genome.fa.s9587.2.7.7.80.10.50.1000.17.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  17  of  29  ( 3457 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)
3773677--3773719	18	2.3	19	88	11	63	32	23	27	16	1.96
3773730--3773765	19	1.9	19	88	5	56	16	25	47	11	1.79
3778556--3778715	65	2.5	64	84	3	205	33	20	16	30	1.95
3784493--3784573	23	3.6	23	91	1	119	24	29	23	22	1.99
3784976--3785009	18	1.9	17	88	5	50	23	2	14	58	1.50
3786263--3786287	13	1.9	13	100	0	50	40	0	16	44	1.47
3786795--3786832	20	1.9	20	94	0	67	31	34	15	18	1.92
3786851--3786912	28	2.2	28	88	5	90	29	22	17	30	1.97
3793029--3793088	23	2.6	23	86	0	75	15	18	43	23	1.87
3793834--3793871	19	2.0	20	89	5	60	15	13	0	71	1.16
3793818--3793887	26	2.8	25	80	8	88	17	8	1	72	1.16
3793949--3794062	5	22.4	5	71	16	60	16	5	2	75	1.10
3793865--3794020	40	3.9	39	72	18	101	17	3	5	73	1.16
3793949--3794026	24	3.4	21	76	15	68	15	5	2	76	1.06
3793863--3794027	12	14.4	11	65	10	53	16	4	4	74	1.15
3793958--3794027	32	2.1	32	84	7	86	14	5	2	77	1.07
3793822--3794063	9	26.7	9	66	20	89	17	5	3	73	1.18
3793912--3794067	41	3.8	39	75	18	115	17	5	3	73	1.18
3799676--3799723	15	3.2	15	84	0	60	10	12	66	10	1.44
3805694--3806193	249	2.0	252	86	2	695	43	14	10	31	1.79
3806746--3806773	11	2.5	11	100	0	56	64	7	0	28	1.20
3811569--3811627	23	2.6	23	86	0	73	42	25	10	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3811781--3811823	15	2.8	15	82	3	50	32	18	13	34	1.90
3812493--3812564	20	3.6	19	81	12	74	30	23	12	33	1.92
3812514--3812570	21	2.8	21	82	12	73	31	22	10	35	1.88
3815384--3815454	23	3.1	23	87	0	106	36	28	16	18	1.93
3815595--3815637	15	2.8	16	82	3	52	32	18	13	34	1.90
3818596--3818624	2	14.5	2	100	0	58	48	0	0	51	1.00
3822452--3822492	13	3.2	13	83	13	57	2	19	0	78	0.87
3822459--3822506	21	2.3	21	79	13	55	6	14	0	79	0.92
3832406--3832476	4	18.8	4	76	21	73	69	0	1	29	0.98
3832397--3832488	26	3.5	25	75	18	89	68	0	1	30	0.97
3832413--3832489	26	2.7	29	84	11	97	68	0	0	31	0.90
3832416--3832484	33	2.1	33	84	10	88	68	0	0	31	0.90
3832501--3832552	20	2.5	21	82	11	72	44	1	1	51	1.23
3832500--3832549	22	2.3	22	85	0	73	46	2	2	50	1.24
3832583--3832682	2	50.5	2	97	2	193	49	0	0	51	1.00
3832679--3832705	13	2.1	13	100	0	54	40	7	7	44	1.60
3832670--3832933	37	7.1	37	77	12	206	42	10	3	44	1.53
3836329--3836402	24	3.1	24	92	3	114	35	27	14	22	1.94
3841605--3841631	13	2.1	13	100	0	54	40	0	14	44	1.46
3841603--3841699	37	2.6	38	79	8	110	43	4	11	41	1.60
3841703--3841746	2	22.0	2	100	0	88	50	0	0	50	1.00
3841822--3841881	9	6.7	9	85	12	70	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3841801--3841880	12	6.8	12	74	16	69	30	0	1	68	0.97
3841828--3841880	26	2.0	27	89	7	83	30	0	0	69	0.88
3841811--3841882	14	5.3	14	80	12	71	27	0	1	70	0.95
3842981--3843013	15	2.2	15	100	0	66	24	6	0	69	1.10
3843858--3843946	24	3.7	23	82	11	65	4	15	2	77	1.03
3843850--3843988	18	7.8	18	81	9	117	5	14	2	76	1.08
3843887--3843962	6	12.7	6	94	0	116	0	15	5	78	0.91
3843833--3844003	26	6.4	27	72	17	85	6	16	2	74	1.12
3843955--3844009	18	3.1	18	75	17	51	9	18	0	72	1.10
3849150--3849188	21	1.9	20	85	15	53	17	12	28	41	1.87
3849948--3850008	19	3.2	19	85	0	86	4	42	8	44	1.55
3849954--3850013	9	6.4	9	77	7	57	3	43	10	43	1.54
3851915--3851939	2	12.5	2	100	0	50	52	0	0	48	1.00
3861826--3861866	3	14.0	3	85	14	59	31	0	0	68	0.90
3861830--3861866	19	2.0	18	94	5	65	32	0	0	67	0.91
3861904--3861963	11	5.6	10	86	9	75	41	41	16	0	1.48
