genome.fa.s8527.2.7.7.80.10.50.1000.20.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  20  of  37  ( 4336 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)
4855025--4855119	20	4.7	20	78	2	82	34	23	17	24	1.96
4855307--4855350	22	2.0	22	95	0	79	20	45	15	18	1.85
4855615--4855652	20	1.9	20	88	0	58	13	15	21	50	1.78
4856972--4857016	18	2.5	18	88	0	72	26	44	15	13	1.83
4857498--4857564	20	3.4	20	81	2	73	38	23	22	14	1.92
4857553--4857610	14	3.9	14	79	16	71	48	25	17	8	1.75
4857537--4857627	32	2.8	33	94	3	166	47	23	18	10	1.80
4857498--4857632	19	7.6	19	71	19	85	42	23	20	12	1.86
4857644--4857701	14	3.9	14	79	16	71	8	17	25	48	1.75
4857639--4857717	32	2.4	33	95	2	142	10	18	24	46	1.80
4857658--4857775	20	6.4	19	76	11	86	14	20	24	40	1.90
4857791--4857855	25	2.5	26	75	12	71	23	9	16	50	1.74
4860067--4860197	19	7.7	19	65	23	85	42	19	22	15	1.88
4860067--4860193	33	3.8	33	87	4	193	42	18	22	15	1.89
4860068--4860200	66	2.0	66	95	0	239	41	18	22	17	1.90
4860193--4860234	19	2.2	19	86	0	57	19	19	21	40	1.92
4860202--4860268	19	3.8	19	71	18	72	13	23	19	43	1.86
4860375--4860411	14	2.6	14	91	0	65	45	24	0	29	1.53
4861773--4861839	21	3.2	21	68	4	55	19	20	35	23	1.95
4861773--4861895	42	2.9	41	80	7	113	22	17	36	22	1.95
4863919--4864016	33	2.9	33	89	1	142	39	25	23	11	1.88
4863894--4864078	19	10.1	19	75	14	165	43	21	22	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4863989--4864078	39	2.3	38	92	1	144	46	20	20	13	1.83
4864074--4864137	20	3.3	19	82	10	67	12	17	26	43	1.84
4864085--4864137	20	2.7	20	85	8	72	13	18	24	43	1.86
4864660--4864712	20	2.7	20	93	0	88	26	20	28	24	1.99
4864721--4864771	20	2.5	20	96	0	93	25	19	23	31	1.98
4864661--4864777	61	1.9	61	83	0	153	24	17	23	33	1.97
4864661--4864795	61	2.2	61	80	2	146	23	20	23	32	1.98
4874942--4874990	24	2.0	24	100	0	98	34	20	12	32	1.90
4876650--4876908	57	4.5	57	76	9	254	49	15	21	13	1.78
4876672--4876885	116	1.8	116	84	2	295	49	14	21	14	1.79
4876976--4877424	57	7.8	57	77	11	373	48	14	23	14	1.79
4876976--4877416	167	2.6	169	83	8	509	48	14	23	14	1.80
4876976--4877443	117	4.1	117	79	8	421	48	14	23	13	1.79
4878497--4878811	165	1.9	166	92	5	528	28	16	12	43	1.83
4885404--4885550	60	2.5	60	86	1	197	40	5	20	33	1.75
4887481--4887526	20	2.3	20	80	0	56	32	21	19	26	1.97
4887535--4887588	21	2.6	21	86	11	76	37	22	11	29	1.89
4887535--4887627	41	2.3	40	81	9	100	32	21	12	33	1.91
4887538--4887627	20	4.5	19	82	10	83	32	21	13	33	1.92
4888581--4888639	24	2.5	24	94	0	100	25	22	18	33	1.96
4890870--4890905	18	2.0	18	94	0	63	55	22	2	19	1.56
4891291--4891340	25	2.0	25	92	0	82	24	10	22	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4891704--4891761	30	1.9	30	82	6	73	29	5	15	50	1.66
4891715--4891761	24	2.0	24	86	0	67	29	4	17	48	1.65
4893451--4893602	64	2.4	64	92	0	241	52	16	2	28	1.57
4893580--4893616	14	2.6	14	86	0	56	48	21	2	27	1.63
4893516--4893677	78	2.1	78	94	0	288	48	18	2	30	1.61
4897189--4897255	20	3.4	20	89	2	100	52	22	14	10	1.72
4897820--4897893	20	3.8	18	77	13	67	22	12	24	40	1.88
4900736--4901102	125	2.9	123	80	7	402	43	9	8	39	1.67
4901547--4901581	14	2.5	14	90	9	54	57	0	2	40	1.14
4901586--4901614	14	2.0	15	93	6	51	41	0	3	55	1.17
4901926--4901986	19	3.3	19	76	15	56	47	1	1	49	1.21
4901934--4902001	27	2.7	24	77	16	75	47	1	1	50	1.19
4902090--4902136	22	2.1	23	92	4	78	55	0	0	44	0.99
4902098--4902147	22	2.3	22	86	6	66	58	0	0	42	0.98
4902096--4902155	31	2.0	30	87	9	86	56	0	0	43	0.99
