genome.fa.s8428.2.7.7.80.10.50.1000.15.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  15  of  30  ( 3508 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)
3631906--3631991	29	3.0	29	76	8	95	34	5	15	44	1.70
3631915--3632020	29	3.7	29	78	2	88	38	8	12	40	1.73
3635919--3636026	28	4.0	27	82	10	130	32	9	8	50	1.64
3639995--3640020	3	8.7	3	100	0	52	30	0	0	69	0.89
3642683--3642716	16	2.1	17	88	5	52	35	0	0	64	0.94
3643748--3643861	35	3.3	35	81	4	131	37	0	18	42	1.56
3647103--3647135	16	2.1	16	100	0	66	57	24	12	6	1.57
3647212--3647251	20	2.0	20	90	0	62	57	22	12	7	1.60
3647214--3647273	24	2.5	23	78	7	66	60	23	10	6	1.52
3647234--3647273	14	2.9	14	85	3	55	60	25	10	5	1.49
3647211--3647250	10	4.0	10	86	0	53	60	22	10	7	1.54
3647539--3647566	14	2.0	14	100	0	56	57	14	14	14	1.66
3649236--3649269	2	18.0	2	88	11	54	52	0	0	47	1.00
3649303--3649327	12	2.1	12	100	0	50	76	0	0	24	0.80
3650602--3650970	180	2.0	182	97	2	697	31	26	13	29	1.93
3655256--3655450	81	2.4	81	85	7	245	24	20	18	36	1.94
3655468--3655831	89	4.1	89	83	2	423	30	20	19	29	1.97
3655832--3656022	99	1.9	100	86	5	271	34	16	21	27	1.95
3655912--3656080	62	2.7	62	89	1	250	35	16	23	24	1.95
3656597--3656693	42	2.3	42	79	6	108	34	19	20	25	1.96
3656151--3657568	258	5.5	258	88	1	2036	36	16	14	33	1.89
3657120--3657213	42	2.3	41	81	7	118	31	20	22	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3660302--3660500	99	2.0	99	100	0	398	25	23	9	42	1.83
3664509--3664550	15	2.6	16	82	17	52	61	0	4	33	1.17
3664824--3664873	7	7.0	7	82	13	66	70	0	0	30	0.88
3676057--3676095	20	2.0	20	85	10	53	79	7	7	5	1.05
3677998--3678148	74	2.0	74	100	0	302	31	13	12	42	1.81
3679074--3679106	2	17.0	2	93	6	59	51	0	0	48	1.00
3685247--3685317	35	2.0	35	100	0	142	35	11	11	42	1.77
3686243--3686283	20	2.0	20	95	0	73	26	31	4	36	1.78
3686245--3686301	20	2.8	20	86	7	71	24	38	5	31	1.78
3686428--3686452	13	1.9	13	100	0	50	44	16	0	40	1.47
3686596--3686653	28	2.1	28	96	0	107	60	20	0	18	1.36
3688533--3688633	22	4.7	21	86	6	123	20	22	31	24	1.98
3688533--3688633	44	2.4	42	85	6	141	20	22	31	24	1.98
3695498--3695621	46	2.7	46	91	0	203	29	10	32	28	1.90
3701145--3701169	3	8.3	3	100	0	50	64	0	0	36	0.94
3711059--3711110	23	2.3	23	83	6	61	19	26	23	30	1.98
3717674--3717761	23	3.8	23	78	0	95	19	21	22	36	1.95
3720762--3720833	26	3.0	22	72	18	63	40	4	6	48	1.49
3720765--3720816	22	2.2	22	86	10	68	40	3	7	48	1.50
3720757--3720832	24	3.0	25	78	20	86	42	3	6	47	1.48
3720820--3721024	36	5.8	37	80	13	234	47	3	3	44	1.39
3720805--3721025	69	3.2	70	80	11	233	46	3	4	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3721025--3721059	15	2.4	15	90	4	54	22	2	0	74	0.95
3722250--3722296	18	2.5	17	83	16	58	10	8	2	78	1.04
3722814--3722888	29	2.6	29	95	0	132	48	6	0	45	1.29
3726690--3726725	13	2.8	13	95	0	63	61	19	8	11	1.54
3726917--3726997	24	3.4	24	81	3	83	64	17	6	12	1.47
3726933--3727019	24	3.6	24	82	3	95	62	16	8	13	1.54
3728283--3728339	26	2.2	26	96	0	105	22	21	12	43	1.85
3734577--3734619	5	8.8	5	84	5	52	0	37	25	37	1.56
3736475--3736518	22	2.0	22	100	0	88	50	13	9	27	1.72
3737501--3737602	42	2.5	40	84	7	125	47	0	0	50	1.14
3737469--3737563	15	6.7	15	70	14	67	48	1	0	50	1.07
3737567--3737611	21	2.1	22	88	12	67	53	0	2	44	1.13
3737956--3737991	17	2.1	17	94	0	63	22	2	0	75	0.94
3739545--3739585	21	2.0	20	86	9	57	43	0	29	26	1.55
3740984--3741022	20	2.0	20	89	0	60	33	23	10	33	1.88
