genome.fa.s8053.2.7.7.80.10.50.1000.18.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  18  of  32  ( 3749 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)
3526875--3526925	21	2.5	19	82	14	66	15	15	9	58	1.62
3527425--3527466	21	2.0	22	90	4	68	21	7	11	59	1.56
3535375--3535554	94	1.9	94	84	0	243	44	13	11	30	1.80
3540413--3540471	16	3.7	16	95	0	91	18	32	13	35	1.90
3540750--3540799	23	2.1	24	92	3	84	46	0	4	50	1.20
3540963--3541020	21	2.8	21	86	0	80	17	0	29	53	1.44
3540963--3541020	14	4.1	14	77	0	53	17	0	29	53	1.44
3541470--3541540	7	10.3	6	76	20	52	22	0	30	46	1.52
3541470--3541540	14	5.2	13	77	14	63	22	0	30	46	1.52
3541466--3541538	21	3.5	20	77	7	74	23	0	28	47	1.52
3541471--3541544	28	2.7	27	81	12	71	22	0	28	48	1.51
3541500--3541544	14	3.2	14	96	0	81	24	0	28	46	1.53
3541579--3541614	2	18.0	2	94	0	63	47	0	0	52	1.00
3541215--3543114	559	3.5	535	87	8	2462	36	9	11	42	1.74
3541987--3542047	7	8.7	7	79	13	54	18	0	31	50	1.47
3541983--3542047	14	4.6	14	81	7	69	18	0	30	50	1.47
3541987--3542043	21	2.8	20	83	5	69	19	0	31	49	1.49
3542418--3542455	20	1.9	20	88	0	58	26	15	15	42	1.87
3542530--3542556	7	3.9	7	100	0	54	14	0	29	55	1.40
3542665--3542716	15	3.4	15	91	2	86	40	1	7	50	1.42
3541542--3543114	543	2.9	554	90	4	2506	36	9	11	43	1.72
3543197--3543255	2	30.0	2	93	3	102	47	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3543361--3543541	2	94.0	2	64	17	71	46	6	1	44	1.39
3543448--3543495	25	2.0	25	87	4	71	45	4	2	47	1.33
3543733--3543808	19	3.9	20	82	6	102	23	28	1	46	1.61
3543907--3543954	25	2.0	24	83	4	60	41	0	4	54	1.20
3543944--3543980	13	2.6	15	79	16	51	35	8	8	48	1.62
3543957--3543991	13	2.7	13	95	0	61	37	2	11	48	1.54
3544029--3544122	2	47.5	2	72	14	70	45	2	2	50	1.25
3544007--3544065	18	3.3	18	79	11	68	49	1	1	47	1.21
3543991--3544119	49	2.5	53	81	10	142	48	3	1	47	1.27
3548337--3548586	123	2.0	123	94	0	437	28	24	24	21	1.99
3551682--3552744	137	7.8	137	88	1	1459	24	15	25	34	1.95
3554132--3554211	33	2.6	30	75	11	81	37	21	12	28	1.90
3555705--3555732	8	3.5	8	100	0	56	10	0	10	78	0.96
3555679--3555742	16	3.9	17	75	18	55	6	9	4	79	1.04
3564285--3564328	19	2.3	19	88	0	61	77	6	2	13	1.07
3565717--3565741	12	2.1	12	100	0	50	52	0	0	48	1.00
3577124--3577196	20	3.7	20	92	0	101	27	27	20	24	1.99
3577350--3577383	12	2.9	12	86	4	52	17	41	5	35	1.74
3577938--3577991	24	2.2	24	90	0	81	22	16	20	40	1.91
3580460--3580566	20	5.4	20	87	6	148	37	24	22	15	1.93
3580460--3580566	38	2.7	40	84	8	148	37	24	22	15	1.93
3580571--3580623	20	2.7	20	97	2	99	47	16	20	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3580817--3580853	14	2.6	14	86	0	56	48	21	0	29	1.50
3580891--3580978	40	2.2	40	97	0	167	32	25	9	32	1.87
3582307--3582385	42	1.9	42	92	2	133	18	15	43	22	1.88
3582325--3582385	21	2.9	21	73	9	70	21	13	42	22	1.87
3582752--3582819	20	3.5	19	82	6	82	38	23	23	14	1.92
3582808--3582864	14	3.7	14	75	20	60	50	22	15	10	1.74
3582792--3582867	33	2.3	33	100	0	152	46	22	18	13	1.83
3582878--3583034	20	8.6	20	69	16	72	13	19	22	44	1.85
3582901--3582959	14	3.9	14	72	20	55	10	15	23	50	1.74
3582883--3582975	33	2.8	33	95	1	159	11	17	21	49	1.78
3583572--3583619	18	2.7	18	93	0	87	14	12	45	27	1.81
3584946--3585015	20	3.5	20	90	1	115	51	22	14	11	1.74
3585667--3585729	21	3.0	22	79	13	87	17	17	26	38	1.92
3585632--3585726	20	4.7	20	83	7	111	22	18	27	31	1.97
3585653--3585747	41	2.3	41	85	3	120	21	20	25	33	1.97
3585715--3585766	20	2.5	21	87	3	70	21	23	17	38	1.93
