0	0	67	0.91
1020067--1020109	20	2.2	19	80	8	50	69	6	2	20	1.23
1020072--1020109	20	1.9	20	88	0	58	71	7	0	21	1.11
1020537--1020608	5	14.8	5	69	16	53	58	0	0	41	0.98
1020566--1020600	18	1.9	18	94	0	61	62	0	0	37	0.95
1020564--1020615	23	2.3	23	83	6	61	59	0	1	38	1.08
1020536--1020655	60	2.0	58	84	12	156	55	0	0	44	1.05
1020630--1020764	18	7.3	18	66	16	55	50	1	1	46	1.19
1020647--1020744	27	3.6	27	72	15	76	48	1	2	47	1.19
1020759--1020803	23	2.0	23	81	0	54	51	4	2	42	1.34
1020898--1020948	20	2.5	20	80	6	57	52	0	0	47	1.00
1020898--1020956	20	2.8	20	74	5	55	54	0	0	45	0.99
1021614--1021676	32	2.0	32	100	0	126	63	12	3	20	1.42
1021614--1021671	14	3.9	15	72	27	52	63	10	3	22	1.40
1023703--1023760	30	1.9	30	96	0	107	22	3	34	39	1.71
1026675--1027031	178	2.0	179	99	0	707	28	11	24	35	1.91
1027239--1027276	20	1.9	20	94	0	67	36	5	31	26	1.79
1027246--1027288	20	2.4	18	85	14	54	41	4	25	27	1.75
1027434--1027508	38	2.0	37	84	5	98	49	4	0	46	1.20
1032828--1032924	2	49.0	2	97	2	187	50	0	0	49	1.00
1034154--1034207	20	2.8	20	94	2	92	12	5	40	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034949--1034993	23	2.0	23	81	0	54	11	4	11	73	1.23
1044120--1044214	48	2.0	48	100	0	190	23	7	25	44	1.79
1048870--1048920	23	2.2	23	89	0	75	21	21	35	21	1.96
1052740--1052779	21	1.9	21	89	0	62	30	7	7	55	1.56
1054829--1054871	22	2.0	22	86	9	61	39	0	9	51	1.34
1055862--1055958	25	3.9	25	88	0	140	30	21	25	21	1.98
1060618--1060693	1	76.0	1	76	0	71	88	0	11	0	0.52
1060611--1060687	7	11.0	7	91	6	113	87	0	12	0	0.56
1061683--1062130	136	3.3	136	83	2	477	35	17	19	27	1.94
1062013--1062226	100	2.2	96	84	4	266	32	19	18	29	1.96
1061877--1062361	236	2.1	231	85	2	637	33	18	20	28	1.96
1062114--1062499	135	2.8	135	84	5	499	33	18	20	26	1.96
1066140--1066214	31	2.4	31	79	2	87	49	16	14	20	1.80
1070565--1070607	18	2.5	17	85	7	61	67	2	4	25	1.22
1071759--1071998	105	2.3	104	87	5	353	22	19	27	31	1.97
1072576--1072759	68	2.7	68	82	5	214	38	9	21	30	1.85
1072576--1073044	65	6.9	67	73	13	235	39	11	19	28	1.87
1072734--1072996	36	7.4	36	79	10	274	40	13	18	26	1.88
1072683--1073052	138	2.7	137	85	1	499	39	12	18	28	1.88
1072770--1072954	102	1.8	102	91	2	309	41	14	16	28	1.87
1073961--1074004	22	2.0	22	91	8	72	27	11	22	38	1.88
1074609--1074659	9	5.2	10	83	6	61	0	9	5	84	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074603--1074640	9	4.6	8	87	12	51	0	10	5	84	0.77
1075843--1075881	8	5.0	8	84	6	53	58	12	17	10	1.61
1075843--1075881	15	2.5	15	87	4	51	58	12	17	10	1.61
1078987--1079029	18	2.5	17	85	7	61	67	2	4	25	1.22
1083900--1084018	61	2.0	61	96	0	220	34	17	15	32	1.91
1086244--1086317	3	24.3	3	76	13	71	64	2	1	31	1.15
1086237--1086337	13	7.8	13	75	12	93	63	1	2	31	1.21
