genome.fa.s8356.2.7.7.80.10.50.1000.34.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  34  of  56  ( 6656 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)
7347164--7347231	3	23.3	3	83	5	86	35	1	2	60	1.21
7348633--7348662	14	2.1	14	93	0	51	36	6	3	53	1.44
7348660--7348708	24	2.1	23	84	3	62	32	2	2	63	1.17
7348958--7349015	28	2.1	28	81	12	66	34	0	0	65	0.93
7348967--7349017	14	3.6	14	81	2	57	33	0	0	66	0.92
7348976--7349019	18	2.4	18	84	0	61	29	0	0	70	0.88
7352170--7352241	10	7.4	9	73	14	63	18	26	27	27	1.98
7352169--7352243	19	3.8	19	83	11	82	20	25	26	28	1.99
7358690--7358759	10	7.3	9	70	12	50	18	27	27	27	1.98
7358690--7358734	10	4.6	10	81	13	58	15	28	28	26	1.96
7358690--7358734	20	2.3	20	88	3	65	15	28	28	26	1.96
7358754--7358788	14	2.4	15	90	4	54	20	48	20	11	1.79
7358784--7358820	7	5.6	7	81	12	51	16	32	27	24	1.96
7363657--7363683	13	2.1	13	100	0	54	22	0	14	62	1.31
7367550--7368008	231	2.0	232	93	1	778	35	19	6	38	1.78
7372847--7372892	24	1.9	24	82	8	58	23	26	6	43	1.78
7374322--7374960	317	2.0	318	92	0	1057	38	12	21	27	1.90
7377563--7377637	29	2.6	29	80	0	87	22	25	14	37	1.92
7388140--7388201	23	2.7	23	97	2	117	6	33	0	59	1.23
7397755--7397807	27	2.0	27	85	3	72	30	16	22	30	1.96
7400671--7400727	9	6.4	8	81	16	60	1	17	0	80	0.79
7400678--7400727	5	10.8	5	79	12	54	2	18	0	80	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7400671--7400727	14	4.2	13	82	14	71	1	17	0	80	0.79
7400678--7400729	19	2.7	19	82	14	70	1	17	0	80	0.80
7400671--7400728	13	4.2	14	71	20	50	1	17	0	81	0.78
7405435--7405487	3	17.7	3	96	0	97	33	1	0	64	1.05
7406906--7406951	20	2.3	20	85	3	58	32	0	26	41	1.56
7408532--7408945	49	8.4	49	90	1	623	29	21	13	35	1.92
7412737--7412786	20	2.5	20	100	0	100	38	0	34	28	1.57
7413790--7413833	17	2.5	18	85	7	63	22	22	13	40	1.89
7415341--7415476	60	2.3	60	83	6	170	31	14	17	36	1.90
7430677--7430819	77	1.9	76	92	1	241	32	8	11	46	1.71
7434011--7434200	90	2.1	90	94	0	326	46	5	11	36	1.64
7437749--7437790	21	2.0	21	90	9	68	61	0	21	16	1.34
7437731--7437806	27	2.9	27	81	14	88	63	0	22	14	1.31
7443931--7444002	27	2.7	26	89	8	85	31	15	23	29	1.95
7443947--7444002	27	2.1	27	100	0	112	30	19	21	28	1.98
7447841--7447886	23	2.0	23	83	8	58	54	15	2	28	1.53
7459711--7459757	20	2.3	20	85	10	60	29	27	17	25	1.97
7461788--7461833	25	1.9	23	86	8	65	50	8	6	34	1.59
7468842--7468892	24	2.3	22	76	10	59	35	15	21	27	1.94
7470809--7470847	13	2.9	13	85	7	51	15	20	0	64	1.30
7472312--7472352	13	3.3	13	73	13	50	43	0	2	53	1.13
7472276--7472402	39	3.2	39	78	12	100	42	2	3	51	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7472432--7472507	34	2.2	36	79	9	86	40	0	3	55	1.18
7472967--7473016	23	2.2	23	81	0	55	36	8	18	38	1.80
7472939--7473099	87	1.9	87	89	0	250	40	11	13	34	1.80
7473096--7473507	198	2.1	201	86	4	566	31	16	13	38	1.88
7476164--7476209	19	2.4	19	92	0	74	54	8	6	30	1.56
7477784--7478940	198	5.8	199	87	2	1469	31	15	13	38	1.87
7482758--7482807	15	3.1	15	83	13	64	24	6	40	30	1.79
7483131--7483530	201	2.0	201	91	1	640	32	14	14	39	1.86
7483292--7483836	180	3.0	179	78	9	649	31	15	14	37	1.88
7483352--7483903	180	3.1	179	79	8	690	31	15	15	37	1.88
7483646--7484859	201	6.0	201	90	0	1888	32	15	14	36	1.89
7486897--7486931	18	1.9	18	94	0	61	5	34	0	60	1.21
7487594--7487649	24	2.4	23	80	8	69	50	7	0	42	1.30
7489804--7490138	162	2.1	163	89	1	503	27	18	11	42	1.85
7492826--7492875	6	8.3	6	100	0	100	16	68	0	16	1.22
