genome.fa.s260.2.7.7.80.10.50.1000.17.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  17  of  26  ( 3102 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)
3382077--3382368	53	5.4	53	81	7	295	30	8	18	42	1.79
3382403--3382827	194	2.2	197	83	5	544	32	17	14	36	1.90
3382615--3383089	238	2.0	238	87	2	691	31	17	16	35	1.92
3385286--3385321	14	2.6	14	90	0	54	25	13	2	58	1.49
3388890--3388934	22	2.0	22	95	0	81	42	20	11	26	1.85
3390320--3390403	36	2.3	37	87	8	127	48	0	0	51	1.00
3390506--3390536	6	5.2	6	96	0	53	3	64	12	19	1.41
3392113--3392155	22	2.0	22	90	4	70	46	4	9	39	1.57
3394532--3394591	2	30.5	2	83	3	77	55	0	1	43	1.10
3396469--3396515	3	15.7	3	78	8	51	59	4	0	36	1.17
3396466--3396525	24	2.6	23	77	17	70	60	3	0	36	1.14
3396726--3397199	90	5.3	90	92	0	768	34	22	17	25	1.96
3397287--3397471	43	4.3	43	88	0	271	30	29	12	27	1.93
3397275--3397468	86	2.3	86	91	2	318	30	28	12	28	1.93
3397521--3397640	36	3.3	36	84	0	159	35	15	24	25	1.94
3397600--3397790	76	2.5	74	76	5	204	38	14	16	30	1.88
3397943--3398097	34	4.6	34	89	3	222	34	13	18	32	1.90
3397974--3398115	68	2.1	68	81	2	160	40	11	18	29	1.86
3398222--3398401	32	5.6	32	86	2	261	33	23	13	29	1.93
3398222--3398401	65	2.8	65	87	1	281	33	23	13	29	1.93
3398213--3398399	97	1.9	97	93	0	320	34	22	12	30	1.91
3398381--3398422	21	2.0	21	95	0	75	33	16	19	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3398543--3398607	25	2.7	24	73	17	62	49	4	12	33	1.61
3398765--3398849	32	2.7	32	96	0	152	14	7	29	49	1.69
3400737--3400775	6	6.2	6	85	8	51	46	17	17	17	1.85
3404890--3404970	2	40.5	2	94	0	144	50	0	1	48	1.08
3405120--3405160	2	20.5	2	100	0	82	51	0	0	48	1.00
3408171--3408205	13	2.8	13	91	4	54	57	0	0	42	0.99
3411202--3411242	8	5.2	8	82	5	57	34	0	29	36	1.58
3411310--3411914	126	4.8	126	99	0	1201	22	26	19	31	1.98
3412302--3412401	33	3.0	34	83	2	139	39	3	4	54	1.35
3412921--3413011	21	4.3	21	91	5	123	20	26	34	18	1.96
3413018--3413065	21	2.3	21	85	0	60	22	12	39	25	1.89
3414786--3414873	32	2.7	32	80	7	97	59	2	0	38	1.10
3414786--3414864	33	2.4	34	83	8	101	60	1	0	37	1.05
3419354--3419397	21	2.2	20	83	4	52	65	2	11	20	1.35
3420065--3420144	39	2.1	39	92	0	133	26	8	25	40	1.84
3420197--3420259	33	1.9	33	100	0	126	39	19	6	34	1.77
3420688--3420754	33	2.0	33	94	0	116	44	20	16	17	1.86
3425889--3425970	43	1.9	42	87	2	119	26	12	24	36	1.91
3425973--3426404	44	9.9	44	89	1	627	29	15	25	29	1.96
3426827--3426913	21	4.1	21	83	0	93	2	33	18	45	1.62
3426906--3426952	21	2.2	21	77	7	51	4	38	19	38	1.71
3433609--3433656	20	2.4	20	93	6	80	27	6	22	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3444333--3444362	13	2.2	14	94	5	53	26	0	23	50	1.50
3446490--3446833	172	2.0	173	96	4	633	31	17	19	31	1.95
3447963--3447990	10	2.8	10	100	0	56	53	17	0	28	1.44
3449471--3449501	15	2.1	15	100	0	62	45	22	0	32	1.53
3449018--3452342	575	5.8	575	95	0	5812	37	18	15	29	1.91
3460890--3460949	18	3.3	18	100	0	120	26	23	33	16	1.96
3468838--3468888	11	4.4	11	88	9	66	0	13	9	76	1.02
3468845--3468889	12	3.7	12	96	3	81	0	13	6	80	0.91
3468845--3468891	13	3.7	13	94	5	87	0	12	8	78	0.95
3481028--3481054	14	1.9	14	100	0	54	40	0	0	59	0.98
3481303--3481360	17	3.4	17	100	0	116	10	36	29	24	1.88
3486118--3486144	14	1.9	14	100	0	54	40	0	0	59	0.98
3491173--3491199	14	1.9	14	100	0	54	40	0	0	59	0.98
3491448--3491505	17	3.4	17	100	0	116	10	36	29	24	1.88
3494403--3496893	575	4.3	575	95	0	4377	37	17	15	29	1.91
