genome.fa.s7832.2.7.7.80.10.50.1000.19.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  19  of  21  ( 2482 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)
3549417--3549473	14	3.7	14	75	20	60	43	22	24	8	1.81
3549409--3549490	33	2.5	33	95	0	146	47	21	21	8	1.77
3549368--3549495	19	7.1	19	68	22	69	46	20	21	11	1.82
3549507--3549563	14	3.7	14	75	20	60	8	24	22	43	1.81
3549491--3549612	33	3.5	33	87	10	163	10	24	18	45	1.81
3549548--3549612	21	3.1	21	82	4	96	10	26	15	47	1.78
3551297--3551612	93	3.4	93	98	0	605	22	13	18	45	1.84
3551745--3551912	19	9.3	19	76	13	149	10	19	23	46	1.81
3551762--3551818	14	3.7	14	75	20	51	10	22	22	43	1.84
3551745--3551837	33	2.8	33	93	0	159	11	20	21	46	1.82
3551745--3551912	33	4.7	38	81	7	158	10	19	23	46	1.81
3553822--3553857	14	2.6	14	95	0	63	33	0	22	44	1.53
3553964--3554079	53	2.2	53	93	4	200	43	17	25	14	1.87
3553964--3554061	19	5.4	19	83	14	127	44	16	23	15	1.85
3554071--3554364	72	4.2	70	76	14	275	14	21	18	45	1.85
3554076--3554345	105	2.6	109	90	7	416	14	21	17	46	1.83
3554076--3554345	53	5.1	52	89	8	397	14	21	17	46	1.83
3556823--3556869	24	2.0	24	87	8	69	38	21	14	25	1.92
3557562--3557653	20	4.6	20	84	0	121	20	16	22	40	1.91
3557562--3557790	40	5.7	40	84	6	232	19	17	25	36	1.94
3557581--3557771	20	9.6	19	85	2	184	19	18	26	35	1.95
3557739--3557790	20	2.6	20	87	6	70	11	19	26	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3557562--3557790	60	3.8	60	82	2	246	19	17	25	36	1.94
3557758--3557855	21	4.8	20	75	10	81	21	19	21	37	1.94
3557758--3557856	42	2.4	43	77	11	100	21	19	22	37	1.94
3561333--3561375	16	2.7	16	88	0	68	27	32	18	20	1.96
3568323--3568405	21	3.9	21	77	10	80	26	33	22	16	1.96
3570647--3570680	12	2.8	12	95	0	59	23	0	23	52	1.47
3571968--3572044	15	5.3	15	70	17	63	54	2	1	41	1.22
3571971--3572059	43	2.1	43	91	2	144	52	2	2	42	1.26
3572084--3572121	20	1.9	20	94	0	67	36	5	2	55	1.37
3578035--3578068	9	3.7	9	84	7	50	17	5	0	76	0.98
3580321--3580364	22	2.0	22	95	4	81	68	13	0	18	1.22
3585135--3585159	12	2.1	12	100	0	50	32	0	8	60	1.26
3595029--3595481	43	10.7	43	83	3	521	32	19	22	24	1.97
3600076--3600502	41	10.4	41	81	3	428	35	18	18	27	1.94
3600485--3600570	42	2.0	43	84	11	113	26	18	18	36	1.94
3602307--3602356	20	2.5	20	90	0	73	26	16	30	28	1.96
3602156--3602465	147	2.1	147	96	0	566	29	15	22	32	1.95
3602454--3602508	20	2.5	22	82	8	69	18	21	34	25	1.96
3603018--3603058	21	2.0	21	90	0	64	21	19	29	29	1.98
3603083--3603151	22	3.2	21	70	12	59	26	15	24	33	1.95
3609347--3609392	23	2.0	23	87	8	67	19	17	34	28	1.94
3609928--3609977	21	2.4	21	83	6	66	22	14	30	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3611212--3611256	17	2.5	19	85	7	58	40	0	4	55	1.20
3612115--3612277	87	1.9	87	96	0	299	41	10	15	33	1.81
3612793--3613878	200	5.4	200	96	0	1992	30	18	14	36	1.91
3614100--3614158	19	3.2	18	87	2	55	52	11	1	33	1.48
3614112--3614158	19	2.5	19	96	0	85	55	10	2	31	1.46
3615726--3615766	21	2.0	21	90	0	64	2	41	0	56	1.13
3615950--3616015	33	2.0	33	90	0	105	22	48	0	28	1.51
3616049--3616113	21	3.1	21	93	0	103	16	30	10	41	1.83
3618332--3618378	20	2.4	19	79	10	58	21	17	8	53	1.70
3618512--3618558	20	2.4	19	82	10	67	19	17	10	53	1.72
3618299--3618770	182	2.6	181	91	0	721	27	17	13	42	1.86
3618299--3618772	180	2.6	180	90	1	714	27	17	13	41	1.86
3629742--3629823	9	9.9	8	75	19	62	60	0	0	39	0.96
3629730--3629813	33	2.5	34	94	1	143	60	0	0	39	0.97
3629750--3629811	7	8.9	7	75	5	54	64	0	0	35	0.94
