genome.fa.s190.2.7.7.80.10.50.1000.58.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  58  of  62  ( 7381 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)
13558311--13558341	2	15.5	2	100	0	62	48	0	0	51	1.00
13561674--13561713	21	2.0	21	90	9	66	15	7	5	72	1.24
13564928--13564991	19	3.4	19	95	0	119	28	21	25	25	1.99
13571607--13571631	2	12.5	2	100	0	50	48	0	0	52	1.00
13571690--13571729	2	20.0	2	94	0	71	47	0	0	52	1.00
13571685--13571901	14	15.9	13	69	20	65	28	4	2	64	1.25
13571756--13571810	18	3.1	18	76	12	60	34	1	1	61	1.17
13571842--13571918	33	2.4	32	77	14	79	20	2	6	70	1.22
13576700--13576745	18	2.6	18	96	0	83	32	26	23	17	1.97
13584666--13584779	31	3.5	31	69	21	90	28	11	7	53	1.62
13584876--13584917	20	2.2	18	87	12	57	50	2	0	47	1.14
13585865--13585916	15	3.5	15	75	17	54	51	3	7	36	1.49
13588441--13588815	105	3.6	105	92	2	610	22	22	17	37	1.94
13589742--13589812	8	8.9	8	76	14	67	11	16	0	71	1.13
13589741--13589788	9	5.4	9	83	14	64	8	14	0	77	0.99
13589734--13589788	17	3.2	17	78	14	58	7	14	0	78	0.96
13589741--13589788	17	2.8	17	90	9	71	8	14	0	77	0.99
13593319--13593359	7	6.0	7	91	2	66	60	0	24	14	1.34
13594241--13594299	25	2.4	25	97	0	109	38	13	16	30	1.88
13600823--13600874	15	3.5	15	75	17	54	51	3	7	36	1.49
13605244--13605282	19	2.0	20	95	5	71	10	5	0	84	0.76
13605243--13605327	4	21.2	4	80	13	86	20	2	2	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13609164--13609319	43	3.4	43	66	14	116	33	25	19	21	1.97
13609049--13610018	106	9.3	106	90	3	1447	33	24	18	23	1.97
13611313--13611351	20	2.0	20	95	5	71	10	5	0	84	0.76
13611312--13611384	4	18.2	4	77	16	62	19	2	2	75	1.05
13611347--13611376	15	1.9	16	93	6	53	26	0	6	66	1.16
13612659--13612691	16	2.0	17	94	5	59	51	0	0	48	1.00
13613740--13613778	17	2.3	17	95	0	69	41	7	5	46	1.55
13615465--13615510	22	2.1	22	84	8	58	32	0	2	65	1.05
13617780--13617857	39	2.0	39	100	0	156	28	10	20	41	1.85
13619701--13620016	103	3.1	103	97	0	600	26	13	23	36	1.92
13620026--13620100	23	3.3	23	87	3	100	24	18	25	32	1.97
13622846--13622897	18	2.9	18	91	0	77	40	11	23	25	1.88
13623387--13623452	32	2.1	32	91	0	105	46	4	19	28	1.69
13624858--13624971	42	2.7	42	79	0	120	40	19	17	22	1.91
13630213--13630295	42	2.0	42	92	0	139	31	16	13	38	1.87
13631391--13631453	29	2.2	29	94	2	110	57	3	3	36	1.31
13640539--13640571	14	2.4	14	94	0	57	36	0	3	60	1.12
13640747--13640788	2	21.0	2	100	0	84	50	0	0	50	1.00
13643042--13643075	8	4.4	8	88	7	52	44	0	0	55	0.99
13643012--13643094	20	4.0	20	74	13	60	43	1	0	55	1.07
13643031--13643073	15	2.9	15	86	6	61	41	0	0	58	0.98
13643050--13643186	29	4.7	29	69	18	77	48	2	0	47	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13644923--13644981	31	1.9	31	85	0	82	52	13	15	18	1.74
13645286--13645329	2	22.0	2	100	0	88	50	0	0	50	1.00
13645336--13645392	16	3.6	16	87	0	78	56	0	14	29	1.39
13645286--13645381	12	8.0	12	82	4	86	51	1	8	39	1.39
13645336--13645389	4	13.5	4	82	0	63	55	0	14	29	1.40
13649818--13649876	29	2.1	28	87	6	84	38	0	1	59	1.08
13653373--13653402	15	2.0	15	100	0	60	20	6	26	46	1.75
13657435--13657483	20	2.5	20	89	0	71	42	14	18	24	1.87
13658098--13658250	14	10.4	14	70	12	83	31	7	19	41	1.80
13658065--13658250	44	4.2	44	90	1	246	31	8	20	40	1.81
13658327--13658436	23	4.8	23	86	2	132	17	21	24	36	1.94
13661361--13661432	22	3.2	22	84	2	90	23	19	16	40	1.91
13661437--13661491	24	2.3	24	84	6	67	30	25	14	29	1.95
13669923--13669958	15	2.4	15	95	0	63	47	0	0	52	1.00
13669914--13670015	21	5.2	20	65	24	56	46	0	0	52	1.07
13669916--13669963	15	3.4	14	83	8	62	47	0	0	52	1.00