3586479--3586545	33	2.0	34	82	8	84	56	7	17	17	1.63
3593226--3593322	23	4.5	22	78	8	92	28	24	23	22	1.99
3597108--3597147	21	1.9	21	90	10	64	32	7	5	55	1.50
3599080--3599235	64	2.4	63	80	10	183	27	18	23	30	1.98
3604658--3604682	13	1.9	13	100	0	50	20	24	32	24	1.98
3605706--3605756	24	2.1	24	100	0	102	35	33	19	11	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3619662--3619718	30	2.0	29	86	6	80	38	5	5	50	1.47
3619740--3619797	28	2.1	28	83	6	73	37	10	13	37	1.79
3619873--3619952	31	2.7	29	78	12	74	47	8	2	41	1.48
3623361--3623399	5	7.8	5	94	0	69	43	0	0	56	0.99
3628282--3628307	13	2.0	13	100	0	52	46	15	15	23	1.83
3632774--3632844	32	2.2	32	87	0	106	47	26	16	8	1.75
3632774--3632844	16	4.4	16	78	0	70	47	26	16	8	1.75
3632774--3632876	48	2.1	48	84	7	129	46	25	16	11	1.80
3635742--3635776	18	1.9	18	88	0	52	28	2	0	68	1.04
3638271--3638412	65	2.2	65	97	0	266	25	19	22	33	1.97
3638402--3638450	20	2.5	21	81	15	61	32	18	20	28	1.96
3645546--3645575	15	1.9	16	93	6	53	46	0	3	50	1.18
3653979--3654015	19	1.9	19	94	0	65	32	29	16	21	1.95
3654041--3654153	20	5.6	20	77	10	122	30	25	19	23	1.98
3654041--3654167	41	3.1	41	91	4	188	33	25	18	22	1.96
3654078--3654167	20	4.4	21	74	12	89	36	26	16	20	1.93
3654317--3654367	22	2.3	22	96	0	93	19	45	15	19	1.86
3654473--3654527	25	2.2	25	93	3	92	34	3	14	47	1.62
3654746--3654789	20	2.2	20	87	0	61	20	18	25	36	1.95
3656670--3656738	20	3.5	19	82	7	84	34	23	21	20	1.96
3656866--3656930	20	3.4	20	79	12	82	16	18	24	40	1.91
3656917--3656959	19	2.2	19	87	4	59	11	13	25	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3657990--3658077	19	4.5	19	76	8	95	19	18	20	42	1.90
3658860--3658932	21	3.6	21	72	5	60	36	26	16	20	1.93
3658854--3658936	41	2.0	40	90	2	130	38	22	18	20	1.93
3658875--3658940	21	3.2	21	69	4	62	40	25	16	16	1.89
3659847--3659908	14	4.3	14	79	6	70	37	0	16	46	1.47
3659849--3659903	29	1.9	29	85	3	76	34	0	18	47	1.49
3660078--3660396	20	16.9	20	81	11	368	26	19	22	32	1.97
3660098--3660388	74	3.9	74	85	3	424	25	19	22	32	1.97
3660113--3660389	54	5.0	54	74	10	272	24	19	22	33	1.97
3660038--3660396	94	3.8	93	81	12	332	25	19	21	33	1.97
3660195--3660242	19	2.9	16	87	12	62	31	16	20	31	1.95
3660082--3660381	148	2.0	149	99	0	593	26	19	22	32	1.98
3663732--3663861	20	6.4	20	79	10	138	23	16	27	32	1.96
3663747--3663862	41	2.8	41	96	0	205	22	18	26	32	1.97
3663767--3663841	21	3.6	21	82	10	109	20	17	26	36	1.94
3663732--3663861	61	2.1	61	81	8	149	23	16	27	32	1.96
3663848--3663902	21	2.7	20	75	5	56	32	20	14	32	1.92
3663936--3663981	19	2.4	19	85	3	56	21	17	30	30	1.96
3663947--3663983	19	1.9	19	94	0	65	21	16	29	32	1.95
3671915--3671951	13	2.8	13	95	4	65	43	5	40	10	1.63
3674406--3674454	24	2.0	24	96	0	89	38	4	42	14	1.64
3678380--3678450	30	2.4	30	100	0	142	28	7	2	61	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3679293--3679364	31	2.3	32	85	2	92	23	33	29	13	1.93
3680265--3680339	17	4.4	17	93	0	123	18	24	38	18	1.93
3680333--3680384	20	2.7	19	84	3	59	28	26	25	19	1.98
3686014--3686089	31	2.4	30	78	6	80	28	31	25	14	1.95
3686959--3687002	7	6.4	7	84	5	63	29	27	27	15	1.96
3686958--3686996	20	2.0	20	94	0	69	33	25	25	15	1.95
3686992--3687065	17	4.4	17	91	0	121	17	21	40	20	1.91
3688831--3688857	14	1.9	14	100	0	54	37	0	7	55	1.28
3693658--3693762	8	12.1	8	70	14	50	75	3	5	15	1.14
3693768--3693881	3	38.3	3	86	8	144	66	3	1	28	1.18

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