genome.fa.s8747.2.7.7.80.10.50.1000.17.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  17  of  51  ( 6054 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)
4323294--4323329	18	2.0	18	88	0	54	13	19	30	36	1.91
4323145--4323331	62	3.1	62	64	18	147	25	13	24	36	1.92
4323440--4323500	23	2.7	23	89	0	95	19	26	27	26	1.99
4327244--4327287	21	2.1	21	86	0	61	29	27	27	15	1.96
4327314--4327358	22	2.0	22	86	4	63	31	33	26	8	1.87
4328782--4328817	18	2.0	18	100	0	72	11	22	33	33	1.89
4328903--4328938	18	2.0	18	100	0	72	11	22	33	33	1.89
4329020--4329056	18	2.1	17	95	5	65	13	16	35	35	1.88
4329142--4329185	18	2.4	19	88	7	72	20	18	27	34	1.96
4328679--4329284	121	5.0	121	95	0	1095	24	14	24	35	1.93
4329291--4329351	23	2.7	23	89	0	95	19	26	27	26	1.99
4333129--4333173	20	2.2	20	84	8	54	33	15	13	37	1.86
4333504--4333810	54	5.7	54	88	3	447	33	17	16	32	1.93
4333504--4333809	162	1.9	162	91	2	499	33	17	16	32	1.92
4333504--4333861	108	3.3	108	86	1	466	33	17	16	32	1.92
4333511--4333861	162	2.2	162	86	2	490	33	17	16	32	1.92
4335946--4335978	15	2.2	15	89	10	50	21	3	0	75	0.93
4341884--4341965	41	2.0	41	90	0	128	32	18	6	42	1.75
4344856--4345173	131	2.4	131	85	3	417	40	15	11	32	1.83
4347514--4347578	3	22.0	3	84	3	78	61	1	1	35	1.15
4347559--4347584	12	2.2	12	100	0	52	50	0	0	50	1.00
4347726--4348952	233	5.3	232	87	2	1622	33	17	16	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4360456--4360787	131	2.5	130	83	2	407	40	14	10	34	1.81
4360512--4360787	130	2.1	131	86	2	376	39	15	10	34	1.82
4371487--4371573	32	2.7	32	71	16	83	18	24	26	31	1.98
4373532--4373568	18	2.1	18	90	10	58	16	43	24	16	1.87
4376038--4376068	12	2.6	12	100	0	62	16	25	16	41	1.88
4376448--4376571	63	2.0	63	81	9	146	18	26	27	27	1.98
4378428--4378494	31	2.2	31	97	0	125	34	13	29	22	1.92
4378952--4378986	18	1.9	18	88	0	52	31	2	2	62	1.24
4379437--4379668	87	2.7	87	81	7	251	34	14	9	42	1.77
4391576--4391610	14	2.5	14	90	9	54	40	2	2	54	1.30
4391714--4391751	20	2.0	20	89	5	60	60	0	2	36	1.11
4391800--4391953	33	4.7	33	71	18	108	54	1	1	42	1.16
4391833--4391908	37	2.1	37	85	5	100	47	2	1	48	1.24
4391909--4391958	17	2.9	17	84	3	64	66	0	0	34	0.92
4391906--4391955	21	2.3	21	82	6	55	66	0	0	34	0.92
4392007--4392053	21	2.2	21	85	7	60	53	0	0	46	1.00
4396219--4396320	52	2.0	52	84	0	132	28	10	12	48	1.75
4396660--4396692	11	2.8	12	86	9	50	36	0	0	63	0.95
4398752--4398823	28	2.6	29	86	4	85	58	6	15	19	1.59
4398760--4398823	28	2.2	29	88	2	94	57	6	17	18	1.60
4398958--4399018	31	2.0	31	90	0	95	45	4	19	29	1.71
4401855--4401885	4	7.8	4	100	0	62	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4417581--4417624	21	2.1	21	83	8	54	20	18	20	40	1.91
4425295--4425343	20	2.7	18	82	14	64	59	2	8	30	1.38
4426680--4426880	42	4.8	42	81	4	228	29	18	22	29	1.97
4426902--4427501	117	5.1	117	80	5	674	26	22	14	37	1.93
4426895--4427503	233	2.6	232	83	3	792	26	22	14	36	1.92
4428485--4428522	18	2.1	18	85	9	51	23	23	21	31	1.98
4429272--4429571	54	5.6	54	83	3	329	39	19	9	31	1.84
4429256--4429547	107	2.7	108	81	5	331	39	19	9	31	1.84
4429242--4429540	161	1.9	161	85	1	420	39	20	10	29	1.85
4430985--4431048	28	2.3	28	97	0	119	21	4	32	40	1.74
4431726--4431784	20	3.0	20	78	9	59	5	18	1	74	1.09
4431703--4431765	29	2.2	28	83	8	74	4	22	0	73	1.02
4431732--4431800	35	1.9	37	82	11	90	7	15	2	73	1.17
4439610--4439662	26	2.1	24	83	16	63	54	0	1	43	1.11
4441472--4441592	40	3.0	40	91	0	188	33	27	17	22	1.96
