genome.fa.s7800.2.7.7.80.10.50.1000.18.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  18  of  23  ( 2671 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)
3515234--3515273	21	2.0	20	85	5	53	37	22	2	37	1.68
3524134--3524163	15	1.9	16	93	6	53	13	3	0	83	0.77
3525001--3525028	12	2.3	12	100	0	56	7	0	14	78	0.95
3525482--3525525	21	2.0	21	86	4	61	40	18	11	29	1.85
3526888--3526929	18	2.3	18	84	8	50	38	2	2	57	1.25
3539765--3539792	8	3.5	8	100	0	56	89	0	0	10	0.49
3542336--3542666	165	2.0	165	96	0	608	31	7	20	40	1.80
3548368--3548455	27	3.1	27	73	23	81	37	15	11	35	1.84
3548393--3548467	32	2.3	32	88	4	107	36	18	9	36	1.83
3549351--3549398	20	2.4	20	92	0	78	50	22	16	10	1.76
3549607--3549706	23	4.2	23	73	12	94	27	8	14	51	1.69
3551214--3551255	21	2.0	21	81	9	50	21	7	38	33	1.81
3551605--3551723	42	2.8	42	85	2	150	21	34	20	23	1.97
3551630--3551723	21	4.5	21	83	4	118	22	36	20	21	1.95
3553247--3553575	156	2.1	156	93	2	550	37	12	15	34	1.86
3553664--3553699	16	2.2	16	90	0	54	19	0	13	66	1.24
3553746--3553804	20	3.0	20	89	0	91	45	22	18	13	1.84
3553810--3553847	20	1.9	20	100	0	76	13	15	21	50	1.78
3553808--3553853	20	2.3	20	88	0	74	13	17	23	45	1.83
3553994--3554037	20	2.2	20	91	0	70	40	18	18	22	1.91
3554323--3554358	18	2.0	18	94	0	63	16	2	25	55	1.55
3556624--3556677	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3556624--3556691	24	2.8	24	84	0	64	38	20	17	23	1.93
3556798--3556836	12	3.2	12	92	3	60	12	0	28	58	1.34
3557428--3557458	16	1.9	16	93	0	53	67	0	3	29	1.06
3557650--3557687	20	1.9	20	88	0	58	36	15	21	26	1.93
3557625--3557709	40	2.1	40	82	4	100	37	11	18	31	1.87
3557782--3557892	20	5.5	20	75	8	100	24	18	18	39	1.92
3562159--3562198	17	2.3	17	95	4	71	60	17	10	12	1.59
3565408--3565464	15	3.8	15	77	15	64	47	1	0	50	1.11
3565411--3565452	14	2.9	14	76	16	50	45	2	0	52	1.13
3565877--3565969	21	4.5	21	78	4	100	39	18	24	17	1.91
3565958--3566052	20	4.7	20	77	2	82	35	24	16	23	1.95
3565877--3565969	41	2.3	41	100	0	186	39	18	24	17	1.91
3566240--3566283	22	2.0	22	95	0	79	20	45	15	18	1.85
3566542--3566580	20	2.0	20	89	0	60	15	15	17	51	1.77
3567896--3567940	18	2.5	18	88	0	72	26	44	15	13	1.83
3568420--3568486	20	3.4	20	81	2	73	38	23	22	14	1.92
3568475--3568532	14	3.9	14	81	16	71	50	22	17	10	1.76
3568459--3568549	32	2.8	33	93	3	157	48	20	18	12	1.80
3568566--3568623	14	3.9	14	79	16	71	8	17	25	48	1.75
3568561--3568639	32	2.4	33	95	2	142	10	18	24	46	1.80
3568580--3568697	20	6.4	19	75	11	86	14	20	23	41	1.89
3570675--3570711	19	1.9	19	94	0	65	51	13	21	13	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3570665--3570720	14	3.6	14	76	21	58	46	17	21	14	1.84
3570646--3570723	33	2.4	33	88	0	111	42	20	23	14	1.88
3571059--3571098	20	2.0	20	95	0	71	30	17	30	22	1.97
3571066--3571111	20	2.3	20	85	7	58	28	17	26	28	1.98
3571097--3571156	20	2.9	22	75	12	72	23	15	20	41	1.89
3571080--3571174	41	2.3	41	80	3	102	22	18	22	36	1.95
3583269--3583733	171	2.7	171	86	6	625	43	15	16	24	1.87
3585204--3585366	87	1.9	87	92	2	274	33	12	11	42	1.79
3585591--3585703	51	2.2	51	79	3	129	15	30	30	24	1.95
3589809--3589886	35	2.1	37	81	11	90	67	1	8	21	1.25
3591206--3592374	106	11.0	106	92	0	1899	22	18	25	33	1.96
3592385--3592445	21	3.2	21	67	26	62	36	11	24	27	1.90
3592375--3592512	37	3.8	36	80	6	145	39	13	20	26	1.90
3593259--3593333	22	3.4	22	78	7	89	24	10	22	42	1.85
3593936--3593983	19	2.6	18	83	6	60	2	12	6	79	1.01
