genome.fa.s1444.2.7.7.80.10.50.1000.4.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: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2564052

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

This is table  4  of  12  ( 1400 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)
841955--842013	31	1.9	31	82	0	73	66	1	10	22	1.31
841964--842007	16	2.9	15	80	6	52	65	2	6	25	1.28
846051--846080	14	2.1	14	100	0	60	20	13	30	36	1.90
854371--854437	12	5.6	12	74	13	66	20	8	32	37	1.84
854364--854439	24	3.2	24	92	0	125	19	7	31	40	1.80
855966--856014	24	2.0	24	100	0	98	8	42	16	32	1.77
857396--857450	26	2.1	26	100	0	110	30	10	20	38	1.87
865129--865189	25	2.5	24	78	21	65	50	3	0	45	1.17
865219--865253	12	3.0	11	91	8	52	45	2	0	51	1.16
865805--865831	14	1.9	14	100	0	54	37	3	0	59	1.15
870962--871016	29	2.0	28	85	7	76	47	3	0	49	1.19
872017--872065	22	2.3	20	82	10	53	40	0	0	59	0.98
882216--882583	189	2.0	187	89	4	562	33	18	16	32	1.93
882780--883102	132	2.5	131	85	4	447	32	21	15	29	1.95
882780--883102	133	2.5	130	85	4	436	32	21	15	29	1.95
885285--885337	25	2.1	25	96	0	97	28	7	24	39	1.82
887376--887486	43	2.5	45	82	8	129	40	7	18	34	1.78
887376--887499	46	2.8	45	83	8	146	41	6	19	33	1.77
889249--889311	2	31.5	2	100	0	126	50	0	0	49	1.00
890180--890212	16	2.1	16	100	0	66	57	24	12	6	1.57
890187--890274	43	2.0	44	97	2	169	43	15	11	29	1.82
891101--891156	14	4.3	14	80	17	66	53	25	12	8	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
891081--891155	24	3.1	24	88	3	98	56	21	10	12	1.66
900928--901079	2	75.5	2	98	1	295	49	0	0	50	1.05
906558--906630	20	3.6	20	81	3	92	27	17	20	34	1.95
907471--907518	21	2.2	22	82	14	64	39	2	6	52	1.39
907655--907711	18	3.1	19	72	23	50	36	1	1	59	1.18
911836--911884	22	2.2	23	82	10	57	38	2	0	59	1.09
915709--916114	201	2.0	202	98	1	787	31	19	20	28	1.97
936254--936288	17	2.1	17	89	5	54	54	5	0	40	1.24
936641--936670	7	4.3	7	100	0	60	53	0	0	46	1.00
950608--950652	23	2.0	23	86	0	63	26	26	24	22	2.00
950620--950934	149	2.1	149	94	1	551	34	20	16	27	1.95
951383--951412	2	15.0	2	100	0	60	50	0	0	50	1.00
952356--952400	21	2.1	21	87	0	63	15	24	28	31	1.96
955678--955722	23	2.0	23	90	0	72	24	26	26	22	2.00
955690--956004	149	2.1	149	95	1	560	34	20	17	27	1.95
956453--956480	2	14.0	2	100	0	56	50	0	0	50	1.00
958671--958885	103	2.1	103	95	0	385	26	12	24	36	1.90
964982--965108	63	2.0	67	89	9	201	34	19	18	26	1.95
965557--965774	103	2.1	103	94	0	391	24	12	25	37	1.90
965790--965853	23	2.8	22	83	4	83	21	23	25	29	1.99
969197--969241	23	2.0	22	95	4	81	46	0	0	53	1.00
978982--979020	16	2.4	16	91	0	60	23	20	28	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982218--982266	25	2.0	25	91	0	80	36	0	24	38	1.56
982642--982820	64	2.8	63	79	7	191	30	24	19	26	1.98
982766--982814	19	2.6	19	84	9	57	24	28	20	26	1.99
984736--984777	21	2.0	21	85	0	57	54	9	7	28	1.59
993643--993933	43	6.8	43	89	4	396	31	24	26	17	1.97
993643--993933	85	3.4	86	90	4	437	31	24	26	17	1.97
993625--993933	128	2.4	128	90	1	458	32	23	25	17	1.97
998415--998490	20	3.7	20	77	18	66	23	19	30	26	1.98
998432--998492	22	3.0	20	79	15	70	24	19	29	26	1.99
998452--998642	74	2.5	75	92	3	305	25	19	24	29	1.99
1001226--1001350	21	5.8	21	80	15	132	28	18	24	28	1.98
1001226--1001350	44	2.9	43	83	11	150	28	18	24	28	1.98
1006408--1006467	21	2.8	21	77	18	61	21	23	31	23	1.98
1010347--1010562	116	1.9	116	81	5	267	26	15	9	48	1.75
1015674--1015726	19	2.6	21	76	8	65	22	16	33	26	1.96