4447565--4447639	24	3.1	24	92	0	132	26	12	16	45	1.82
4447565--4447655	24	3.8	24	88	2	130	27	13	15	43	1.83
4452237--4452302	24	2.8	24	92	0	114	27	10	15	46	1.78
4454437--4454461	13	1.9	13	100	0	50	40	8	4	48	1.51
4456926--4456964	14	2.9	14	84	3	53	48	7	15	28	1.72
4458853--4458933	29	2.8	29	87	5	94	56	3	16	23	1.55
4458869--4458933	29	2.3	29	91	2	105	56	3	18	21	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4459048--4459123	31	2.5	31	91	0	116	38	6	22	32	1.80
4461906--4462259	177	2.0	177	98	1	692	38	12	18	30	1.87
4462608--4462658	7	7.4	7	80	8	52	3	9	0	86	0.70
4462599--4462638	18	2.2	18	100	0	80	10	5	0	85	0.75
4462608--4462658	8	6.2	8	82	13	68	3	9	0	86	0.70
4465997--4466033	2	18.5	2	100	0	74	51	0	0	48	1.00
4474810--4475195	114	3.3	117	81	5	487	26	23	15	34	1.95
4475464--4475721	54	4.8	54	84	1	338	42	17	9	30	1.82
4479991--4480052	28	2.2	28	100	0	124	33	16	16	33	1.91
4484061--4484138	30	2.6	30	87	6	104	41	5	20	33	1.74
4484221--4484260	21	1.9	20	85	10	53	60	5	5	30	1.40
4490768--4491026	54	4.7	55	88	2	319	23	23	22	30	1.99
4490939--4491297	54	6.6	54	84	8	335	25	27	16	30	1.97
4490830--4491304	108	4.4	109	80	9	358	25	26	17	31	1.97
4490996--4491313	55	5.9	54	85	4	351	27	26	15	30	1.96
4492237--4492288	8	6.5	8	91	6	70	11	7	0	80	0.89
4502271--4502308	16	2.3	16	95	4	67	36	28	7	26	1.84
4505693--4505748	2	28.0	2	100	0	112	50	0	0	50	1.00
4511440--4511561	63	1.9	64	86	6	178	53	2	3	40	1.30
4511666--4511760	3	31.3	3	71	14	63	63	4	1	31	1.21
4511704--4511760	8	6.6	8	79	16	53	61	3	0	35	1.13
4511676--4511760	37	2.3	37	95	2	154	61	4	1	32	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4511898--4511942	19	2.3	19	81	11	56	68	8	13	8	1.38
4514376--4514405	2	15.0	2	100	0	60	50	0	0	50	1.00
4516667--4516719	28	1.9	27	85	11	72	54	3	0	41	1.18
4516731--4516798	21	3.2	21	68	15	68	38	19	1	41	1.60
4516723--4516814	42	2.2	42	96	3	168	40	20	2	36	1.65
4523176--4523254	39	2.0	39	92	0	131	26	5	24	44	1.74
4536400--4536788	184	2.1	185	90	3	617	46	7	3	42	1.48
4536724--4536767	21	2.2	20	83	4	52	43	2	2	52	1.26
4543864--4543941	38	2.1	38	80	4	86	44	0	5	50	1.24
4543997--4544073	15	5.3	15	69	17	63	41	1	2	54	1.22
4543982--4544074	43	2.2	42	96	3	170	41	2	4	51	1.33
4544371--4544410	20	2.1	19	95	4	71	22	20	10	47	1.79
4547678--4547769	42	2.2	42	98	0	175	23	22	22	30	1.99
4550518--4550564	21	2.2	21	88	0	76	19	25	17	38	1.92
4550560--4550652	20	4.7	20	90	0	132	41	21	17	19	1.90
4550639--4550725	20	4.3	20	89	0	129	31	26	18	24	1.98
4554012--4554085	20	3.7	20	88	0	112	35	25	20	18	1.96
4554057--4554152	33	2.8	33	87	3	129	44	19	22	12	1.84
4554335--4554371	14	2.6	14	86	0	56	48	21	0	29	1.50
4556334--4556482	20	7.4	20	88	1	192	39	22	17	20	1.92
4556506--4556660	34	4.4	34	74	13	152	16	19	21	42	1.89
4556527--4556576	20	2.5	20	87	6	66	24	18	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4556543--4556581	20	2.0	20	100	0	78	20	23	20	35	1.96
4558546--4558630	20	4.3	20	84	1	91	45	22	16	15	1.84
4558963--4559028	22	3.0	22	84	0	96	21	10	39	28	1.86
4559224--4559376	20	7.7	20	91	0	234	22	17	18	41	1.91
4559366--4559418	21	2.5	21	81	0	61	33	16	26	22	1.96
4561710--4561744	18	1.9	18	100	0	70	51	5	5	37	1.50
4561771--4561800	2	15.0	2	100	0	60	50	0	0	50	1.00
4563320--4563391	32	2.2	32	82	0	81	31	18	11	38	1.85
4565035--4565098	23	2.8	22	81	9	74	34	23	25	17	1.96
4568298--4568361	19	3.2	20	72	14	53	43	1	1	53	1.19

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