genome.fa.s8245.2.7.7.80.10.50.1000.17.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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  17  of  33  ( 3922 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)
3363590--3364706	200	5.7	197	76	9	953	38	13	16	31	1.87
3363839--3364586	378	2.0	377	88	2	1099	37	12	16	32	1.87
3364217--3364735	201	2.6	198	84	4	630	38	11	16	33	1.85
3366684--3367729	200	5.2	199	80	4	1133	32	16	13	38	1.87
3366684--3367723	400	2.6	397	84	5	1326	32	16	12	38	1.86
3367977--3368008	15	2.1	15	94	0	55	18	3	62	15	1.45
3368154--3368280	66	1.9	66	82	3	157	33	2	40	24	1.68
3369973--3370021	19	2.6	19	96	0	89	32	2	10	55	1.45
3370363--3371703	202	6.8	201	81	7	1432	37	15	16	31	1.89
3370582--3371703	580	1.9	581	85	3	1546	37	15	16	30	1.90
3373155--3373207	3	17.7	3	76	7	54	39	1	28	30	1.67
3374664--3375832	200	5.8	199	82	4	1309	38	13	16	31	1.87
3374664--3375832	401	2.9	397	84	4	1508	38	13	16	31	1.87
3380150--3380391	125	1.9	125	89	3	380	42	12	12	32	1.81
3380591--3380752	87	1.9	87	92	0	270	32	14	9	43	1.79
3380675--3380719	23	2.0	23	90	0	72	40	20	6	33	1.78
3381295--3381319	7	3.6	7	100	0	50	32	0	12	56	1.36
3383334--3383909	284	2.0	286	97	1	1084	28	18	21	31	1.97
3407009--3407105	32	3.1	32	78	14	128	28	17	18	35	1.94
3407008--3407108	31	3.2	31	81	10	125	28	18	18	33	1.95
3407096--3407189	30	3.1	30	92	3	145	21	21	26	30	1.98
3412021--3412117	32	3.1	32	77	14	119	28	16	18	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3412020--3412120	31	3.2	31	79	10	116	28	17	18	34	1.94
3412108--3412201	30	3.1	30	92	3	145	21	21	26	30	1.98
3413857--3413903	24	2.0	24	100	0	94	38	0	8	53	1.32
3415007--3415115	29	3.7	29	69	14	87	41	3	22	33	1.71
3415021--3415155	60	2.2	60	80	6	148	46	5	17	30	1.70
3416784--3416830	19	2.5	20	89	6	71	48	4	12	34	1.61
3425031--3425097	35	1.9	35	93	0	116	32	10	26	29	1.90
3431133--3431291	87	1.8	86	90	1	255	25	23	14	36	1.93
3431414--3431463	21	2.4	20	78	18	57	32	0	0	68	0.90
3432353--3432469	60	2.0	60	86	3	164	25	20	23	29	1.99
3437544--3437701	79	2.0	79	97	0	298	31	13	25	29	1.93
3437688--3437751	19	3.2	19	72	20	67	29	20	18	31	1.96
3437699--3437775	22	3.6	22	73	19	83	33	16	18	31	1.93
3437681--3437773	41	2.3	41	100	0	186	31	18	19	31	1.96
3438115--3438375	57	4.6	56	89	0	346	38	10	19	31	1.86
3443426--3443469	23	1.9	23	90	9	72	15	20	25	38	1.92
3451157--3451194	20	2.0	20	85	10	53	71	0	13	15	1.16
3451725--3451952	119	1.9	119	95	0	411	32	21	10	35	1.87
3454059--3454110	21	2.5	21	84	6	61	17	32	25	25	1.97
3454070--3454111	21	2.0	21	90	0	66	11	30	30	26	1.92
3462549--3462587	21	1.9	19	90	10	60	41	10	17	30	1.83
3466473--3466497	6	4.2	6	100	0	50	16	32	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3474090--3474119	15	2.0	15	100	0	60	46	20	6	26	1.75
3475544--3476042	54	9.6	54	84	6	570	35	19	18	26	1.95
3475558--3476042	204	2.3	207	85	4	638	34	20	19	25	1.96
3475544--3476042	156	3.2	155	84	6	616	35	19	18	26	1.95
3476901--3476933	16	2.1	16	88	11	50	51	9	3	36	1.49
3477224--3481814	6	772.0	6	87	6	3124	47	26	1	24	1.61
3482077--3482121	22	2.0	23	86	4	65	31	20	24	24	1.98
3482866--3482920	22	2.6	21	81	13	69	25	21	16	36	1.94
3494757--3494790	11	3.1	11	86	0	50	44	8	20	26	1.81
3500784--3500821	16	2.3	17	86	4	51	10	7	0	81	0.87
3505907--3505935	3	10.0	3	92	7	51	68	0	0	31	0.89
3506742--3506799	2	29.0	2	100	0	116	50	0	0	50	1.00
3512165--3512192	2	14.0	2	100	0	56	50	0	0	50	1.00
3523243--3523401	75	2.1	74	83	3	194	41	11	13	33	1.81