7499059--7499107	12	4.3	11	81	2	53	46	0	0	53	1.00
7503138--7503255	21	5.6	21	97	2	204	47	19	18	14	1.82
7507883--7508453	55	10.4	55	91	1	923	30	13	25	30	1.94
7508774--7508806	3	11.3	3	87	6	50	39	0	0	60	0.97
7512821--7512948	21	6.1	21	93	1	213	46	18	17	16	1.84
7517573--7518078	55	9.2	55	91	0	807	31	13	25	29	1.94
7517573--7518163	110	5.4	112	81	9	589	31	14	25	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7518411--7518446	3	12.3	3	94	5	65	36	0	0	63	0.94
7521370--7521426	25	2.3	25	90	0	96	42	19	29	8	1.81
7526880--7526923	22	2.0	22	86	0	61	34	11	31	22	1.90
7537462--7537490	15	1.9	15	100	0	58	51	6	0	41	1.28
7541054--7541081	13	2.2	13	100	0	56	64	14	0	21	1.29
7541961--7542049	3	29.3	3	84	6	117	59	1	0	39	1.05
7541962--7542049	28	3.2	28	87	6	85	60	1	0	38	1.04
7542719--7542757	2	19.5	2	94	0	69	51	0	0	48	1.00
7542907--7542940	2	17.0	2	100	0	68	50	0	0	50	1.00
7543429--7543474	23	2.0	23	83	8	58	21	8	6	63	1.46
7544891--7544975	42	2.0	43	83	2	109	30	8	24	36	1.85
7545059--7545091	7	4.7	7	85	14	50	15	18	9	57	1.63
7545059--7545091	13	2.3	15	90	10	52	15	18	9	57	1.63
7547031--7547066	10	3.7	10	85	7	56	58	25	11	5	1.54
7547028--7547068	19	2.2	19	100	0	82	58	26	9	4	1.50
7547659--7547703	9	4.8	9	86	8	63	84	0	15	0	0.62
7547659--7547704	10	4.6	10	86	5	58	84	0	15	0	0.62
7550047--7550187	75	1.9	75	93	0	246	31	13	21	33	1.92
7550168--7550209	17	2.5	17	96	0	75	28	7	16	47	1.73
7551072--7551506	54	8.1	54	83	6	517	38	13	22	25	1.91
7551072--7551506	108	4.0	108	89	1	640	38	13	22	25	1.91
7551873--7551930	22	2.6	23	91	5	93	32	12	13	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7552611--7552831	116	1.9	117	93	0	381	30	21	20	28	1.98
7552802--7552844	22	2.0	22	95	0	77	37	18	25	18	1.94
7552727--7552927	96	2.1	96	95	0	357	29	18	21	29	1.97
7552611--7553043	212	2.0	213	92	0	724	30	20	20	28	1.98
7552823--7553085	116	2.3	116	93	0	436	30	19	20	28	1.97
7553166--7553203	20	1.9	20	100	0	76	31	28	21	18	1.97
7553363--7553433	3	23.3	3	83	8	90	38	0	1	60	1.06
7553373--7553437	16	4.0	16	77	18	80	41	0	0	58	0.98
7553366--7553433	19	3.7	19	86	3	95	38	0	1	60	1.06
7554996--7555021	2	13.0	2	100	0	52	50	0	0	50	1.00
7556092--7556128	17	2.2	17	100	0	74	16	16	5	62	1.51
7558084--7558442	45	8.0	45	90	1	535	31	24	5	37	1.79
7558084--7558442	89	4.0	89	91	2	533	31	24	5	37	1.79
7558084--7558442	133	2.7	134	91	1	567	31	24	5	37	1.79
7562135--7562670	44	12.0	45	87	1	715	32	22	6	38	1.79
7562135--7562670	89	6.0	89	88	1	779	32	22	6	38	1.79
7564080--7564142	21	3.0	22	69	9	67	34	22	23	19	1.96
7563890--7564266	116	3.2	116	95	0	648	30	22	20	27	1.98
7564520--7564600	12	6.9	12	73	16	71	41	0	0	58	0.98
7564531--7564598	3	22.3	3	82	8	84	41	0	0	58	0.98
7564530--7564610	38	2.1	38	84	4	101	45	0	0	54	0.99
7566483--7566530	24	2.0	24	91	4	78	10	18	52	18	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7566483--7566530	12	3.9	12	88	2	69	10	18	52	18	1.74
7573722--7573823	44	2.3	44	86	3	134	31	18	18	31	1.95
7577716--7577877	65	2.5	64	82	7	195	32	22	16	29	1.95
7585412--7585469	20	2.9	20	94	0	98	32	34	13	18	1.91
7585480--7585641	65	2.5	64	80	6	175	32	22	15	30	1.95
7585480--7585659	64	2.8	63	77	9	175	31	22	16	30	1.96
7593416--7593458	19	2.3	19	83	0	50	46	6	4	41	1.51
7600498--7600540	21	2.2	20	91	8	70	76	0	9	13	1.01
7600577--7600615	22	1.9	21	85	15	55	79	0	10	10	0.94
7608647--7608701	26	2.1	27	93	3	94	65	0	10	23	1.24

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56