genome.fa.s7823.2.7.7.80.10.50.1000.20.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  20  of  33  ( 3920 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)
3693352--3693411	17	3.2	19	81	13	70	43	0	31	25	1.55
3693329--3693430	46	2.2	47	81	10	120	43	0	30	26	1.55
3693642--3693681	21	1.9	21	94	0	71	47	27	0	25	1.52
3693683--3693764	20	4.2	20	80	12	89	48	7	4	39	1.52
3693699--3693750	2	25.0	2	80	7	59	48	5	1	44	1.38
3693923--3693973	2	24.5	2	84	7	66	45	3	1	49	1.32
3693866--3694053	93	2.0	94	89	3	290	44	4	3	47	1.40
3694009--3694191	13	13.1	14	66	19	73	43	4	4	46	1.46
3694024--3694208	80	2.4	79	88	3	275	43	4	4	47	1.44
3694076--3694234	18	8.2	18	72	18	90	44	2	4	49	1.36
3696171--3696196	11	2.4	11	100	0	52	0	0	7	92	0.39
3702574--3702640	34	1.9	34	82	14	84	20	11	19	47	1.81
3714202--3714243	17	2.5	17	100	0	84	9	23	52	14	1.71
3722241--3722283	23	1.9	22	90	4	68	25	0	2	72	0.97
3722241--3722282	11	3.7	11	84	6	57	26	0	2	71	0.98
3723053--3723251	41	4.8	41	71	9	118	33	19	15	31	1.93
3725510--3725664	77	2.0	75	97	2	292	30	10	10	49	1.70
3732938--3733019	40	2.0	40	97	0	155	23	15	26	34	1.95
3733124--3733247	45	2.8	45	91	3	189	40	8	23	28	1.83
3736555--3736612	29	2.0	30	86	3	82	43	8	24	24	1.82
3738049--3738131	21	4.0	21	81	6	96	16	28	33	20	1.95
3739424--3740128	118	6.0	118	82	2	794	25	22	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3739570--3740128	233	2.4	234	83	3	703	26	22	14	36	1.93
3741368--3741691	54	6.0	54	79	5	350	40	18	9	30	1.83
3741368--3741691	108	3.0	107	88	2	452	40	18	9	30	1.83
3741368--3741691	162	2.0	162	83	4	404	40	18	9	30	1.83
3742956--3743011	28	2.0	28	93	6	96	25	3	33	37	1.73
3743761--3743802	13	3.2	13	79	0	57	0	33	0	66	0.92
3747638--3747671	17	2.0	17	88	0	50	14	20	32	32	1.93
3750113--3750212	24	4.2	24	86	10	141	24	16	21	39	1.92
3751145--3751197	16	3.2	16	78	5	61	41	24	1	32	1.66
3751145--3751208	34	1.9	32	84	12	85	42	25	1	31	1.64
3751527--3751595	23	3.0	23	89	0	102	26	26	27	20	1.99
3751611--3751823	103	2.1	103	92	1	365	36	23	13	26	1.92
3752639--3752684	20	2.3	20	96	0	83	21	30	2	45	1.64
3756723--3756786	23	2.8	23	90	0	92	31	26	23	18	1.98
3756802--3757014	103	2.1	103	95	0	381	36	23	14	25	1.93
3757831--3757876	20	2.3	20	92	0	74	21	28	2	47	1.62
3760190--3760249	29	2.1	28	81	9	68	46	8	21	23	1.78
3760406--3760438	16	2.0	17	88	5	50	54	6	3	36	1.41
3763841--3763876	6	5.8	6	90	3	54	63	0	2	33	1.08
3766895--3766941	24	1.9	25	91	4	78	38	17	21	23	1.93
3769443--3769560	20	5.9	20	84	0	146	26	23	22	27	2.00
3769443--3769560	40	2.9	39	88	2	164	26	23	22	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3769735--3769777	22	2.0	22	85	0	59	23	37	16	23	1.94
3770163--3770230	20	3.5	20	87	2	102	11	16	22	50	1.77
3770876--3770928	20	2.7	20	90	0	79	16	18	26	37	1.93
3770896--3770951	20	2.8	20	91	0	85	10	16	23	50	1.76
3770915--3770958	20	2.2	20	91	0	70	11	13	20	54	1.69
3771092--3771146	25	2.2	26	78	15	62	18	10	18	52	1.73
3770175--3771593	721	2.0	721	97	0	2714	28	17	20	34	1.95
3772860--3772947	20	4.4	20	92	0	140	37	25	19	18	1.94
3772991--3773056	20	3.4	19	77	8	71	18	15	27	39	1.90
3773546--3773651	21	5.1	20	69	12	70	20	35	19	23	1.96
3773542--3773650	42	2.6	43	75	13	111	20	36	20	22	1.95
3775057--3775095	14	2.8	14	92	0	60	38	0	15	46	1.46
3775058--3775117	14	4.2	14	79	12	59	36	0	15	48	1.45
3775220--3775269	20	2.5	20	86	0	64	48	24	16	12	1.79
3775232--3775270	20	2.0	20	94	0	69	48	23	20	7	1.75
3775313--3775577	20	13.9	20	76	10	259	26	18	22	32	1.97
