genome.fa.s7923.2.7.7.80.10.50.1000.18.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  18  of  40  ( 4704 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)
3641732--3641767	18	2.0	18	94	0	63	38	8	11	41	1.71
3647104--3647150	21	2.2	21	100	0	94	34	0	34	31	1.58
3648547--3648598	16	3.1	16	76	13	50	50	11	9	28	1.70
3649807--3649853	21	2.2	21	100	0	94	34	0	34	31	1.58
3651250--3651302	16	3.1	16	76	12	52	50	11	9	28	1.69
3651716--3651952	20	11.8	20	78	8	171	38	23	16	21	1.93
3668734--3668783	26	1.9	26	95	0	91	4	28	0	68	1.08
3673579--3673617	11	3.6	11	79	6	53	48	10	15	25	1.76
3673573--3673629	21	2.7	21	100	0	114	47	8	12	31	1.72
3673573--3673627	10	5.3	10	74	8	56	45	9	12	32	1.74
3677699--3677748	26	1.9	26	95	0	91	66	2	28	4	1.21
3680048--3680082	3	11.7	3	100	0	70	65	0	0	34	0.93
3680748--3680773	2	13.0	2	100	0	52	0	50	0	50	1.00
3687441--3687808	183	2.0	184	96	1	686	31	10	8	49	1.67
3696461--3696559	23	4.3	23	90	0	162	26	24	26	23	2.00
3696575--3696792	103	2.1	103	97	0	409	36	23	13	25	1.92
3701199--3701237	21	1.9	21	89	5	62	10	25	41	23	1.86
3701243--3701276	17	1.9	18	88	5	52	14	29	32	23	1.94
3707353--3707392	21	2.0	20	85	5	53	17	17	30	35	1.93
3711607--3711735	23	5.6	23	93	0	213	24	26	27	22	2.00
3711752--3711968	102	2.1	101	89	4	328	37	23	13	25	1.92
3713108--3713152	21	2.1	21	87	0	63	15	20	28	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3713744--3713791	2	24.0	2	100	0	96	50	0	0	50	1.00
3718169--3718213	23	1.9	24	82	13	58	66	6	11	15	1.42
3722033--3722402	185	2.0	185	98	0	722	41	14	14	30	1.85
3726860--3726929	32	2.5	26	76	24	86	22	18	20	38	1.93
3732908--3732971	29	2.2	30	91	2	103	28	25	12	34	1.92
3734104--3734167	20	3.0	21	86	6	76	53	20	3	23	1.60
3738205--3738394	41	4.7	40	84	7	222	32	16	21	30	1.95
3738231--3738381	81	1.9	82	91	6	254	33	18	20	27	1.96
3744874--3745029	83	1.9	83	84	6	208	30	17	19	33	1.95
3745001--3745039	13	3.0	13	88	0	60	33	17	23	25	1.96
3745958--3745999	19	2.2	20	82	4	50	52	0	2	45	1.13
3755836--3757014	587	2.0	592	83	5	1492	28	26	17	26	1.98
3758583--3758609	13	2.1	13	100	0	54	33	14	14	37	1.88
3762107--3762356	70	3.6	69	91	2	396	52	18	14	14	1.75
3772352--3772400	24	2.0	24	100	0	98	30	16	20	32	1.94
3780046--3780098	2	26.5	2	100	0	106	49	0	0	50	1.00
3784381--3784448	35	1.9	36	84	3	93	30	11	16	41	1.84
3784532--3784581	20	2.5	20	96	0	91	22	26	12	40	1.88
3786173--3786231	23	2.6	23	91	0	91	42	8	16	32	1.79
3786145--3786307	87	1.9	87	88	2	247	42	12	11	33	1.79
3786325--3786828	201	2.5	200	88	1	744	31	15	14	37	1.88
3792109--3792149	20	2.0	20	90	0	64	29	17	7	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3791740--3792205	197	2.4	197	85	5	600	31	13	14	39	1.86
3796463--3796508	22	2.1	22	100	0	92	65	17	8	8	1.45
3796718--3797876	200	5.8	201	86	2	1559	30	15	14	39	1.87
3796718--3797876	599	1.9	598	87	3	1715	30	15	14	39	1.87
3798311--3798356	19	2.4	19	96	0	83	54	10	2	32	1.47
3799901--3799939	18	2.2	18	95	0	69	7	35	0	56	1.28
3800641--3800696	24	2.4	23	80	8	69	50	5	1	42	1.35
3802621--3803462	182	4.6	182	91	1	1361	26	17	13	42	1.86
3802621--3803462	363	2.3	363	91	2	1366	26	17	13	42	1.86
3805429--3805480	11	4.7	11	90	0	77	42	26	13	17	1.86
3807695--3807757	11	5.9	11	69	14	51	38	1	3	57	1.24
3808423--3808449	3	9.0	3	100	0	54	66	0	0	33	0.92
3810454--3810491	2	19.0	2	100	0	76	50	0	0	50	1.00
3815343--3815403	23	2.7	23	89	0	104	27	26	27	18	1.98
3816856--3816913	20	2.7	20	84	10	62	24	18	22	34	1.96
