genome.fa.s7957.2.7.7.80.10.50.1000.25.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  25  of  43  ( 5063 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)
5125082--5125120	15	2.7	14	84	7	51	41	25	10	23	1.86
5125711--5125756	23	1.9	25	83	16	62	30	2	8	58	1.40
5127830--5127893	27	2.4	27	100	0	128	48	6	0	45	1.27
5127839--5127890	16	3.6	16	68	24	51	50	7	0	42	1.31
5142034--5142083	23	2.3	23	86	6	68	20	6	4	70	1.25
5144213--5144277	23	2.8	23	83	0	85	32	23	26	18	1.97
5149291--5149354	23	2.8	23	80	0	83	34	25	25	15	1.95
5156255--5158892	886	3.0	891	98	0	5143	25	13	18	42	1.87
5158872--5158902	2	15.5	2	100	0	62	48	0	0	51	1.00
5159218--5159253	17	2.2	16	90	5	54	41	0	0	58	0.98
5161687--5161716	15	2.0	15	93	0	51	33	10	6	50	1.62
5162483--5162522	21	1.9	21	84	0	53	40	15	10	35	1.80
5163470--5163511	15	2.8	15	82	7	50	28	2	0	69	1.01
5168962--5169067	45	2.4	45	80	3	124	31	15	24	29	1.95
5171224--5171252	14	2.1	14	93	6	51	55	0	6	37	1.27
5171747--5171843	44	2.2	44	85	10	128	27	21	22	27	1.99
5171770--5171843	24	3.4	21	75	15	71	27	20	22	29	1.98
5181833--5181960	39	3.2	39	68	10	123	29	9	16	44	1.79
5185462--5185498	16	2.2	18	85	9	51	43	5	2	48	1.40
5188213--5188296	35	2.4	35	85	2	105	26	21	14	38	1.91
5188127--5188498	100	3.7	100	86	3	435	30	19	11	38	1.88
5188325--5188399	36	2.1	36	97	0	141	29	21	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5188414--5188576	36	4.6	35	84	5	193	28	20	10	39	1.86
5188312--5188399	36	2.4	35	90	3	131	29	20	11	38	1.87
5188133--5188896	101	7.6	99	76	12	557	29	20	11	39	1.87
5188592--5188694	36	2.9	36	88	2	163	28	21	11	38	1.88
5188325--5188709	170	2.2	172	88	3	589	28	20	11	39	1.87
5188590--5188711	36	3.4	35	83	2	154	27	20	13	38	1.90
5188226--5188784	135	4.1	135	78	11	461	29	20	11	39	1.87
5188817--5188900	36	2.4	36	77	2	98	27	20	9	42	1.83
5188919--5188977	29	2.0	29	83	9	75	33	18	11	35	1.88
5189060--5189130	36	2.0	36	85	0	97	25	15	14	45	1.84
5191044--5191079	16	2.2	17	90	5	56	44	5	2	47	1.41
5195975--5196121	33	4.4	33	79	10	165	32	6	14	45	1.72
5196235--5196315	21	3.7	21	75	12	74	17	25	32	24	1.97
5196557--5196588	16	2.0	17	88	11	50	43	21	21	12	1.86
5198182--5198258	37	2.1	38	82	7	95	31	16	11	40	1.85
5198269--5198355	37	2.4	37	86	1	113	26	20	12	40	1.88
5198182--5198557	102	3.7	102	86	2	472	30	19	11	38	1.87
5198384--5198458	36	2.1	36	94	0	132	29	20	12	38	1.88
5198182--5198628	102	4.3	100	82	7	391	30	19	10	39	1.86
5198371--5198458	36	2.4	35	88	5	131	29	19	11	39	1.86
5198370--5199033	137	4.9	133	76	12	477	30	19	11	39	1.86
5198546--5198608	21	3.3	20	70	25	64	30	20	1	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5198384--5198774	173	2.2	174	86	3	563	30	19	10	39	1.85
5198473--5198628	36	4.3	36	87	3	190	28	21	9	40	1.84
5198544--5198605	15	3.4	19	71	24	69	30	19	1	48	1.58
5198654--5198757	36	2.9	36	89	1	163	29	20	10	39	1.86
5198682--5198963	101	2.8	102	87	2	417	28	19	10	41	1.85
5198897--5198991	36	2.8	33	82	6	102	25	21	12	41	1.88
5198985--5199044	29	2.0	30	84	9	79	33	20	11	35	1.88
5199127--5199196	36	1.9	36	88	0	104	27	15	12	44	1.83
5201410--5201446	16	2.2	18	85	9	51	43	5	2	48	1.40
5205547--5205631	37	2.3	36	87	2	116	24	20	14	41	1.89
5205460--5205909	102	4.4	102	82	5	480	30	19	11	38	1.86
5205662--5205742	36	2.2	36	95	2	144	27	20	12	39	1.89
5205750--5206052	36	8.5	35	77	11	271	30	20	10	38	1.86
5205823--5205885	21	3.3	20	70	25	64	30	20	3	46	1.66
5205821--5205876	15	3.2	17	72	23	53	33	17	1	46	1.59
