genome.fa.s8824.2.7.7.80.10.50.1000.16.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

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

This is table  16  of  19  ( 2203 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)
3628037--3628171	71	1.9	71	82	0	171	29	18	16	35	1.93
3629645--3630079	217	2.0	218	99	0	863	32	12	15	39	1.86
3634233--3634265	15	2.1	16	88	5	50	57	12	15	15	1.65
3635158--3635222	20	3.3	19	82	4	67	29	29	13	27	1.95
3635256--3635314	22	2.8	21	80	12	75	33	23	11	30	1.91
3637776--3637822	7	6.6	7	90	4	76	0	23	0	76	0.78
3637777--3637828	21	2.4	22	84	9	63	0	25	0	75	0.81
3637813--3637872	25	2.4	25	88	5	86	10	16	0	73	1.09
3637838--3637901	18	3.6	18	76	17	62	10	17	0	71	1.13
3647625--3647676	21	2.5	21	81	6	61	23	13	21	42	1.88
3647637--3647676	21	1.9	21	89	0	62	25	10	22	42	1.84
3650554--3650593	21	1.9	21	84	0	53	27	17	17	37	1.92
3655988--3656187	95	2.1	94	85	2	276	38	12	22	27	1.90
3656604--3657099	81	6.1	81	91	0	787	34	11	22	30	1.90
3663200--3663400	95	2.1	95	82	3	253	39	11	21	27	1.88
3663366--3663420	22	2.6	21	86	8	76	34	14	23	27	1.94
3663818--3664315	81	6.1	80	85	1	645	36	11	21	31	1.88
3676643--3676742	35	2.7	35	86	6	119	38	15	16	31	1.89
3677033--3677089	24	2.4	24	77	14	64	19	5	3	71	1.19
3677072--3677166	40	2.5	37	76	15	95	30	2	2	65	1.16
3677080--3677204	42	3.2	40	76	19	113	28	2	1	67	1.13
3677161--3677229	21	3.3	20	75	15	59	20	2	1	75	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3677080--3677209	36	3.4	37	77	15	115	28	2	1	67	1.12
3677160--3677298	23	6.4	21	72	15	79	17	7	1	73	1.13
3677155--3677325	5	34.0	5	66	18	52	18	7	1	72	1.16
3677164--3677287	43	2.9	41	81	9	131	18	7	1	72	1.16
3677341--3677370	15	2.0	15	100	0	60	20	20	0	60	1.37
3680353--3680421	8	8.5	8	77	13	61	82	2	11	2	0.88
3680359--3680405	20	2.5	19	83	10	62	82	4	12	0	0.80
3681025--3681075	22	2.3	22	96	0	93	35	27	11	25	1.91
3681906--3682021	36	3.1	36	85	9	162	27	23	12	36	1.91
3682044--3682114	37	1.9	37	88	0	106	23	21	12	42	1.87
3681926--3682317	102	3.9	102	94	0	660	29	20	12	37	1.90
3682130--3682216	37	2.4	37	86	5	115	25	21	13	39	1.90
3681926--3682384	204	2.2	203	89	1	675	29	21	12	36	1.90
3682231--3682317	36	2.4	36	86	0	111	26	21	12	39	1.89
3682259--3682396	67	2.1	67	92	0	231	30	21	13	34	1.91
3682277--3682449	67	2.6	67	85	5	181	34	20	10	34	1.88
3682547--3682642	36	2.6	36	83	4	113	26	17	15	40	1.89
3682601--3682758	67	2.4	67	85	5	196	32	21	8	37	1.83
3682592--3682758	65	2.5	65	83	4	192	31	21	8	38	1.83
3683378--3684153	105	7.3	105	83	5	821	32	25	19	23	1.97
3684614--3684712	36	2.8	34	84	7	108	38	15	15	31	1.88
3685001--3685071	24	2.9	24	72	19	65	23	4	4	67	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3685121--3685224	8	12.1	8	76	20	79	14	2	0	81	0.85
3685135--3685229	6	15.7	6	76	18	65	14	2	1	82	0.83
3685121--3685229	7	15.1	7	75	15	66	14	2	0	81	0.85
3685121--3685270	25	5.5	26	72	20	103	15	6	0	78	0.99
3685134--3685178	20	2.2	21	80	15	58	22	2	0	75	0.91
3685076--3685180	35	3.0	35	78	10	108	27	2	0	68	1.10
3685099--3685180	35	2.4	34	85	6	112	26	2	0	70	0.99
3685175--3685229	1	55.0	1	77	0	56	7	1	1	89	0.63
3685126--3685230	14	7.5	13	76	12	84	15	1	0	81	0.82
3685126--3685292	28	5.9	27	71	14	99	15	5	1	77	1.03
3685313--3685342	15	2.0	15	100	0	60	20	20	0	60	1.37
3690801--3690860	16	3.2	20	75	15	58	0	5	16	78	0.92
3692568--3692874	153	2.0	153	100	0	614	25	13	22	39	1.90
3698852--3698876	2	12.5	2	100	0	50	0	52	0	48	1.00
3705107--3705138	9	3.6	9	95	0	55	53	9	0	37	1.34