3742631--3742674	22	2.0	22	90	0	70	22	13	29	34	1.93
3762743--3762778	18	2.0	18	100	0	72	44	11	27	16	1.82
3765237--3765349	41	2.8	41	88	0	163	30	20	16	31	1.95
3767292--3767339	12	4.0	12	75	0	51	54	14	14	16	1.72
3772842--3772895	2	27.0	2	100	0	108	50	0	0	50	1.00
3776957--3777012	24	2.4	22	80	16	60	71	5	8	14	1.29
3779006--3779045	17	2.4	17	91	0	62	40	17	5	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3783052--3783094	17	2.5	17	85	7	61	41	16	4	37	1.69
3783276--3783310	18	1.9	18	100	0	70	11	25	5	57	1.56
3786749--3786776	13	2.2	13	100	0	56	39	7	25	28	1.82
3788539--3788627	32	2.8	32	78	0	106	28	21	22	28	1.99
3790719--3790753	18	1.9	18	88	11	54	37	5	28	28	1.80
3796423--3796448	12	2.2	12	100	0	52	34	15	19	30	1.93
3798271--3798314	23	1.9	23	100	0	88	29	18	18	34	1.94
3804450--3804552	30	3.4	30	76	10	93	60	26	10	2	1.44
3809892--3809938	17	2.8	17	93	0	85	29	19	17	34	1.94
3813392--3813447	22	2.5	22	79	0	67	30	14	19	35	1.91
3814840--3814895	22	2.5	22	79	0	67	30	14	19	35	1.91
3816285--3816340	22	2.5	22	76	0	58	30	14	17	37	1.90
3825059--3825115	26	2.2	26	93	0	96	36	12	3	47	1.58
3833488--3833529	19	2.3	19	87	4	59	33	21	28	16	1.95
3836528--3836566	20	1.9	21	89	5	62	38	10	17	33	1.84
3837874--3837915	19	2.3	19	87	4	59	33	21	26	19	1.97
3838600--3838658	28	2.1	28	96	0	109	32	10	28	28	1.90
3841733--3841765	6	5.8	6	96	3	52	27	0	0	72	0.85
3842175--3842210	16	2.2	17	95	5	65	41	0	0	58	0.98
3842198--3842805	298	2.0	299	97	2	1146	33	18	14	33	1.92
3843114--3843181	3	22.7	3	93	0	118	36	0	0	63	0.95
3850749--3850778	7	4.3	7	91	0	51	20	13	0	66	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3854266--3854349	9	10.1	8	77	10	64	78	0	10	10	0.96
3854306--3854347	9	4.8	9	97	2	77	80	0	7	11	0.88
3855345--3855469	52	2.4	52	91	0	205	35	20	20	24	1.96
3856018--3856085	31	2.2	31	89	0	100	35	13	29	22	1.92
3856327--3856381	23	2.3	24	81	12	69	50	0	7	41	1.30
3857007--3857037	2	16.0	2	93	6	55	51	0	0	48	1.00
3857008--3857071	9	7.3	9	89	7	57	60	0	0	39	0.97
3857038--3857072	3	11.7	3	100	0	70	68	0	0	31	0.90
3857201--3857267	31	2.2	31	100	0	134	34	14	26	23	1.94
3864108--3864156	22	2.2	22	100	0	98	40	12	18	28	1.86
3865504--3865988	243	2.0	243	97	0	925	35	13	22	29	1.92
3870542--3870663	63	1.9	63	83	3	154	36	14	17	31	1.90
3871160--3871412	45	5.7	45	84	3	284	40	9	20	29	1.84
3871481--3871506	13	2.0	13	100	0	52	46	7	15	30	1.74
3874273--3874369	50	1.9	50	87	4	142	15	25	24	34	1.95
3875392--3875452	22	2.7	23	80	10	72	60	1	0	37	1.07
3875310--3875622	112	2.8	113	90	2	488	43	5	6	44	1.51
3876735--3876841	52	2.1	51	85	5	144	50	17	7	24	1.72
3886334--3886388	23	2.4	24	82	8	62	20	3	1	74	1.06
3888584--3888630	23	2.1	23	88	4	69	27	2	10	59	1.42
3889851--3889905	24	2.3	24	74	0	56	30	29	27	12	1.93
3889950--3889984	18	1.9	18	88	0	52	17	22	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3897016--3897069	2	27.0	2	100	0	108	50	0	0	50	1.00
3897629--3897786	23	6.7	23	69	23	89	48	1	4	46	1.30
3897639--3897781	45	3.2	46	80	17	140	47	1	4	46	1.32
3897704--3897786	2	42.5	2	89	9	127	51	0	1	46	1.08
3898526--3898560	2	17.5	2	100	0	70	51	0	0	48	1.00
3898926--3898976	11	4.7	11	76	13	52	50	9	0	39	1.35
3902657--3902687	16	1.9	16	93	0	53	74	0	3	22	0.96
3902633--3902687	29	2.0	27	82	7	65	70	0	1	27	0.97
3902809--3903828	134	7.7	133	83	4	1098	29	15	22	31	1.95
3902825--3903783	402	2.4	401	84	5	1251	29	15	22	31	1.95

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