genome.fa.s8105.2.7.7.80.10.50.1000.18.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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  18  of  30  ( 3521 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)
3276101--3276175	20	3.9	19	86	5	71	36	20	13	30	1.91
3276120--3276171	20	2.6	20	96	0	95	36	21	15	26	1.93
3276808--3276832	11	2.3	11	100	0	50	32	0	16	52	1.44
3287211--3287277	15	4.5	15	79	3	73	38	7	19	34	1.80
3287205--3287277	30	2.5	30	90	2	121	41	6	20	31	1.79
3287260--3287309	20	2.5	20	100	0	100	40	10	16	34	1.81
3287509--3287566	24	2.3	24	85	14	73	50	1	1	46	1.22
3287507--3287661	26	5.6	26	69	23	95	52	1	1	44	1.17
3287516--3287646	56	2.4	53	78	13	131	52	1	0	45	1.15
3287507--3287647	27	5.1	28	69	16	98	51	1	1	45	1.18
3287857--3287976	42	2.9	42	96	0	213	45	19	19	16	1.86
3293291--3293328	20	1.9	19	89	5	58	39	13	28	18	1.88
3298380--3298422	22	2.0	22	86	9	61	27	0	27	44	1.55
3300806--3300889	12	7.0	12	72	10	64	21	11	16	50	1.77
3300783--3300889	24	4.5	24	82	6	128	22	13	15	48	1.80
3302897--3303063	18	9.4	18	88	3	259	28	31	22	17	1.97
3303869--3303927	20	2.7	21	89	10	84	28	20	20	30	1.97
3303979--3304030	19	2.7	19	100	0	104	23	30	17	28	1.97
3303916--3304074	83	1.9	81	81	8	187	25	23	17	32	1.97
3304993--3305036	2	22.5	2	95	4	81	47	0	0	52	1.00
3308175--3308209	18	1.9	18	88	0	52	28	17	14	40	1.88
3314628--3314660	17	1.9	18	88	11	52	36	18	6	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3316628--3316677	20	2.6	19	87	3	64	34	8	20	38	1.82
3316739--3316778	21	2.0	20	85	9	55	30	20	20	30	1.97
3319460--3319502	20	2.2	20	86	0	59	34	13	18	32	1.90
3323772--3323804	11	2.8	12	90	9	50	3	27	0	69	1.03
3325787--3325829	21	2.0	21	81	0	50	30	30	25	13	1.94
3325809--3325954	67	2.2	68	89	1	222	32	25	27	15	1.95
3326438--3326741	149	2.0	149	96	0	563	27	15	20	35	1.93
3326720--3326764	23	2.0	23	86	0	63	20	24	28	26	1.99
3332802--3332844	21	2.0	21	81	0	50	30	30	25	13	1.94
3332824--3332969	67	2.2	68	88	1	213	31	26	27	15	1.95
3333454--3333757	149	2.0	149	98	0	581	27	16	20	35	1.94
3336135--3336231	49	2.0	49	97	0	185	22	14	19	43	1.87
3353718--3353748	2	15.5	2	100	0	62	48	0	0	51	1.00
3353747--3353790	20	2.2	21	88	8	65	20	0	20	59	1.39
3354032--3354066	13	2.6	14	86	13	56	45	8	5	40	1.58
3354481--3354533	19	2.8	19	91	0	88	32	30	15	22	1.94
3356118--3356157	19	2.1	19	90	0	62	17	20	35	27	1.95
3357953--3358013	24	2.5	24	81	0	77	21	9	19	49	1.77
3360056--3360146	42	2.1	43	95	2	166	37	35	10	16	1.84
3360262--3360379	24	4.9	24	86	4	166	41	21	13	23	1.88
3360262--3360403	72	2.0	71	81	9	164	44	19	12	23	1.85
3365077--3365164	43	2.0	43	91	0	140	38	34	10	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3365287--3365405	24	5.0	24	89	4	168	40	19	14	26	1.89
3365290--3365423	48	2.8	48	84	4	137	41	18	14	25	1.88
3365287--3365423	72	1.9	72	82	5	170	41	18	13	25	1.88
3370109--3370195	42	2.0	43	93	2	149	37	34	11	16	1.84
3370317--3370435	24	5.0	24	88	4	168	39	19	15	26	1.91
3370351--3370453	48	2.1	48	85	3	136	41	19	14	24	1.89
3370317--3370453	72	1.9	72	82	5	170	40	18	14	25	1.89
3372984--3373056	13	5.2	13	78	15	83	17	21	43	16	1.87
3372970--3373056	31	3.1	28	78	13	90	19	21	41	17	1.90
3372985--3373044	31	1.9	31	93	0	102	18	23	41	16	1.90
3372990--3373031	18	2.3	18	91	0	66	14	23	45	16	1.84
3375166--3375260	43	2.2	43	92	3	156	37	34	9	17	1.83
3375384--3375494	24	4.6	24	87	4	134	39	20	16	23	1.92
3377975--3378011	18	2.1	18	94	0	65	13	24	45	16	1.83
3377969--3377998	13	2.3	13	94	0	51	16	23	43	16	1.87