3523243--3523424	75	2.4	74	80	4	188	40	11	13	34	1.81
3523412--3523471	23	2.6	23	89	0	84	36	15	13	35	1.86
3523453--3523668	75	2.9	74	86	2	297	38	11	14	35	1.82
3523648--3523943	151	1.9	152	90	2	470	40	11	10	38	1.75
3524127--3524707	108	5.4	108	75	12	374	34	14	13	38	1.84
3524208--3524515	95	3.1	95	85	7	366	36	15	12	36	1.84
3531996--3532028	16	2.1	16	88	5	50	51	0	6	42	1.26
3533922--3534280	4	89.8	4	98	0	691	49	25	0	24	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3535695--3535732	17	2.2	18	85	4	51	36	2	0	60	1.11
3543048--3543242	81	2.4	81	83	4	223	29	15	20	34	1.94
3543074--3543242	82	2.1	80	84	5	214	30	17	19	33	1.95
3543411--3544875	4	366.0	4	97	0	2480	24	2	25	47	1.64
3543864--3543906	2	21.5	2	100	0	86	0	0	48	51	1.00
3547166--3547580	45	9.2	45	89	1	557	43	13	20	22	1.86
3548102--3548308	45	4.6	45	92	0	333	41	14	21	22	1.89
3548102--3548336	45	5.2	44	89	2	301	42	13	20	22	1.87
3549160--3549210	22	2.3	22	96	0	93	39	17	13	29	1.88
3551003--3551061	23	2.6	22	91	5	91	20	25	27	27	1.99
3558535--3558580	24	1.9	24	95	0	83	30	13	13	43	1.81
3560472--3560539	23	3.0	23	73	0	64	20	23	23	32	1.98
3566952--3567011	21	2.7	23	87	5	79	31	28	23	16	1.96
3566974--3567098	21	6.0	21	75	1	117	36	24	16	22	1.95
3577004--3577107	36	2.9	36	82	5	129	27	18	25	28	1.98
3598034--3598179	76	1.9	74	86	5	157	48	3	7	40	1.48
3597959--3598537	36	15.2	36	75	13	353	44	3	8	43	1.52
3597963--3598541	110	5.1	111	78	12	362	45	3	7	43	1.51
3597959--3598537	74	7.6	72	76	12	484	44	3	8	43	1.52
3598256--3598335	24	3.4	23	80	11	90	41	2	6	50	1.41
3598179--3598416	122	1.9	123	87	3	345	42	4	7	45	1.51
3598508--3598556	14	3.4	14	83	8	53	46	2	6	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3598566--3598620	4	13.8	4	80	19	62	18	3	0	78	0.90
3598565--3598615	7	7.1	7	83	16	61	17	1	0	80	0.81
3599878--3599908	14	2.1	15	94	5	55	19	6	0	74	1.03
3600009--3600038	12	2.4	13	94	5	53	33	3	0	63	1.11
3603894--3603941	18	2.6	19	80	9	55	10	12	2	75	1.14
3609260--3609771	37	13.7	36	79	12	423	46	3	7	43	1.48
3609484--3609569	45	1.9	45	87	0	127	45	2	6	45	1.43
3609259--3609774	73	6.9	73	77	11	458	45	3	6	43	1.47
3609822--3609876	4	13.5	4	80	16	60	20	5	0	74	1.01
3611112--3611160	23	2.0	25	88	11	75	18	8	0	73	1.07
3616041--3616277	123	1.9	124	92	0	395	44	13	16	26	1.84
3621385--3621416	15	2.1	15	100	0	64	68	25	6	0	1.12
3621878--3621917	19	2.0	20	95	4	73	17	25	30	27	1.97
3621940--3621987	7	6.4	7	77	13	51	16	35	27	20	1.94
3621931--3621981	24	2.1	24	100	0	102	17	43	23	15	1.88
3626324--3626375	21	2.5	21	81	3	61	38	19	25	17	1.93
3626406--3626458	20	2.7	20	93	0	88	24	28	20	26	1.99
3627015--3627055	19	2.2	19	90	0	64	53	24	17	4	1.63
3627062--3627120	19	3.1	19	92	4	100	10	16	22	50	1.75
3627103--3627189	33	2.6	33	92	1	138	11	24	25	39	1.89
3629273--3629339	21	3.2	21	66	6	55	23	35	20	19	1.95
3629218--3629339	42	2.9	42	80	7	106	22	36	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3630698--3630733	14	2.6	14	95	0	63	30	0	25	44	1.54
3630893--3631023	19	7.7	19	64	23	85	15	22	19	42	1.88
3630897--3631023	33	3.9	32	86	8	184	15	22	18	42	1.89
3630891--3631022	66	2.0	66	95	0	237	16	22	18	41	1.90
3633317--3633341	12	2.1	12	100	0	50	0	28	0	72	0.86
3633516--3633569	24	2.2	24	90	0	81	38	20	16	24	1.92
3634623--3634680	19	3.0	19	89	2	80	39	24	20	15	1.91
3634720--3634768	19	2.6	19	93	0	80	16	18	14	51	1.77
3634885--3634921	14	2.6	14	86	0	56	48	21	0	29	1.50
3636788--3636854	19	3.5	19	83	4	89	37	23	23	14	1.93

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