3861907--3861948	11	3.9	11	96	3	77	38	42	19	0	1.51
3866931--3867010	26	3.3	25	70	19	80	26	25	8	40	1.84
3868854--3868934	4	20.8	4	79	5	94	49	23	1	25	1.58
3869491--3869724	105	2.3	102	82	6	276	30	18	12	38	1.88
3869692--3869759	36	1.9	36	87	3	102	33	22	10	33	1.88
3870042--3870138	29	3.5	29	83	6	121	28	10	16	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3870149--3870253	52	2.0	54	90	3	169	33	13	17	36	1.88
3870238--3870378	75	1.9	75	94	2	248	35	10	10	43	1.74
3870315--3870444	66	2.0	67	79	1	145	27	13	12	46	1.79
3870626--3870750	64	2.0	62	87	3	178	30	14	12	43	1.82
3870732--3870811	40	2.0	40	85	4	108	31	17	11	40	1.85
3871220--3871294	35	2.1	36	85	7	100	36	20	12	32	1.89
3871582--3871635	28	1.9	28	85	7	74	22	16	16	44	1.86
3871647--3871989	40	7.9	43	72	11	209	27	30	18	23	1.98
3871647--3871989	129	2.7	129	97	0	632	27	30	18	23	1.98
3872190--3872230	3	14.0	3	85	14	59	31	0	0	68	0.90
3872194--3872230	19	2.0	18	94	5	65	32	0	0	67	0.91
3872268--3872327	11	5.6	10	86	9	75	41	41	16	0	1.48
3872271--3872312	11	3.9	11	96	3	77	38	42	19	0	1.51
3876341--3876374	14	2.3	15	90	5	52	47	2	0	50	1.16
3876387--3876470	29	2.9	30	81	12	104	53	2	1	42	1.21
3882021--3882061	19	2.2	19	91	4	66	26	17	9	46	1.79
3882907--3882954	20	2.4	20	78	0	51	18	20	29	31	1.97
3883932--3883958	11	2.5	11	100	0	54	51	0	0	48	1.00
3886855--3886884	6	4.8	6	95	4	51	46	20	16	16	1.84
3889205--3889240	13	2.8	13	91	8	56	77	0	11	11	0.99
3889440--3889466	3	9.0	3	100	0	54	66	0	0	33	0.92
3890310--3890380	33	2.2	33	84	5	90	14	12	2	70	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3891166--3891226	15	4.1	14	78	17	61	78	3	1	16	0.96
3891175--3891202	11	2.5	11	100	0	56	82	7	0	10	0.85
3891173--3891234	4	16.2	4	80	15	62	77	3	1	17	0.98
3895583--3895656	37	2.0	37	97	2	141	52	21	17	8	1.70
3896957--3896994	2	19.0	2	89	10	60	50	0	2	47	1.15
3902973--3903034	32	1.9	32	90	0	97	40	16	22	20	1.91
3904208--3904300	36	2.9	30	77	20	98	36	27	19	16	1.93
3904234--3904365	36	3.7	36	85	6	169	37	24	19	18	1.94
3904234--3904397	36	4.6	36	82	8	167	37	23	19	20	1.94
3904776--3905571	51	15.5	51	85	6	921	32	18	24	23	1.97
3904776--3905530	309	2.4	305	89	3	1143	32	19	25	23	1.97
3905533--3905981	108	4.2	108	90	2	701	29	13	28	28	1.94
3905551--3905973	53	7.9	53	91	2	686	29	13	28	27	1.94
3905533--3905973	161	2.8	160	98	0	837	29	13	28	28	1.94
3907127--3907199	36	2.0	36	100	0	146	52	21	17	8	1.71
3908482--3908540	2	31.0	2	83	16	81	47	0	1	50	1.11
3908482--3908540	15	4.0	15	89	8	86	47	0	1	50	1.11
3908482--3908540	19	3.5	17	84	13	77	47	0	1	50	1.11
3912134--3912186	14	3.8	14	100	0	106	49	0	28	22	1.50
3912267--3912384	59	2.1	56	84	10	150	47	9	0	42	1.41
3918109--3918161	26	2.0	26	92	0	88	33	18	3	43	1.68
3920419--3920479	6	10.2	6	96	0	95	29	49	16	4	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3920477--3920525	5	9.8	5	93	0	62	16	36	40	6	1.73
3925629--3925822	98	2.0	96	95	4	354	32	14	20	31	1.93
3926213--3926279	6	11.2	6	95	0	107	29	50	16	2	1.60
3926277--3926325	5	9.8	5	93	0	62	16	36	40	6	1.73
3927964--3928065	51	2.0	51	100	0	204	41	13	9	35	1.78
3928553--3928595	21	2.0	21	100	0	86	41	9	13	34	1.77
3930127--3930324	99	2.0	99	100	0	396	35	6	12	46	1.66
3931773--3931832	11	5.5	11	74	22	56	35	0	0	65	0.93
3931860--3931979	23	5.3	23	76	9	120	25	1	21	50	1.58
3931860--3932007	23	6.8	22	70	18	87	26	2	20	51	1.58

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