3593957--3593991	16	2.2	16	90	10	54	0	14	5	80	0.89
3597199--3597272	37	2.0	36	82	7	87	66	1	9	22	1.29
3597229--3597266	20	1.9	20	88	0	58	63	2	7	26	1.35
3597325--3597357	2	16.5	2	93	0	57	54	0	0	45	0.99
3598108--3598142	6	5.8	6	93	0	52	8	34	22	34	1.85
3598108--3598142	12	2.9	12	91	0	61	8	34	22	34	1.85
3598921--3599454	268	2.0	267	94	1	944	37	23	10	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3600289--3600510	111	2.0	111	95	0	399	45	9	7	37	1.66
3600574--3600612	18	2.2	18	90	4	62	66	2	0	30	1.05
3600797--3600922	50	2.5	49	82	5	162	22	30	32	15	1.94
3601030--3601063	2	17.0	2	100	0	68	50	0	0	50	1.00
3604613--3604755	36	4.0	36	94	0	232	20	27	20	31	1.98
3606821--3606859	13	3.1	12	88	7	51	7	5	2	84	0.84
3608345--3608378	2	17.0	2	100	0	68	50	0	0	50	1.00
3609424--3609490	22	3.2	22	63	26	54	31	4	20	43	1.72
3609424--3609505	41	2.0	41	97	0	155	31	6	19	42	1.76
3611954--3611983	14	2.1	14	93	0	51	30	36	10	23	1.87
3620818--3620897	42	1.9	42	89	0	124	32	21	21	25	1.98
3620527--3621550	260	3.9	259	86	3	1346	35	16	14	33	1.90
3623588--3623669	9	8.3	9	72	24	51	3	20	3	71	1.16
3623588--3623667	29	2.8	27	81	11	72	3	20	3	72	1.16
3627225--3627292	23	3.0	23	80	0	82	17	23	26	32	1.97
3634022--3634065	19	2.3	19	84	4	52	61	11	4	22	1.48
3638475--3638599	2	63.0	2	69	19	66	50	1	4	44	1.30
3638475--3638599	25	5.1	25	69	19	77	50	1	4	44	1.30
3638544--3638601	29	2.0	29	83	6	73	46	1	3	48	1.29
3638676--3638735	20	3.0	20	79	13	79	46	0	28	25	1.53
3638675--3638737	19	3.3	19	76	12	74	44	0	28	26	1.55
3639153--3639195	21	2.0	22	86	4	61	48	2	2	46	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3639288--3639322	14	2.5	14	95	0	61	54	22	0	22	1.45
3639732--3639756	2	12.5	2	100	0	50	48	0	0	52	1.00
3639139--3640789	524	3.0	542	82	12	2069	43	10	8	37	1.71
3639995--3640043	20	2.5	20	89	0	71	34	14	22	28	1.93
3640245--3640271	13	2.1	13	100	0	54	44	0	0	55	0.99
3640295--3640349	25	2.1	25	86	6	74	49	5	3	41	1.43
3640330--3640423	48	1.9	49	91	2	154	48	9	7	34	1.64
3640817--3640922	49	2.2	49	81	3	115	49	11	6	33	1.65
3640903--3640969	21	3.2	21	73	0	62	50	28	1	19	1.56
3640944--3640974	14	2.2	14	94	0	53	54	29	0	16	1.42
3649759--3650149	185	2.1	186	91	2	637	43	2	8	45	1.48
3652582--3652685	49	2.1	49	98	1	201	43	9	1	45	1.48
3652631--3652706	31	2.5	31	80	6	84	44	9	2	43	1.50
3652598--3652695	49	2.0	49	88	2	144	43	9	2	44	1.47
3653789--3653861	16	4.5	17	68	16	57	19	4	4	72	1.17
3653811--3653853	21	2.0	21	82	8	52	16	6	2	74	1.14
3653903--3653950	18	2.7	19	81	12	57	14	4	4	77	1.08
3653920--3653967	15	3.3	15	78	21	57	14	0	4	81	0.84
3653782--3653941	20	7.8	20	66	18	53	21	5	3	70	1.21
3653905--3653965	12	5.2	12	76	11	63	11	3	4	80	0.99
3655576--3655738	58	2.6	64	83	11	239	35	19	14	30	1.92
3655705--3655899	55	3.7	54	71	12	188	41	17	12	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3655692--3655897	103	2.0	103	94	0	358	40	17	12	29	1.86
3655925--3656039	43	2.7	42	81	6	126	33	26	16	23	1.96
3656310--3656988	137	5.0	137	89	1	959	34	25	15	25	1.95
3658734--3658784	19	2.6	20	90	3	77	43	23	17	15	1.88
3658734--3659031	20	14.6	20	79	9	147	38	19	22	19	1.93
3658859--3659029	40	4.2	40	84	7	218	36	16	25	21	1.94
3659841--3659902	6	10.5	6	98	1	117	0	16	51	32	1.44
3659978--3660021	20	2.2	20	91	0	70	11	18	15	54	1.70
3660008--3660345	20	16.6	20	77	6	223	19	22	18	39	1.93
3660010--3660241	40	5.7	40	85	4	320	21	24	16	37	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23