genome.fa.s8209.2.7.7.80.10.50.1000.23.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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  23  of  30  ( 3569 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)
5238223--5238487	40	6.7	39	79	10	272	19	20	22	37	1.94
5238223--5238487	60	4.5	60	77	14	273	19	20	22	37	1.94
5238207--5238447	116	2.1	114	89	3	367	19	21	21	36	1.95
5238971--5239075	21	5.0	21	72	3	86	21	37	18	22	1.94
5238968--5239078	42	2.6	42	77	5	109	21	37	18	22	1.94
5240460--5240509	14	3.6	14	94	0	82	34	0	22	44	1.53
5240627--5240680	14	3.5	14	73	22	54	46	20	22	11	1.82
5240618--5240702	33	2.5	33	92	1	134	45	18	22	12	1.83
5240751--5240804	20	2.7	20	100	0	108	16	24	25	33	1.96
5243232--5243283	24	2.2	24	82	0	59	36	17	19	26	1.94
5244090--5244143	20	2.7	20	100	0	108	25	18	25	29	1.98
5244143--5244275	20	6.7	20	95	0	230	20	18	20	40	1.92
5244905--5244950	24	1.9	24	100	0	92	50	4	8	36	1.53
5245800--5245876	27	3.0	26	73	21	74	29	14	16	38	1.88
5245835--5245896	27	2.4	26	86	7	83	38	16	16	29	1.90
5248875--5249047	90	1.9	89	95	1	310	38	10	6	43	1.67
5252585--5252655	23	3.2	22	72	7	72	40	15	1	42	1.56
5252635--5252952	36	8.6	37	81	7	342	43	8	4	43	1.56
5252635--5252952	73	4.3	74	81	7	306	43	8	4	43	1.56
5257840--5257895	11	4.9	11	79	14	51	75	1	1	21	0.99
5257951--5258485	37	14.5	36	76	17	221	40	8	6	44	1.61
5258048--5258109	28	2.2	29	85	2	81	37	8	9	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5258093--5258178	25	3.4	25	98	1	163	39	8	4	47	1.54
5258028--5258360	116	2.9	118	81	14	344	39	8	6	44	1.62
5258142--5258496	37	9.7	37	86	6	449	40	9	6	43	1.62
5258142--5258496	73	4.9	72	84	8	450	40	9	6	43	1.62
5258547--5258737	2	100.0	2	66	25	69	38	1	7	52	1.39
5258556--5258748	5	40.2	5	68	19	85	37	1	6	53	1.37
5258547--5258737	21	8.6	22	68	22	93	38	1	7	52	1.39
5258701--5258764	24	2.8	23	77	18	62	29	0	6	64	1.18
5264697--5264743	23	2.0	23	100	0	94	44	8	25	21	1.80
5266052--5266610	201	2.8	201	81	2	615	33	17	20	28	1.95
5267485--5267533	6	8.3	6	84	10	57	38	0	0	61	0.96
5267493--5267711	2	113.5	2	68	22	96	38	0	7	52	1.34
5267498--5267708	37	5.8	38	74	13	144	38	0	8	52	1.35
5267616--5267676	21	2.7	21	85	14	70	36	1	13	49	1.52
5267493--5267657	33	5.0	33	74	21	132	40	0	6	53	1.30
5267504--5267722	19	12.5	18	69	21	96	38	0	7	53	1.34
5267489--5267724	13	18.4	13	65	21	74	37	0	7	54	1.31
5268241--5268284	22	2.0	22	86	8	63	47	27	11	13	1.77
5271585--5271613	5	6.0	5	92	8	51	20	0	0	79	0.74
5271586--5271622	19	1.9	19	88	0	56	24	0	0	75	0.80
5271641--5271685	25	1.9	23	82	13	56	28	8	0	62	1.25
5271682--5271730	9	5.4	9	80	7	55	16	0	6	77	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5275260--5275515	95	2.7	95	87	3	334	33	16	17	32	1.93
5276553--5277845	84	15.5	84	82	2	1313	33	23	19	24	1.97
5276553--5277845	336	3.9	334	83	3	1468	33	23	19	24	1.97
5279185--5279209	5	5.0	5	100	0	50	20	0	0	80	0.72
5279277--5279318	8	5.2	8	86	11	59	14	2	0	83	0.75
5281532--5281684	8	19.6	8	70	20	78	23	3	2	70	1.14
5281535--5281684	17	9.0	17	71	17	93	23	3	2	70	1.15
5281536--5281634	25	3.9	24	78	16	94	22	2	3	72	1.08
5281524--5281683	15	10.3	15	69	23	68	23	3	2	70	1.14
5281871--5281917	21	2.2	21	85	7	60	14	6	0	78	0.93
5281952--5282000	20	2.4	21	83	16	68	10	2	8	79	1.01
5282021--5282060	12	3.2	13	89	6	57	0	5	10	85	0.75
5282021--5282061	13	3.2	13	93	3	66	0	4	9	85	0.73
5282014--5282084	22	3.1	23	75	15	76	2	8	9	78	1.05
5282117--5282164	23	2.1	22	85	11	62	14	6	0	79	0.92