1086245--1086334	16	5.2	17	76	11	69	62	2	2	33	1.20
1086229--1086337	37	2.9	36	76	10	103	63	1	2	32	1.19
1086319--1086480	37	4.3	36	70	17	100	49	2	1	46	1.23
1086310--1086480	38	4.3	38	75	7	119	49	2	1	46	1.25
1086426--1086479	19	2.7	20	80	11	65	46	1	0	51	1.11
1086480--1086504	11	2.3	11	100	0	50	44	8	8	40	1.63
1086458--1086592	38	3.6	38	83	13	156	44	8	3	43	1.51
1086578--1086606	2	14.5	2	100	0	58	51	0	0	48	1.00
1086544--1086646	49	2.1	49	84	10	131	42	7	3	45	1.51
1086506--1086744	87	2.7	87	80	11	229	44	8	3	43	1.52
1087414--1088396	84	11.9	83	80	6	1081	24	20	25	30	1.99
1087388--1088437	334	3.2	327	87	4	1366	24	20	25	29	1.99
1087391--1088437	248	4.2	248	83	5	1155	24	20	25	29	1.99
1091792--1091836	19	2.4	19	92	3	74	66	8	13	11	1.44
1095059--1095132	3	24.3	3	76	13	71	64	2	1	31	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095052--1095152	13	7.8	13	75	12	93	63	1	2	31	1.21
1095060--1095149	16	5.2	17	76	11	69	62	2	2	33	1.20
1095044--1095152	37	2.9	36	76	10	103	63	1	2	32	1.19
1095242--1095295	19	2.6	21	85	11	76	48	1	0	50	1.11
1095296--1095320	11	2.3	11	100	0	50	44	8	8	40	1.63
1095274--1095475	38	5.2	36	75	18	153	42	8	4	44	1.56
1095360--1095453	43	2.2	45	79	14	108	41	8	4	45	1.54
1095401--1095475	37	2.0	37	80	15	64	41	8	5	45	1.56
1095338--1095493	80	1.9	80	81	10	183	42	8	4	44	1.54
1099093--1099140	7	7.0	7	90	4	80	54	0	0	45	0.99
1100362--1100412	19	2.5	21	87	9	70	35	15	19	29	1.93
1100752--1101157	57	7.2	57	92	0	647	35	10	18	35	1.85
1102425--1102454	16	1.9	16	93	6	53	60	3	13	23	1.48
1104445--1104799	139	2.6	138	83	2	390	29	14	25	30	1.95
1104806--1104984	66	2.7	66	82	3	191	39	13	21	25	1.90
1104972--1105056	37	2.3	36	91	4	134	41	12	15	30	1.85
1104987--1105071	37	2.3	36	85	2	107	42	14	15	28	1.85
1117896--1117955	2	30.0	2	93	6	104	48	0	1	50	1.11
1118186--1118289	37	2.8	37	86	0	136	42	13	14	29	1.84
1119677--1119736	27	2.2	27	96	0	111	45	25	3	26	1.69
1123264--1123292	13	2.1	14	93	6	51	62	10	13	13	1.55
1127265--1127334	3	23.3	3	100	0	140	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127376--1127406	16	1.9	16	93	0	53	29	0	3	67	1.06
1127663--1127762	31	3.3	31	69	16	73	33	16	5	46	1.68
1127680--1127855	60	2.9	60	86	4	239	32	19	4	42	1.72
1127682--1127836	29	5.2	29	66	18	84	32	19	5	42	1.73
1128036--1128154	59	2.0	59	85	3	159	39	6	21	32	1.79
1130697--1130988	41	7.1	41	83	3	257	30	19	15	34	1.93
1130697--1130974	82	3.4	82	85	4	319	29	20	15	34	1.94
1130712--1130988	123	2.3	123	82	1	322	28	19	15	36	1.92
1130961--1131076	41	2.8	41	85	3	153	27	18	17	37	1.93
1131449--1131487	18	2.2	18	95	0	69	10	17	15	56	1.66

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