13671367--13671422	20	2.8	20	76	13	53	28	1	8	60	1.37
13676001--13676030	15	2.0	15	93	0	51	16	0	30	53	1.44
13680658--13680701	18	2.4	18	92	0	70	22	6	22	47	1.75
13681990--13682077	32	2.8	32	83	0	113	32	17	22	27	1.96
13685225--13685285	24	2.6	23	81	2	77	36	24	19	19	1.95
13686702--13686733	15	2.1	15	100	0	64	56	18	0	25	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13688825--13688856	16	2.1	16	94	5	57	31	9	0	59	1.29
13698333--13698765	217	2.0	216	97	2	816	24	15	22	37	1.92
13706697--13707156	55	8.4	55	86	3	628	29	25	13	31	1.94
13706679--13707151	164	2.9	164	88	1	700	28	24	14	32	1.94
13706679--13707161	109	4.4	109	84	5	627	28	25	13	32	1.94
13707584--13707726	37	3.8	37	89	0	205	23	18	22	35	1.95
13707568--13707726	74	2.1	74	87	4	223	23	18	22	35	1.96
13709017--13709264	125	2.0	125	87	4	358	23	26	16	32	1.96
13712510--13712547	6	6.5	6	96	3	69	47	15	18	18	1.83
13712792--13712886	21	4.5	21	89	2	129	11	22	20	46	1.82
13719200--13719233	14	2.3	15	90	5	52	32	5	29	32	1.81
13722951--13723042	30	3.1	30	98	0	175	32	10	5	51	1.60
13729083--13729114	2	16.0	2	100	0	64	50	0	0	50	1.00
13746896--13746931	18	2.0	18	94	0	63	16	19	33	30	1.94
13747864--13747959	21	4.5	21	80	6	104	23	17	35	22	1.95
13748180--13748258	21	4.0	20	83	5	106	53	5	11	30	1.58
13748180--13748258	19	4.0	19	82	9	104	53	5	11	30	1.58
13748298--13748343	18	2.4	19	89	7	67	39	6	6	47	1.55
13749385--13749432	19	2.5	20	89	3	71	29	10	6	54	1.59
13750741--13750819	21	3.7	21	75	8	79	26	20	30	22	1.98
13756467--13756584	21	5.7	21	80	6	125	38	17	21	22	1.93
13756467--13756620	83	1.9	83	97	0	290	39	18	19	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13756467--13756586	62	1.9	61	86	5	161	39	17	20	22	1.93
13756487--13756707	41	5.4	41	72	8	171	37	21	18	22	1.94
13756617--13756681	20	3.2	20	86	0	85	30	29	15	24	1.96
13757422--13757468	24	2.0	24	91	0	76	29	19	17	34	1.94
13757427--13757473	24	1.9	24	86	4	67	27	19	17	36	1.93
13757655--13757679	12	2.1	12	100	0	50	72	0	28	0	0.86
13759930--13760002	20	3.6	20	68	17	69	35	24	16	23	1.95
13759996--13760159	19	9.7	19	69	24	125	45	18	24	12	1.83
13760014--13760134	14	7.6	14	68	24	62	44	18	24	12	1.84
13759996--13760155	33	4.8	33	96	0	293	45	18	24	12	1.84
13760170--13760244	33	2.3	33	81	4	89	16	21	18	44	1.87
13760351--13760387	14	2.6	14	91	0	65	45	21	0	32	1.52
13761782--13761861	42	1.9	42	84	0	106	22	17	38	21	1.93
13762254--13762558	94	3.3	94	93	3	521	46	19	12	20	1.82
13762594--13762811	94	2.4	91	92	5	359	45	18	13	22	1.84
13762341--13762849	253	2.0	253	98	0	982	45	17	13	22	1.84
13764506--13764634	20	7.2	20	71	22	99	47	19	22	10	1.80
13764553--13764641	14	5.6	14	71	23	70	44	22	23	8	1.81
13764504--13764658	33	4.5	33	87	6	211	47	20	21	10	1.79
13764659--13764776	19	6.7	19	66	19	76	11	19	22	46	1.82
13764675--13764770	33	2.9	33	85	1	129	12	20	21	44	1.85
13765271--13765364	20	4.7	20	86	2	143	20	21	20	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13765271--13765364	41	2.3	40	90	1	143	20	21	20	38	1.94
13765293--13765490	41	4.8	41	72	11	129	27	19	19	33	1.96
13765361--13765409	20	2.4	21	79	6	55	42	18	18	20	1.89
13765273--13765405	61	2.2	61	81	5	153	27	21	19	32	1.97
13765436--13765487	20	2.5	21	87	3	70	21	23	17	38	1.93
13765314--13765546	123	1.9	121	80	6	272	31	18	19	30	1.96
13767352--13767393	2	21.0	2	100	0	84	50	0	0	50	1.00
13768026--13768101	36	2.1	37	90	7	120	39	15	15	28	1.89
13768808--13768841	16	2.1	16	88	0	50	32	5	0	61	1.20
13768822--13768871	21	2.4	22	80	10	59	28	4	2	66	1.21

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62