5205561--5206150	139	4.3	136	79	11	576	30	19	11	38	1.87
5205466--5206241	101	7.6	101	78	11	593	29	19	11	39	1.86
5206175--5206269	36	2.8	32	82	6	100	24	21	12	42	1.87
5206263--5206322	29	2.0	30	84	9	79	33	20	11	35	1.88
5206406--5206476	37	1.9	37	88	0	106	26	15	12	45	1.82
5208700--5208736	16	2.2	18	85	9	51	43	5	2	48	1.40
5212835--5212919	37	2.3	36	87	2	116	24	20	14	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5212748--5213198	102	4.4	102	83	5	489	30	19	11	38	1.86
5212950--5213024	36	2.1	36	97	0	141	29	21	12	37	1.89
5212748--5213529	101	7.7	100	79	9	613	29	19	11	39	1.86
5212937--5213024	36	2.4	35	90	3	131	29	20	11	38	1.87
5212936--5213675	137	5.5	132	76	13	506	29	19	11	39	1.87
5213112--5213174	21	3.3	20	70	25	64	30	20	3	46	1.66
5212950--5213340	173	2.2	174	88	1	588	29	20	10	39	1.87
5213037--5213194	36	4.4	36	85	4	192	28	20	10	39	1.86
5213110--5213165	15	3.2	17	72	23	53	33	17	1	46	1.59
5213220--5213417	36	5.7	36	72	17	175	30	19	11	38	1.87
5213463--5213557	36	2.8	32	82	6	100	24	21	12	42	1.87
5213551--5213610	29	2.0	30	84	9	79	33	20	11	35	1.88
5213694--5213764	37	1.9	37	88	0	106	26	15	12	45	1.82
5215988--5216028	16	2.4	18	80	15	52	41	4	2	51	1.36
5220516--5220708	30	6.2	30	88	8	289	48	0	1	50	1.10
5220653--5220750	22	4.3	22	67	12	72	37	0	10	52	1.36
5220516--5220708	15	12.5	15	86	8	253	48	0	1	50	1.10
5220688--5220994	80	3.8	79	86	6	452	33	0	12	53	1.42
5220758--5220897	32	4.7	32	77	20	167	35	0	11	53	1.37
5220791--5220833	22	2.0	22	95	0	77	37	0	11	51	1.39
5220759--5221009	54	4.6	54	75	13	253	34	0	11	53	1.40
5220822--5220875	14	3.6	14	72	18	54	37	0	3	59	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5220688--5221009	166	1.9	166	96	0	599	34	0	12	53	1.41
5220868--5220941	22	3.2	22	65	26	53	28	0	14	56	1.39
5220869--5220942	26	3.1	24	75	11	80	27	0	14	58	1.37
5220957--5220999	22	2.0	22	85	0	59	34	2	13	48	1.56
5221023--5221082	31	1.9	31	93	0	102	43	10	6	40	1.64
5227051--5227097	23	2.1	22	84	4	58	36	10	19	34	1.86
5227576--5227638	23	2.7	23	92	0	99	39	19	3	38	1.67
5228057--5228119	23	2.7	23	92	0	99	38	20	4	36	1.74
5227171--5228519	481	2.8	482	96	0	2511	40	10	7	41	1.67
5228691--5228733	20	2.3	18	85	14	61	20	16	11	51	1.75
5228696--5228742	20	2.4	19	82	10	67	19	17	10	53	1.72
5228877--5228923	20	2.3	20	89	10	78	17	17	10	55	1.69
5228972--5229690	229	3.1	230	97	1	1331	38	8	7	44	1.63
5235821--5235863	18	2.4	18	88	0	59	18	6	6	67	1.37
5238553--5238597	16	2.8	16	86	6	56	51	28	8	11	1.68
5239140--5239185	12	3.9	12	75	16	51	69	0	0	30	0.89
5239271--5239304	2	17.0	2	100	0	68	50	0	0	50	1.00
5239667--5239769	31	3.3	31	86	1	143	38	36	11	12	1.80
5239724--5239818	32	3.0	32	80	4	104	33	28	15	22	1.95
5243224--5243249	6	4.3	6	100	0	52	0	19	50	30	1.48
5247844--5247890	21	2.2	21	81	7	51	65	2	25	6	1.27
5251398--5251462	18	3.4	18	76	12	76	49	16	4	29	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5251378--5251460	39	2.1	39	95	0	148	50	18	4	26	1.66
5251490--5251569	25	3.0	26	82	10	83	25	27	1	46	1.61
5251566--5251644	19	4.2	18	76	15	56	32	17	10	39	1.83
5251578--5251646	19	3.7	18	82	5	75	33	15	10	40	1.81
5254545--5254622	38	2.0	39	95	2	140	33	16	15	34	1.90
5259949--5260216	38	7.1	37	80	11	289	47	6	3	42	1.47
5259949--5260199	75	3.4	73	81	10	287	47	6	3	42	1.46
5260004--5260243	75	3.2	74	77	15	217	45	7	4	43	1.51
5259961--5260245	38	7.6	38	78	11	176	46	7	3	42	1.50
5260791--5262370	84	19.0	84	84	2	1834	23	18	24	33	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43