genome.fa.s8061.2.7.7.80.10.50.1000.17.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  17  of  26  ( 3118 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)
3359573--3359649	24	3.2	25	82	10	90	20	18	15	45	1.85
3359587--3359667	12	6.8	12	72	10	67	19	16	16	48	1.82
3359597--3359665	36	1.9	36	82	5	86	20	17	14	47	1.82
3363643--3363667	3	8.3	3	100	0	50	64	36	0	0	0.94
3365040--3365087	23	2.1	23	88	0	69	37	8	16	37	1.79
3365689--3366322	182	3.5	182	92	0	1054	27	16	13	42	1.85
3366193--3366471	112	2.5	112	94	0	486	25	15	15	44	1.85
3366368--3366564	93	2.1	93	95	0	351	23	13	13	49	1.77
3366257--3366635	205	1.9	204	93	0	659	25	12	14	47	1.79
3368376--3368428	19	2.8	18	75	16	54	64	3	1	30	1.22
3373626--3373665	21	2.0	21	85	9	57	37	0	2	60	1.11
3374314--3374619	149	2.1	149	99	0	603	34	23	13	28	1.93
3374971--3375609	328	1.9	328	94	0	1134	28	10	17	43	1.82
3375909--3375970	2	31.0	2	100	0	124	50	0	0	50	1.00
3376148--3376174	5	5.4	5	100	0	54	18	0	0	81	0.69
3379015--3379195	64	2.8	63	81	5	186	35	19	18	25	1.95
3379059--3379232	64	2.7	64	82	5	174	33	21	19	25	1.97
3379638--3379722	16	5.4	16	64	20	54	38	11	18	30	1.87
3379634--3379855	31	7.2	31	87	0	327	37	10	17	33	1.85
3382682--3382801	46	2.6	46	80	8	113	35	19	19	26	1.95
3382727--3382884	64	2.5	64	83	2	192	31	22	20	25	1.98
3383283--3383504	31	7.2	31	93	0	381	37	12	17	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386095--3386248	32	4.8	32	86	8	192	26	17	21	34	1.95
3386922--3386965	12	3.8	12	88	5	65	18	15	18	47	1.83
3400026--3400103	32	2.6	29	78	11	84	32	7	3	56	1.46
3401707--3401744	19	2.0	20	94	5	69	57	5	2	34	1.35
3409216--3409243	14	2.0	14	100	0	56	50	7	0	42	1.30
3409831--3409923	48	1.9	48	84	4	125	60	10	4	24	1.48
3414100--3414156	28	2.0	28	100	0	114	22	10	17	49	1.77
3414979--3415043	33	1.9	34	87	3	96	38	6	16	38	1.74
3416743--3416789	22	2.1	22	100	0	94	27	23	14	34	1.94
3420174--3420219	2	23.0	2	100	0	92	0	50	0	50	1.00
3424086--3424163	39	2.0	39	97	2	149	25	29	14	30	1.94
3432543--3432634	45	2.0	45	93	0	157	20	15	7	56	1.63
3434481--3434510	14	2.1	14	93	0	51	53	0	10	36	1.35
3436297--3436688	146	2.7	146	89	1	572	20	26	20	33	1.97
3437264--3439054	54	33.7	54	86	3	2201	21	25	19	33	1.97
3437264--3439065	634	2.8	634	91	1	2824	21	25	19	33	1.97
3439481--3439628	36	4.1	36	76	2	91	22	18	20	37	1.94
3440739--3441107	125	3.0	124	83	3	474	22	26	18	32	1.97
3442356--3442406	14	3.6	14	71	10	50	13	9	0	76	1.02
3447024--3447066	23	1.9	23	81	13	54	53	6	0	39	1.28
3447793--3448171	146	2.6	146	90	0	571	20	25	20	33	1.97
3448841--3448891	27	1.9	26	92	4	84	39	11	0	49	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3449051--3449080	2	15.5	2	93	6	53	46	0	0	53	1.00
3449093--3449147	28	2.0	28	100	0	110	60	7	0	32	1.24
3452375--3452447	37	2.0	37	84	7	96	47	1	2	47	1.24
3452599--3452651	20	2.7	20	100	0	106	30	18	3	47	1.67
3457009--3457703	215	3.2	215	94	1	1216	50	7	13	29	1.69
3457745--3457932	2	96.5	2	69	16	110	47	2	2	47	1.30
3458427--3458493	2	33.5	2	100	0	134	49	0	0	50	1.00
3458598--3458642	20	2.3	20	92	3	74	40	0	35	24	1.56
3458765--3462234	4	873.2	4	98	1	6779	25	0	24	49	1.50
3462513--3462540	2	14.0	2	100	0	56	50	0	0	50	1.00
3462557--3462592	19	1.9	19	94	5	65	27	5	5	61	1.41
3462643--3462687	14	3.2	14	83	0	54	51	20	0	28	1.48
3462647--3462695	21	2.3	22	82	6	57	48	20	0	30	1.50
3463074--3463128	13	4.3	13	77	17	62	49	9	0	41	1.34
3463557--3463583	13	2.1	13	100	0	54	44	0	0	55	0.99