3821199--3821265	32	2.1	31	86	2	89	14	14	35	34	1.88
3821220--3821304	31	2.7	31	85	1	98	11	11	36	40	1.79
3821679--3821704	2	13.0	2	100	0	52	50	0	0	50	1.00
3821782--3821811	11	2.8	11	95	5	53	26	0	0	73	0.84
3822391--3822461	16	4.4	16	74	11	56	11	15	26	46	1.79
3822411--3822472	32	1.9	33	86	3	90	11	16	29	43	1.82
3825913--3825938	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3838870--3838973	45	2.3	45	89	0	154	31	19	21	27	1.97
3838908--3839048	75	1.9	73	88	2	210	33	19	21	25	1.97
3838785--3839170	120	3.2	120	92	1	601	32	20	20	25	1.97
3838981--3839088	45	2.4	45	88	3	153	30	19	23	26	1.98
3839027--3839397	151	2.5	151	87	3	541	35	20	20	24	1.96
3839027--3839397	76	4.9	76	89	3	534	35	20	20	24	1.96
3843742--3843881	72	1.9	72	92	0	235	33	20	22	24	1.97
3845878--3845912	12	2.8	13	91	8	63	71	0	5	22	1.07
3845897--3845942	21	2.2	21	88	11	69	63	8	10	17	1.51
3848255--3848300	15	3.1	15	78	12	58	67	2	0	30	1.03
3848259--3848318	30	2.0	31	83	9	79	65	1	3	30	1.19
3848299--3848332	17	1.9	18	94	5	61	67	0	11	20	1.21
3848837--3848871	17	1.9	19	88	11	56	42	0	0	57	0.99
3848849--3848901	25	2.0	27	89	7	83	37	3	1	56	1.28
3850834--3850858	10	2.5	10	100	0	50	20	12	40	28	1.87
3855934--3855971	20	1.9	20	100	0	76	31	21	23	23	1.98
3857508--3857567	23	2.6	23	91	0	93	18	26	26	28	1.98
3863845--3863915	3	24.0	3	80	8	83	60	0	0	39	0.97
3864097--3864337	45	5.0	45	70	15	167	33	19	20	26	1.97
3864159--3864216	30	2.0	29	93	3	98	37	17	17	27	1.92
3864345--3864459	45	2.5	46	85	7	153	31	20	20	27	1.97
3864188--3864535	121	2.9	121	90	1	527	33	20	20	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3864392--3864687	76	3.9	76	87	1	398	34	20	19	25	1.96
3867126--3867186	3	20.3	3	80	6	70	63	0	0	36	0.94
3867126--3867190	28	2.4	28	87	7	91	63	0	0	36	0.95
3867127--3867180	22	2.6	21	94	5	92	61	0	0	38	0.96
3867121--3867191	22	3.2	22	84	9	83	59	0	0	40	0.98
3868899--3868938	21	1.9	21	100	0	80	32	17	0	50	1.47
3869290--3869362	24	3.5	19	75	22	67	21	28	19	30	1.98
3869286--3869347	24	2.8	22	77	20	74	19	30	20	29	1.97
3872695--3872764	27	2.6	27	90	4	106	24	25	17	32	1.96
3873412--3873473	24	2.8	23	81	16	69	19	30	17	32	1.95
3876799--3876868	27	2.6	27	88	0	104	25	24	17	32	1.96
3877512--3877568	22	2.6	23	78	16	66	19	28	22	29	1.98
3877512--3877575	24	2.8	23	77	17	71	18	29	20	31	1.96
3881576--3881629	20	2.5	22	76	17	58	24	25	20	29	1.99
3889738--3889779	20	2.0	20	86	9	57	26	26	16	30	1.97
3889734--3889797	24	2.8	23	77	17	80	23	28	18	29	1.98
3893717--3893753	17	2.2	17	95	0	65	51	10	16	21	1.74
3899219--3899328	36	3.0	36	88	6	168	43	20	20	16	1.88
3904314--3904376	12	5.1	12	72	14	56	63	3	1	31	1.19
3908531--3908623	21	4.6	20	78	4	96	38	18	24	18	1.92
3908528--3908623	41	2.3	41	98	0	183	39	17	23	18	1.92
3908531--3908623	20	4.6	20	78	4	96	38	18	24	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3908550--3908684	41	3.3	41	81	6	123	37	20	21	20	1.94
3908612--3908705	20	4.7	20	80	2	89	34	24	18	23	1.96
3909265--3909309	19	2.4	19	92	0	72	48	26	15	8	1.74
3909305--3909527	19	12.1	19	80	11	223	13	21	21	44	1.85
3909415--3909502	33	2.6	33	89	1	131	11	23	25	39	1.88
3909470--3909527	20	2.9	20	80	10	64	13	24	18	43	1.87
3911521--3911643	42	2.9	42	80	2	122	22	36	17	22	1.95
3911577--3911643	21	3.2	21	66	6	55	23	35	20	19	1.95
3912996--3913031	13	2.6	14	86	8	56	27	0	22	50	1.50
3912984--3913040	13	4.4	13	77	14	55	28	0	19	52	1.46

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