3513892--3513920	14	2.1	14	100	0	58	34	0	0	65	0.93
3513990--3514080	39	2.3	41	88	3	132	31	4	0	63	1.14
3514086--3514123	18	2.1	18	85	9	51	18	5	0	76	0.97
3514304--3514354	19	2.7	19	80	14	61	19	1	1	76	0.98
3514304--3514354	9	5.6	9	76	21	52	19	1	1	76	0.98
3516221--3516254	7	4.7	7	92	3	50	14	17	14	52	1.74
3517458--3517482	10	2.5	10	100	0	50	84	0	16	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3517466--3517533	13	5.1	13	83	11	84	77	1	16	4	0.99
3517466--3517527	15	4.2	15	88	10	83	79	1	14	4	0.98
3517458--3517548	41	2.2	40	80	16	107	76	1	16	5	1.02
3517607--3517741	69	2.0	69	92	0	225	39	25	11	23	1.89
3518658--3518763	32	3.3	30	74	11	86	27	13	21	37	1.91
3518672--3518731	31	2.0	30	90	3	93	28	13	15	43	1.84
3518707--3518776	32	2.2	32	84	5	88	30	14	22	32	1.94
3519435--3519692	110	2.4	110	82	8	307	33	22	18	24	1.97
3521027--3521091	21	3.2	19	74	10	58	30	4	0	64	1.14
3521061--3521135	16	5.1	14	82	12	55	40	2	0	57	1.13
3521084--3521140	2	29.0	2	84	10	73	43	3	1	50	1.29
3521268--3521306	18	2.1	18	85	4	51	17	5	0	76	0.96
3521519--3521582	26	2.4	28	76	12	71	14	4	7	73	1.22
3524168--3524200	3	11.0	3	100	0	66	66	0	0	33	0.92
3524199--3524249	3	17.0	3	95	0	93	33	0	1	64	1.05
3527073--3527191	3	40.0	3	85	8	109	59	0	6	33	1.24
3527073--3527144	29	2.5	29	84	6	101	65	0	0	34	0.93
3527076--3527137	32	1.9	33	90	3	99	64	0	0	35	0.94
3527376--3527552	85	2.1	85	85	7	234	30	19	18	31	1.96
3527605--3527863	73	3.6	73	90	1	396	40	10	15	32	1.82
3527607--3527863	36	7.1	36	69	9	182	41	10	15	32	1.82
3527852--3528268	177	2.4	176	91	1	665	30	20	17	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529274--3529378	54	1.9	54	86	0	147	29	23	8	38	1.85
3529850--3530049	51	3.9	51	86	2	276	23	23	18	35	1.95
3533469--3533516	7	6.6	7	83	9	60	85	0	2	12	0.69
3537652--3537690	2	19.5	2	94	0	69	48	0	0	51	1.00
3539211--3539258	25	1.9	25	83	8	62	37	10	16	35	1.83
3545016--3545089	20	3.7	20	73	10	62	39	25	17	17	1.91
3545126--3545190	23	2.8	23	97	0	121	21	20	20	38	1.94
3545135--3545198	23	2.4	27	73	26	73	21	20	17	40	1.91
3546879--3546929	21	2.3	23	80	6	61	27	1	11	58	1.44
3550612--3550674	27	2.3	27	81	5	74	49	25	4	20	1.68
3554736--3554808	2	37.0	2	91	2	121	47	1	0	50	1.09
3555465--3555501	13	2.8	13	100	0	74	37	21	8	32	1.83
3555541--3555609	30	2.3	30	92	0	111	39	13	13	34	1.83
3555792--3555828	2	18.5	2	100	0	74	48	0	0	51	1.00
3558131--3558175	18	2.5	18	100	0	90	4	31	15	48	1.65
3562124--3562164	15	2.7	15	88	3	55	7	21	4	65	1.37
3585781--3585831	22	2.3	23	79	3	59	5	39	5	49	1.51
3587119--3587195	31	2.5	31	84	2	91	35	12	20	31	1.91
3590158--3590191	17	2.1	16	88	5	50	14	8	0	76	1.01
3594813--3595250	219	2.0	219	98	1	844	28	17	21	32	1.96
3596733--3596776	20	2.2	20	84	8	54	18	15	0	65	1.27
3598916--3598944	12	2.3	13	94	5	51	86	0	0	13	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3603773--3603833	27	2.2	27	82	8	70	32	8	22	36	1.84
3604049--3604170	23	5.3	23	82	3	140	26	22	22	29	1.99
3615124--3615434	43	7.3	43	89	2	432	17	25	24	33	1.96
3615124--3615457	85	3.9	86	86	2	451	17	25	24	33	1.96
3615124--3615438	128	2.5	128	92	0	504	17	25	24	32	1.97
3622795--3622946	27	5.6	27	77	6	173	34	23	21	21	1.97
3622795--3622959	54	3.1	54	88	0	258	34	21	21	21	1.97
3634157--3634192	18	2.0	18	94	0	63	25	22	27	25	2.00
3635871--3635904	17	1.9	17	88	5	50	58	8	5	26	1.51
3637003--3637068	2	33.0	2	100	0	132	50	0	0	50	1.00

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