3706083--3706173	3	30.3	3	100	0	182	67	0	32	0	0.91
3706146--3706343	105	1.9	105	82	2	254	52	9	22	16	1.72
3706862--3707239	104	3.6	104	80	12	407	40	14	8	37	1.75
3707032--3707364	123	2.8	118	81	12	384	40	14	8	37	1.76
3709661--3709685	3	8.3	3	100	0	50	32	32	0	36	1.58
3710095--3710146	25	2.0	26	81	3	61	44	3	0	51	1.19
3712952--3713000	24	2.0	24	88	0	71	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3714511--3714586	33	2.5	32	79	12	88	43	0	0	56	0.99
3714496--3714583	33	2.7	30	79	10	86	42	0	1	56	1.06
3716361--3716401	21	2.0	21	100	0	82	19	34	19	26	1.96
3716365--3716420	21	2.7	21	86	5	69	21	33	17	26	1.96
3716945--3717017	34	2.1	34	97	0	137	52	6	5	35	1.52
3717125--3717155	14	2.2	14	100	0	62	58	16	0	25	1.38
3717221--3717348	63	2.0	63	92	0	211	35	23	0	39	1.60
3717478--3718338	127	6.7	126	84	7	1021	33	22	21	21	1.97
3721443--3721490	22	2.1	23	88	3	71	47	0	0	52	1.00
3726456--3726574	20	5.8	20	76	13	75	31	17	19	31	1.95
3726517--3726570	20	2.7	20	97	0	99	40	18	20	20	1.91
3726709--3726766	22	2.6	22	94	0	98	17	41	20	20	1.90
3727144--3727243	20	5.3	20	72	13	79	19	18	24	39	1.92
3727144--3727260	20	6.2	19	73	13	73	18	17	23	40	1.91
3727212--3727270	20	3.0	20	82	5	57	20	15	23	40	1.90
3727144--3727282	73	1.9	73	85	2	190	21	15	21	41	1.90
3729119--3729181	33	1.9	33	86	0	90	49	19	17	14	1.80
3729202--3729288	40	2.3	39	84	11	112	17	22	25	34	1.96
3729220--3729288	20	3.5	20	88	7	104	17	21	26	34	1.95
3729275--3729317	19	2.2	20	91	4	70	13	13	23	48	1.79
3729823--3729914	42	2.2	42	82	7	107	22	34	18	23	1.96
3729845--3729914	21	3.3	21	71	11	63	22	34	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3731300--3731347	15	3.3	14	77	8	51	37	0	14	47	1.44
3731508--3731629	34	3.4	34	72	12	100	24	18	19	36	1.94
3731544--3731726	20	9.8	20	72	13	138	25	18	20	35	1.95
3731493--3731664	74	2.3	74	84	1	229	25	19	20	34	1.96
3731563--3731718	54	2.9	55	85	3	217	23	17	21	36	1.95
3732026--3732060	18	1.9	18	94	0	61	17	2	25	54	1.57
3734321--3734374	24	2.2	24	90	0	81	40	14	18	25	1.89
3735210--3735304	41	2.3	41	96	0	172	21	15	27	35	1.94
3735230--3735325	21	4.6	21	82	7	133	19	14	26	39	1.90
3735203--3735344	62	2.3	61	89	3	214	23	16	26	33	1.95
3735370--3735406	19	1.9	19	94	0	65	21	16	29	32	1.95
3737821--3737851	3	10.3	3	92	0	53	61	0	3	35	1.12
3738279--3738371	42	2.2	42	80	1	98	30	20	21	27	1.98
3738554--3738646	21	4.4	21	80	9	100	30	20	18	31	1.96
3738573--3738665	42	2.2	42	83	5	118	29	21	21	27	1.99
3751742--3751798	27	2.3	23	76	21	62	14	7	33	45	1.71
3751847--3751872	3	8.7	3	100	0	52	34	0	0	65	0.93
3753881--3753955	24	3.0	24	84	5	87	17	13	24	45	1.84
3753899--3754036	23	5.9	24	82	3	129	17	15	26	41	1.88
3761297--3761343	20	2.3	20	88	0	67	29	25	12	31	1.93
3761305--3761344	20	2.0	20	95	0	71	32	20	12	35	1.90
3762703--3762745	17	2.5	17	96	0	77	58	13	9	18	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3776591--3776637	25	2.0	23	91	8	76	51	8	8	31	1.63
3776752--3776782	16	1.9	16	93	0	53	67	9	0	22	1.19
3778448--3778540	14	6.6	14	76	2	87	23	32	20	23	1.98
3778467--3778548	28	2.9	28	94	1	137	26	31	18	23	1.97
3784546--3784620	36	2.1	36	92	0	123	41	16	16	26	1.88
3784594--3784641	24	2.0	24	87	0	69	41	12	14	31	1.83
3784552--3784628	36	2.1	36	85	0	100	41	15	14	28	1.86
3790981--3791031	20	2.6	19	82	11	59	23	19	19	37	1.94
3791086--3791142	22	2.6	22	88	0	87	31	14	14	40	1.85
3791564--3791630	2	35.0	2	82	14	88	46	2	0	50	1.16

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