3775284--3775495	94	2.3	94	87	0	298	25	20	21	33	1.97
3775333--3775475	74	1.9	74	85	2	198	25	20	23	31	1.98
3775313--3775577	114	2.3	114	85	5	356	26	18	22	32	1.97
3775376--3775569	54	3.5	54	80	10	221	24	18	23	33	1.97
3775548--3775817	140	1.9	140	96	0	495	42	15	14	28	1.85
3775877--3775911	18	1.9	18	94	0	61	17	2	25	54	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3777948--3777984	14	2.6	14	91	4	56	5	21	21	51	1.68
3778174--3778227	24	2.2	24	86	0	72	40	18	18	22	1.91
3779059--3779155	20	4.8	20	98	0	185	25	20	15	38	1.92
3780405--3780452	21	2.3	22	78	10	64	75	0	0	25	0.81
3780404--3780454	11	3.9	13	75	25	54	72	0	0	27	0.85
3781099--3781288	64	3.0	64	79	11	167	31	23	18	26	1.97
3781129--3781288	65	2.5	63	84	6	196	31	23	18	26	1.98
3781260--3781308	19	2.6	19	84	9	57	24	28	20	26	1.99
3782009--3782598	84	7.0	84	84	3	657	24	18	24	32	1.97
3782009--3782598	168	3.5	168	86	0	752	24	18	24	32	1.97
3782033--3782598	252	2.2	252	84	1	742	24	18	24	32	1.97
3782616--3782723	32	3.3	31	73	10	108	20	17	30	31	1.96
3782640--3782757	34	3.5	34	77	9	143	18	19	28	33	1.96
3782616--3782761	66	2.2	67	92	3	251	20	18	29	31	1.96
3782674--3782971	124	2.4	123	94	1	524	23	18	27	30	1.98
3785986--3786029	20	2.2	20	83	4	52	65	0	13	20	1.26
3787103--3787195	39	2.4	39	78	7	93	75	2	5	17	1.09
3788336--3788361	3	8.7	3	100	0	52	69	0	0	30	0.89
3789195--3789266	2	36.5	2	78	13	69	51	1	1	45	1.18
3791916--3791973	30	1.9	30	92	0	98	36	5	8	50	1.56
3791919--3791973	14	3.7	15	72	11	51	34	5	9	50	1.57
3792382--3792568	93	2.0	94	82	2	225	35	9	16	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3792475--3792631	65	2.4	65	82	3	181	35	8	16	39	1.80
3792330--3792870	159	3.5	151	84	9	665	37	7	14	40	1.74
3792765--3792818	26	2.0	27	89	3	83	31	5	20	42	1.75
3792748--3793181	81	5.1	80	76	16	379	37	7	14	40	1.75
3792835--3793232	94	4.4	94	82	10	529	35	7	15	41	1.75
3793748--3793919	53	3.3	52	68	11	154	23	19	16	40	1.91
3793754--3793981	103	2.2	103	91	0	366	24	17	15	42	1.87
3795817--3795885	20	3.2	20	67	21	59	27	4	49	18	1.67
3795794--3795891	44	2.2	44	98	0	187	26	4	50	19	1.66
3797383--3797438	21	2.7	21	94	0	94	25	25	26	23	2.00
3797406--3797464	29	2.0	29	96	0	109	27	25	22	25	2.00
3797861--3797900	21	1.9	21	94	0	71	50	7	10	32	1.64
3800951--3801018	20	3.4	20	93	4	111	19	23	41	16	1.90
3801045--3801103	23	2.7	22	87	10	77	20	18	38	22	1.93
3802149--3802616	244	1.9	243	92	1	794	27	20	20	32	1.97
3803193--3803220	8	3.5	8	100	0	56	35	0	25	39	1.56
3811260--3811314	22	2.4	24	78	12	69	20	18	12	49	1.79
3818678--3818741	20	3.3	19	81	18	69	42	6	6	45	1.54
3818882--3819116	121	1.9	120	80	10	273	39	22	16	22	1.92
3818884--3819116	20	11.6	19	81	11	204	39	22	16	21	1.92
3819276--3819326	22	2.3	22	93	6	86	21	45	13	19	1.85
3821840--3821938	21	4.7	21	78	9	103	23	34	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3821840--3821938	42	2.4	42	79	6	119	23	34	20	22	1.97
3823551--3823606	20	2.8	20	75	0	67	39	19	17	23	1.92
3823922--3823956	6	5.8	6	86	0	52	17	2	20	60	1.49
3823915--3823955	18	2.3	18	95	0	73	19	2	21	56	1.54
3830775--3830808	18	1.9	17	88	5	50	67	5	0	26	1.13
3831968--3832013	2	23.0	2	100	0	92	50	0	0	50	1.00
3837951--3837996	2	23.0	2	100	0	92	50	0	0	50	1.00
3842630--3842709	42	1.9	41	85	7	108	33	16	18	31	1.93
3843802--3843868	34	2.0	34	85	5	91	34	14	26	23	1.94
3847140--3847172	17	1.9	17	100	0	66	30	3	30	36	1.73

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