4902140--4902171	15	2.1	15	100	0	64	46	0	0	53	1.00
4902153--4902198	24	1.9	23	83	16	58	52	0	0	47	1.00
4902140--4902183	15	2.8	15	89	6	52	50	0	0	50	1.00
4904044--4904554	6	85.8	6	98	1	985	33	0	16	50	1.46
4912887--4912924	2	19.0	2	100	0	76	50	0	0	50	1.00
4912924--4912962	2	19.5	2	100	0	78	0	0	48	51	1.00
4921340--4921376	19	1.9	19	89	10	58	72	2	0	24	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4921970--4922006	2	19.0	2	94	5	67	51	0	0	48	1.00
4924241--4924309	23	3.0	23	84	0	102	30	26	26	17	1.97
4926122--4926173	19	2.7	19	100	0	104	21	30	17	30	1.96
4929264--4929327	23	2.8	23	76	9	76	37	26	20	15	1.92
4929738--4929776	19	2.1	19	85	9	53	30	12	2	53	1.52
4930343--4931495	583	2.0	583	95	0	2063	32	20	11	35	1.88
4954135--4954162	2	14.0	2	100	0	56	50	0	0	50	1.00
4957991--4958103	30	3.6	32	83	10	144	15	48	15	21	1.80
4960048--4960301	30	9.0	27	78	9	204	14	46	13	25	1.81
4960048--4960284	57	4.2	56	78	9	205	14	47	13	24	1.81
4960053--4960285	87	2.7	87	80	3	231	15	47	13	24	1.80
4972937--4972971	16	2.1	17	89	10	54	57	0	0	42	0.99
4979059--4979091	2	16.5	2	100	0	66	51	0	0	48	1.00
4981752--4982890	228	5.0	228	87	1	1352	27	23	26	22	2.00
5011617--5012123	255	2.0	255	99	0	1005	40	15	13	30	1.86
5025374--5025418	20	2.2	20	85	14	58	40	0	6	53	1.27
5027392--5027425	9	3.7	9	88	4	50	32	0	2	64	1.08
5027495--5027639	78	1.9	78	85	5	204	46	4	4	44	1.46
5030447--5030499	6	8.8	6	78	0	52	28	47	1	22	1.62
5030437--5030533	18	5.4	18	81	0	95	26	46	1	25	1.60
5030436--5030533	36	2.7	36	77	3	117	26	45	1	26	1.60
5041250--5041296	16	2.9	17	76	23	57	36	6	0	57	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5041410--5041458	15	3.3	15	72	11	55	57	2	4	36	1.30
5048724--5048781	27	2.2	26	81	12	64	27	17	8	46	1.77
5049730--5049829	52	1.9	52	89	0	155	36	12	9	43	1.73
5051161--5051299	71	2.0	71	100	0	278	34	24	7	33	1.83
5054116--5054160	21	2.2	20	84	4	54	37	22	8	31	1.85
5054100--5054210	20	5.5	20	73	14	68	35	23	12	28	1.91
5054100--5054188	41	2.2	40	80	13	94	35	23	11	29	1.90
5054384--5054426	22	2.0	22	90	0	68	20	39	16	23	1.92
5054781--5054834	20	2.7	19	83	8	72	12	14	22	50	1.77
5056138--5056234	42	2.3	42	85	0	122	29	35	16	18	1.93
5056353--5056393	21	2.0	21	90	0	64	19	9	34	36	1.85
5056415--5056510	42	2.3	43	76	5	106	21	12	32	33	1.91
5056621--5056662	12	3.5	12	80	0	57	30	2	2	64	1.19
5056808--5056904	21	4.6	21	81	7	108	21	35	19	23	1.96
5056806--5056924	42	2.8	42	87	0	148	21	35	18	25	1.95
5056810--5056924	21	5.5	20	79	8	95	20	35	19	24	1.95
5060987--5061064	24	3.2	24	96	0	147	42	20	16	20	1.89
5061819--5061856	16	2.5	15	84	12	51	65	0	5	28	1.14
5061993--5062181	20	9.5	19	71	14	89	33	13	23	29	1.93
5062015--5062161	40	3.7	40	78	7	154	34	13	22	29	1.92
5062015--5062185	20	8.5	20	75	6	130	32	12	23	30	1.92
5062064--5062185	61	2.0	61	84	6	158	31	12	23	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5065422--5065456	16	2.2	16	89	0	52	42	2	2	51	1.31
5069375--5069411	18	2.1	17	95	5	65	18	24	32	24	1.97
5071790--5071823	14	2.4	14	90	0	50	41	2	2	52	1.31
5076077--5076112	15	2.4	15	95	0	63	58	0	0	41	0.98
5077685--5077732	22	2.1	23	85	11	64	35	6	6	52	1.52
5079016--5079206	84	2.3	84	89	1	285	25	11	36	27	1.90
5079016--5079231	84	2.6	84	87	1	236	25	12	34	27	1.91
5088722--5088833	29	3.9	29	98	0	215	19	44	27	8	1.79
5088840--5088919	30	2.7	30	92	0	133	23	47	17	11	1.80
5088891--5088939	20	2.5	20	96	0	89	24	48	16	10	1.76

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