3636962--3637069	8	13.2	8	83	3	126	37	29	0	31	1.64
3637551--3637701	59	2.5	60	88	1	214	26	25	14	33	1.94
3639542--3639577	18	1.9	19	94	5	65	61	5	5	27	1.41
3641638--3641665	14	2.0	14	100	0	56	57	7	0	35	1.26
3641961--3642009	21	2.3	21	100	0	98	16	0	46	36	1.47
3643351--3643384	12	2.8	12	95	4	59	26	0	2	70	1.01
3643641--3643735	30	3.2	30	78	12	106	35	8	0	55	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3643765--3643863	29	3.3	29	76	5	99	39	11	0	49	1.38
3648072--3648144	30	2.4	30	95	0	128	30	24	20	24	1.99
3648118--3648211	31	3.1	30	72	4	80	31	22	18	27	1.97
3649299--3649419	64	1.9	63	84	6	163	26	21	19	33	1.97
3649298--3649440	63	2.2	64	80	7	166	25	23	18	32	1.97
3652839--3652941	30	3.4	30	97	0	188	31	24	20	24	1.98
3652839--3652964	60	2.1	61	87	1	182	32	24	19	23	1.98
3654111--3654230	64	1.9	63	85	1	168	25	22	19	33	1.97
3656662--3656704	19	2.3	19	80	8	52	37	2	0	60	1.10
3656663--3656701	20	2.1	19	86	13	55	35	2	0	61	1.10
3676731--3676767	3	12.7	3	94	5	67	35	0	0	64	0.94
3677867--3677913	20	2.4	19	80	16	51	25	2	14	57	1.49
3680623--3680682	29	2.1	30	90	9	99	13	13	11	61	1.57
3682755--3682802	22	2.3	20	82	10	60	77	10	12	0	1.00
3682756--3682814	18	3.5	17	77	13	59	72	11	15	0	1.11
3683973--3684007	4	9.2	4	87	12	56	51	25	0	22	1.48
3683969--3684007	18	2.2	18	100	0	78	51	25	0	23	1.49
3683977--3684005	14	2.1	14	100	0	58	51	27	0	20	1.47
3684457--3684694	105	2.3	101	82	7	275	31	19	12	37	1.88
3684640--3684723	35	2.4	35	82	6	98	30	20	11	36	1.89
3684656--3684754	35	2.9	35	79	7	96	32	19	10	38	1.85
3684994--3685124	27	4.7	27	93	4	208	26	12	14	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3685174--3685276	52	2.0	53	94	1	181	33	13	16	36	1.88
3685227--3685492	98	2.8	98	90	6	395	33	11	13	41	1.80
3685409--3685534	37	3.6	36	69	23	101	30	11	11	46	1.76
3685377--3685545	67	2.5	67	93	3	279	30	12	11	45	1.77
3685390--3685609	67	3.3	65	85	5	210	31	12	11	44	1.78
3685649--3685873	120	1.9	121	79	8	262	30	14	12	43	1.81
3685770--3685893	66	1.9	65	88	1	185	28	14	12	45	1.81
3685782--3685939	66	2.4	65	80	9	160	31	16	10	41	1.82
3686013--3686059	19	2.9	16	82	17	53	29	25	6	38	1.81
3686112--3686335	101	2.2	101	98	0	430	33	14	12	39	1.83
3686431--3686526	35	2.7	35	96	3	176	33	22	10	33	1.88
3686798--3686851	28	1.9	28	84	0	72	22	18	16	42	1.89
3686880--3687156	40	6.4	45	72	16	176	23	30	19	26	1.98
3686864--3687130	128	2.1	129	97	0	500	23	31	19	24	1.98
3687324--3687375	3	18.3	3	76	11	56	30	1	3	63	1.23
3689665--3689708	22	2.0	22	81	0	52	27	4	15	52	1.63
3692732--3692782	21	2.4	21	100	0	102	33	31	19	15	1.93
3695036--3695082	21	2.1	23	88	7	71	76	0	6	17	0.98
3695052--3695082	15	2.1	14	94	5	53	83	0	3	12	0.75
3696998--3697027	2	15.5	2	93	6	53	50	0	0	50	1.00
3700586--3700614	15	2.0	15	93	6	51	6	27	20	44	1.77
3710834--3710868	2	17.5	2	100	0	70	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710961--3711006	2	23.5	2	95	4	85	50	0	0	50	1.00
3715437--3715514	34	2.3	34	95	2	140	32	19	33	15	1.93
3717043--3717080	21	1.9	20	89	10	60	39	31	10	18	1.85
3717110--3717174	2	35.5	2	78	17	61	55	0	0	44	0.99
3717073--3717156	34	2.5	33	94	1	141	58	0	1	40	1.06
3717073--3717175	34	3.1	33	87	5	136	57	0	0	41	1.05
3723677--3723708	15	2.1	16	94	5	57	59	0	34	6	1.23
3736721--3736858	21	6.7	21	70	6	68	36	25	17	20	1.94
3736826--3737054	20	11.4	20	81	5	230	37	25	17	19	1.94
3737748--3737792	23	2.0	23	86	8	65	26	15	22	35	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21