1015674--1015920	95	2.6	94	91	5	363	23	19	27	29	1.98
1015768--1015821	20	2.7	20	100	0	108	18	20	37	24	1.94
1015863--1015918	21	2.7	21	97	0	103	19	19	33	26	1.96
1016781--1016820	20	2.0	20	100	0	80	30	15	25	30	1.95
1016784--1016830	20	2.3	20	89	7	69	34	14	23	27	1.94
1017218--1017355	67	2.1	67	84	5	181	47	7	2	43	1.43
1017218--1017333	36	3.4	35	71	22	102	48	6	1	43	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017620--1017697	14	5.6	14	74	6	68	50	26	0	23	1.50
1018148--1018216	35	1.9	36	88	2	104	43	17	0	39	1.49
1018228--1018295	35	1.9	35	90	0	109	30	0	25	44	1.54
1034017--1034533	261	2.0	262	96	1	968	32	12	23	30	1.93
1037522--1037574	21	2.5	22	90	6	90	22	24	35	16	1.95
1037651--1037707	30	1.9	30	89	3	89	43	15	5	35	1.70
1038890--1039117	113	2.0	114	99	0	449	27	18	21	32	1.96
1041908--1041976	27	2.6	25	88	8	102	21	23	15	39	1.92
1041992--1042022	10	3.1	10	90	0	53	38	25	0	35	1.56
1042329--1042505	64	2.8	64	83	1	212	27	18	21	32	1.97
1042329--1042553	64	3.5	64	81	3	204	28	19	20	31	1.97
1044568--1044615	19	2.5	19	89	0	69	25	20	27	27	1.99
1046026--1046095	34	2.1	32	86	5	95	25	25	15	32	1.95
1046377--1046434	21	2.8	21	97	0	107	18	24	29	27	1.98
1046626--1046683	30	2.0	29	86	10	82	44	15	5	34	1.69
1046626--1046685	29	2.0	30	90	6	95	43	15	6	35	1.72
1050981--1051013	16	2.1	16	100	0	66	57	24	12	6	1.57
1051082--1051144	16	4.1	16	87	8	103	55	23	12	7	1.63
1051082--1051144	30	2.0	31	90	6	101	55	23	12	7	1.63
1051864--1051914	14	3.9	14	78	19	65	54	21	11	11	1.68
1051874--1051924	10	4.7	10	80	17	57	54	23	11	9	1.66
1051864--1051925	24	2.6	24	97	0	115	53	22	12	11	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051864--1051925	10	5.0	13	71	28	55	53	22	12	11	1.71
1051874--1051948	34	2.2	34	81	9	82	50	22	14	12	1.76
1059982--1060041	24	2.6	24	84	5	70	21	18	20	40	1.92
1061065--1061142	32	2.4	32	95	0	138	41	7	25	25	1.82
1074260--1074332	24	3.0	24	90	4	76	9	15	26	49	1.74
1074270--1074325	14	4.3	14	82	17	84	7	14	26	51	1.67
1074271--1074332	24	2.6	24	97	0	115	8	12	25	53	1.66
1075362--1075428	16	4.3	16	90	3	93	10	8	19	61	1.54
1075360--1075420	32	1.9	32	93	0	104	8	11	22	57	1.60
1075733--1075763	6	5.2	6	92	0	53	35	12	32	19	1.90
1085859--1085929	35	2.0	36	94	2	126	47	7	22	22	1.75
1090695--1090780	20	4.2	20	76	8	84	30	26	19	23	1.98
1090684--1090761	41	1.9	41	86	0	111	35	25	16	21	1.94
1091335--1091371	19	1.9	19	88	0	56	51	21	16	10	1.74
1091371--1091516	19	8.1	19	69	17	87	14	24	18	42	1.88
1091404--1091491	33	2.6	33	92	1	140	13	27	20	38	1.90
1091470--1091516	20	2.3	20	75	13	51	14	25	12	46	1.80
1093648--1093714	21	3.2	21	66	6	55	25	35	19	19	1.95
1093621--1093714	42	2.2	42	79	7	102	24	35	19	21	1.96
1095231--1095359	19	7.7	19	65	26	85	14	23	19	42	1.88
1095228--1095358	66	2.0	64	95	2	235	16	22	19	41	1.90
1095230--1095359	33	4.1	31	88	7	197	15	23	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097547--1097571	12	2.1	12	100	0	50	0	28	0	72	0.86
1097746--1097799	24	2.2	24	90	0	81	40	20	16	22	1.91
1098561--1098677	41	2.9	42	84	3	141	22	18	26	32	1.97
1098540--1098673	60	2.2	60	83	1	160	24	19	26	29	1.98
1098540--1098673	20	6.7	20	82	5	144	24	19	26	29	1.98
1098600--1098695	41	2.3	41	83	3	113	21	19	23	34	1.97
1098663--1098714	20	2.5	21	90	3	79	21	23	17	38	1.93
1099349--1100016	332	2.0	332	83	5	848	35	15	8	39	1.78
1100264--1100311	18	2.5	19	83	10	71	41	2	0	56	1.11
1100279--1100380	29	3.4	29	75	10	98	37	7	0	54	1.29

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