3463721--3463763	16	2.7	16	83	16	54	46	11	13	27	1.78
3472357--3472409	2	26.5	2	96	0	97	49	0	1	49	1.12
3478154--3478223	26	2.8	26	79	18	85	71	0	5	22	1.07
3478210--3478263	9	6.4	8	85	10	56	74	1	0	24	0.92
3478158--3478268	25	4.6	25	73	18	83	72	0	3	23	1.06
3478216--3478262	3	16.7	3	87	12	64	72	2	0	25	0.96
3479353--3479393	21	1.9	21	85	5	55	70	0	2	26	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3479354--3479426	14	5.0	15	74	21	66	67	0	1	31	1.00
3479365--3479424	13	4.5	13	76	15	52	68	0	0	31	0.90
3479468--3479862	38	10.7	36	87	7	555	44	5	4	45	1.46
3479846--3479904	2	29.5	2	100	0	118	49	0	0	50	1.00
3479468--3479859	74	5.3	72	89	5	565	44	5	4	45	1.47
3480981--3481011	2	16.0	2	93	6	55	48	0	0	51	1.00
3480997--3481334	38	8.8	36	73	18	172	44	3	7	43	1.50
3481025--3481324	36	7.8	37	73	16	209	45	3	7	43	1.48
3481128--3481162	11	3.1	11	91	4	52	57	0	0	42	0.99
3481133--3481164	11	2.9	11	95	0	55	62	0	0	37	0.95
3481162--3481329	74	2.3	74	85	6	218	45	4	7	42	1.52
3481308--3481449	41	3.4	41	90	5	214	47	2	6	43	1.43
3481308--3481470	41	4.0	39	85	7	134	46	2	6	45	1.41
3481468--3481511	3	14.3	3	85	4	61	27	0	2	70	0.99
3481497--3481532	10	3.6	10	88	0	54	27	0	0	72	0.85
3482322--3482420	29	3.4	29	74	12	96	19	4	2	74	1.07
3482350--3482433	9	9.8	8	73	11	51	19	3	2	75	1.07
3482340--3482391	26	1.9	26	85	14	70	25	1	0	73	0.94
3482368--3482418	4	12.0	4	78	19	50	19	3	1	74	1.07
3482340--3482433	35	2.7	32	78	16	91	21	3	2	73	1.08
3483307--3483375	5	13.4	5	93	4	104	76	1	0	21	0.86
3483309--3483377	9	8.4	9	76	22	64	75	1	0	23	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3483431--3483731	37	8.1	35	77	13	282	45	9	3	42	1.53
3483442--3483731	75	3.9	72	78	9	262	45	9	3	42	1.52
3488353--3488409	26	2.2	26	96	0	105	33	17	28	21	1.96
3509628--3509674	24	2.0	24	91	0	76	40	10	19	29	1.85
3515228--3515264	2	18.5	2	100	0	74	51	0	0	48	1.00
3516360--3516397	20	1.9	20	94	0	67	44	10	23	21	1.83
3516360--3516403	20	2.3	19	88	7	63	45	9	25	20	1.80
3519972--3520000	2	15.0	2	92	7	51	51	0	0	48	1.00
3522178--3522205	2	14.0	2	100	0	56	50	0	0	50	1.00
3535331--3535383	26	2.0	26	85	0	70	28	15	15	41	1.87
3536565--3536593	2	14.5	2	100	0	58	51	0	0	48	1.00
3546274--3547838	518	3.0	517	97	0	2923	34	23	16	25	1.95
3572499--3572972	161	3.0	161	92	0	745	26	13	15	44	1.84
3575766--3575898	56	2.4	55	85	6	169	44	20	10	24	1.83
3576289--3576530	129	1.9	129	90	4	389	45	1	16	35	1.56
3577653--3577709	27	2.1	27	96	0	105	56	12	0	31	1.36
3580190--3580258	11	5.7	12	73	18	54	53	1	0	44	1.09
3580189--3580285	39	2.5	40	80	10	110	52	1	0	46	1.07
3580265--3580305	22	1.9	21	95	5	73	53	0	0	46	1.00
3587744--3587785	3	14.0	3	90	9	68	33	0	0	66	0.92
3587743--3587785	22	2.0	21	95	4	77	32	0	0	67	0.91
3595489--3595526	4	9.5	4	94	0	58	50	28	0	21	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3596014--3596245	105	2.2	102	84	6	290	30	18	12	37	1.88
3596214--3596281	36	1.9	36	87	3	102	35	17	10	36	1.84
3596561--3596811	29	8.7	29	74	14	173	28	11	14	45	1.79
3596542--3596875	149	2.3	148	93	2	568	27	12	14	44	1.81
3596820--3596924	52	2.0	53	96	1	194	31	12	17	39	1.86
3596911--3597045	28	4.4	28	71	21	103	31	10	12	45	1.76
3596956--3597077	37	3.5	36	72	19	123	31	13	10	44	1.77
3596923--3597137	67	3.3	67	86	4	269	29	12	12	46	1.77
3597318--3597442	64	2.0	62	87	3	178	30	14	12	43	1.82
3597730--3597755	1	26.0	1	100	0	52	100	0	0	0	0.00

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