5286452--5288021	85	18.4	85	85	1	1956	35	20	18	25	1.95
5286452--5288021	171	9.2	170	87	0	1956	35	20	18	25	1.95
5286452--5288021	256	6.1	255	86	0	1974	35	20	18	25	1.95
5289661--5289759	12	8.2	12	75	11	87	19	2	2	76	0.98
5289696--5289889	74	2.6	72	76	14	175	22	3	3	71	1.16
5290155--5290187	15	2.2	15	100	0	66	12	0	12	75	1.04
5290163--5290230	25	2.7	24	77	20	68	7	1	11	79	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5290254--5290325	31	2.3	30	78	17	76	20	6	0	72	1.08
5293865--5293929	23	2.8	23	92	0	103	26	23	16	33	1.96
5298146--5298200	20	2.6	21	85	11	76	30	20	30	18	1.96
5299568--5299780	103	2.1	103	92	0	354	27	13	22	37	1.91
5299796--5299887	23	4.0	23	86	0	130	20	27	25	27	1.99
5305253--5305350	3	32.7	3	89	0	151	32	2	0	65	1.04
5305839--5305871	17	1.9	17	88	11	50	72	9	15	3	1.21
5306775--5306819	20	2.2	21	88	4	65	37	2	2	57	1.23
5307519--5307553	18	1.9	18	88	11	54	31	5	2	60	1.35
5321757--5321806	1	50.0	1	79	0	55	90	0	10	0	0.47
5321752--5321796	12	4.0	12	86	13	69	86	0	13	0	0.57
5321771--5321805	9	3.9	9	100	0	70	91	0	8	0	0.42
5321755--5321807	11	5.2	10	86	8	72	86	0	13	0	0.56
5321752--5321803	12	4.2	12	83	13	61	86	0	13	0	0.57
5322953--5323353	52	7.7	52	98	0	784	22	15	24	37	1.93
5323395--5323535	52	2.7	52	100	0	282	22	14	24	38	1.92
5323213--5323614	182	2.2	182	98	0	777	26	14	22	36	1.92
5323395--5323552	52	3.1	48	93	6	221	24	15	24	36	1.94
5324203--5324844	113	5.7	113	96	0	1043	37	12	20	29	1.89
5325135--5325235	3	33.7	3	87	0	148	33	1	0	64	1.05
5325725--5325757	17	1.9	17	88	11	50	72	6	15	6	1.24
5326671--5326715	20	2.2	21	88	4	65	37	2	2	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5331639--5331690	23	2.3	23	89	0	86	36	9	25	28	1.87
5340021--5340101	23	3.5	24	83	5	94	35	24	19	19	1.95
5340100--5340168	23	3.0	23	86	2	93	30	23	27	18	1.98
5340290--5340349	30	2.0	30	86	0	84	38	25	11	25	1.89
5340301--5340349	15	3.3	15	77	11	55	38	26	10	24	1.87
5347079--5347139	24	2.6	23	86	2	68	27	26	22	22	1.99
5347094--5347139	23	2.0	24	91	4	76	30	26	19	23	1.98
5347263--5347318	15	3.7	15	73	0	58	35	21	12	30	1.90
5347251--5347327	30	2.6	30	85	0	100	40	23	10	25	1.86
5349171--5349234	29	2.2	28	78	8	65	42	3	17	37	1.65
5356386--5356892	250	2.0	250	100	0	1014	34	22	16	26	1.95
5357484--5357516	9	3.6	9	95	4	57	78	0	0	21	0.75
5357569--5357676	54	2.0	54	98	0	207	41	12	9	37	1.74
5364236--5364284	2	24.5	2	100	0	98	48	0	0	51	1.00
5365153--5365222	22	3.1	22	77	18	90	47	17	0	35	1.48
5365144--5365214	20	3.3	20	76	17	79	49	14	0	36	1.43
5365948--5366046	45	2.2	46	87	7	139	32	27	15	25	1.95
5366006--5366054	19	2.6	19	100	0	98	34	32	16	16	1.91
5374079--5374125	2	23.5	2	100	0	94	48	0	0	51	1.00
5384892--5385129	15	15.5	15	87	6	325	47	0	1	50	1.15
5385132--5385174	22	2.0	22	95	0	77	37	0	11	51	1.39
5385070--5385346	32	9.7	32	72	22	251	37	0	10	52	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5385109--5385314	54	3.8	54	96	0	376	36	0	10	52	1.35
5385285--5385341	18	3.4	18	67	18	59	31	0	14	54	1.40
5385326--5385368	22	2.0	22	90	0	68	37	0	11	51	1.39
5385208--5385378	86	2.0	86	96	0	315	36	0	11	52	1.37
5385392--5385451	31	1.9	31	93	0	102	43	10	6	40	1.64
5387074--5387135	30	2.1	30	96	0	115	25	19	19	35	1.95
5389695--5389764	36	2.0	35	94	2	122	40	8	0	51	1.33
5390396--5390422	13	2.1	13	100	0	54	14	55	14	14	1.70
5395891--5395937	3	15.3	3	82	12	51	40	0	0	59	0.97
5395879--5395956	21	3.9	21	76	23	80	48	0	0	51	1.00

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   27   28   29   30