3377993--3378026	13	2.6	13	90	0	50	20	20	44	14	1.87
3383934--3383989	21	2.7	21	85	0	76	48	8	25	17	1.76
3384342--3384403	2	31.5	2	77	9	56	48	4	1	45	1.33
3384433--3384507	14	6.0	14	70	25	60	44	6	8	41	1.60
3384406--3384509	14	7.9	14	71	21	57	46	5	8	39	1.59
3384485--3384540	20	2.8	20	84	10	71	55	3	5	35	1.40
3384535--3384615	13	6.4	12	77	7	63	39	4	4	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3384533--3384597	6	10.5	6	73	12	51	40	4	3	52	1.38
3384524--3384595	25	2.9	24	79	8	81	43	4	2	50	1.36
3384567--3384615	20	2.5	19	86	3	71	42	4	8	44	1.53
3384606--3386706	6	352.3	6	88	7	2931	48	16	1	33	1.56
3386036--3386082	4	12.0	4	81	4	60	46	2	2	48	1.25
3386769--3386811	2	22.0	2	83	4	52	46	2	2	48	1.27
3386941--3387218	2	149.0	2	65	27	98	44	2	4	47	1.38
3386941--3387023	17	4.4	19	77	18	77	45	1	1	51	1.16
3386942--3387219	71	3.8	71	69	21	72	45	2	4	47	1.38
3386970--3387120	23	6.8	23	72	17	65	43	1	5	49	1.36
3387135--3387189	13	4.2	13	76	17	51	45	5	3	45	1.44
3388785--3389292	252	2.0	252	100	0	1016	23	12	28	35	1.91
3395925--3395967	19	2.4	17	84	7	50	53	18	2	25	1.56
3401495--3401583	2	45.0	2	95	2	162	49	1	0	49	1.08
3403543--3403940	212	1.9	211	89	2	620	34	18	13	33	1.90
3403552--3404408	233	3.8	214	84	7	797	33	18	15	32	1.92
3403764--3404408	233	2.8	232	91	2	1010	33	18	15	32	1.92
3413881--3413932	16	3.2	17	72	22	58	38	21	0	40	1.53
3421527--3421615	21	4.2	21	67	21	69	47	3	2	47	1.31
3422860--3422980	63	1.9	63	91	0	197	34	22	20	22	1.97
3423387--3423441	20	2.7	21	78	16	62	40	1	18	40	1.61
3423545--3423616	18	3.9	18	70	10	65	22	19	29	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3429719--3429859	63	2.2	63	87	1	192	34	20	20	24	1.97
3430425--3430490	18	3.5	19	82	15	75	19	18	30	31	1.96
3433740--3433786	20	2.4	20	89	3	78	23	17	34	25	1.96
3433779--3433919	74	1.9	74	89	0	219	24	21	24	29	1.99
3439728--3439881	65	2.4	64	84	3	175	31	16	22	30	1.95
3442522--3442595	23	3.3	22	73	7	78	25	21	25	27	2.00
3448550--3448702	65	2.4	64	81	7	159	30	17	22	29	1.97
3451867--3451982	54	2.1	54	91	0	187	20	17	27	34	1.95
3455957--3455997	20	2.0	20	95	0	73	41	12	14	31	1.83
3460423--3460503	27	2.9	27	88	7	108	19	8	19	51	1.72
3461633--3461872	44	5.4	45	74	13	165	27	15	6	51	1.67
3461632--3461873	45	5.4	45	73	10	142	27	14	6	51	1.66
3461633--3461847	89	2.4	87	81	9	229	26	14	6	51	1.68
3461634--3461873	89	2.7	88	80	10	213	27	15	6	50	1.67
3462044--3462089	14	3.3	14	87	0	74	8	15	23	52	1.70
3462944--3462987	11	3.9	11	82	5	61	27	22	25	25	2.00
3463213--3463287	10	7.7	10	68	21	52	10	10	18	60	1.58
3463219--3463283	16	4.1	16	78	7	78	9	10	20	60	1.57
3463219--3463283	32	2.0	32	88	5	96	9	10	20	60	1.57
3463350--3463380	16	1.9	16	93	0	53	3	16	22	58	1.52
3464861--3464929	27	2.6	27	80	13	79	43	1	1	53	1.18
3471013--3471072	3	20.0	3	82	0	75	58	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3471219--3471500	122	2.3	120	84	5	340	24	18	15	41	1.89
3471447--3471535	36	2.5	36	94	0	151	20	21	10	48	1.78
3471431--3471960	152	3.5	151	91	6	821	27	20	12	40	1.88
3471743--3471843	37	2.6	37	84	10	123	21	22	10	44	1.83
3471670--3471914	73	3.3	73	66	15	210	30	18	13	38	1.88
3471785--3472321	110	4.8	113	81	9	597	28	19	13	38	1.90
3472609--3472713	52	2.0	52	98	0	201	33	17	12	37	1.87
3474263--3474307	18	2.6	17	89	6	65	53	6	8	31	1.58
3474263--3474326	16	3.9	15	78	13	56	50	6	12	31	1.65
3474633--3474681	7	6.9	7	84	11	64	0	16	0	83	0.64

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