genome.fa.s9639.2.7.7.80.10.50.1000.15.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   57   58   59   60   61   62   

This is table  15  of  62  ( 7398 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)
3347699--3347952	18	14.2	18	67	24	87	44	3	6	45	1.47
3347621--3347730	33	3.4	33	80	7	102	41	4	6	47	1.49
3347812--3347970	25	6.2	25	70	17	71	45	5	4	44	1.45
3347880--3348472	22	26.5	22	65	20	127	45	4	5	44	1.47
3348057--3348434	20	18.8	19	69	18	155	44	5	5	44	1.48
3348171--3348370	9	25.0	8	66	18	69	46	5	3	45	1.42
3348190--3348274	11	7.8	11	73	12	68	48	5	1	44	1.34
3348235--3348472	59	4.1	58	72	18	160	47	3	4	44	1.40
3347880--3348370	2	242.0	2	64	22	127	45	4	5	44	1.47
3348398--3348441	20	2.2	20	87	0	61	43	4	6	45	1.51
3349257--3349318	26	2.4	26	97	0	115	24	27	9	38	1.86
3349377--3349613	115	2.1	115	100	0	474	29	15	18	36	1.92
3358604--3359309	220	3.2	220	86	2	970	32	25	15	26	1.95
3365025--3365157	65	2.0	65	94	2	232	55	12	6	25	1.60
3370789--3370868	30	2.6	32	80	5	94	62	3	15	18	1.46
3372705--3372743	3	13.3	3	83	5	53	33	0	0	66	0.92
3372705--3372767	29	2.2	29	82	5	74	38	0	0	61	0.96
3373500--3373557	25	2.3	25	90	0	98	27	12	15	44	1.82
3374530--3374797	139	1.9	139	80	9	305	38	8	5	47	1.58
3375284--3375317	2	17.0	2	100	0	68	50	0	0	50	1.00
3376177--3376245	36	1.9	36	87	0	102	42	23	11	23	1.86
3377004--3377042	20	2.0	20	84	0	51	17	10	7	64	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383517--3383572	22	2.6	22	82	2	78	32	16	16	35	1.90
3384278--3384376	45	2.2	45	88	0	144	23	22	21	33	1.97
3384221--3384505	121	2.4	121	89	1	421	22	23	21	32	1.98
3384394--3384552	45	3.5	45	88	1	210	23	23	21	32	1.98
3384275--3384708	166	2.6	165	90	2	636	24	22	20	33	1.97
3384439--3384662	121	1.9	121	89	1	351	26	20	19	33	1.97
3384568--3384763	45	4.3	45	84	1	230	25	22	20	31	1.98
3384594--3384668	25	3.2	25	64	24	72	26	22	17	33	1.96
3384407--3384828	211	2.0	211	88	0	628	24	21	20	33	1.97
3384950--3384990	20	2.1	20	90	4	66	29	0	0	70	0.87
3384948--3385014	3	23.0	3	73	14	52	34	0	0	65	0.93
3384948--3385014	35	1.9	35	85	11	93	34	0	0	65	0.93
3384956--3385018	17	3.6	17	83	8	65	36	0	0	63	0.95
3386741--3387008	139	1.9	139	80	9	305	38	8	7	46	1.61
3396110--3396164	25	2.2	25	78	18	62	41	0	16	41	1.48
3396505--3396593	32	2.8	32	73	11	85	34	16	15	32	1.91
3398647--3398717	23	3.1	23	89	0	115	19	21	28	30	1.97
3398705--3398780	24	3.1	24	77	5	73	27	19	19	32	1.96
3403716--3403822	52	2.0	53	89	3	162	42	14	22	20	1.89
3411885--3411950	2	33.5	2	96	3	125	51	0	0	48	1.00
3419858--3419907	23	2.2	23	92	0	82	38	8	22	32	1.83
3419821--3419983	87	1.9	87	90	0	263	42	11	12	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3419984--3420505	198	2.6	195	81	7	624	31	15	14	38	1.88
3420688--3420754	19	3.6	19	81	2	73	52	11	0	35	1.39
3421917--3422876	200	4.8	200	87	2	1324	32	15	13	38	1.86
3421917--3422876	399	2.4	396	87	3	1363	32	15	13	38	1.86
3423112--3423148	18	2.1	18	89	0	56	51	10	5	32	1.60
3425816--3427376	202	7.8	200	84	4	1812	32	16	14	36	1.89
3425816--3427376	603	2.6	598	84	3	2044	32	16	14	36	1.89
3427393--3427442	15	3.3	15	94	0	91	22	12	24	42	1.87
3429343--3429393	18	2.8	18	90	0	84	5	39	0	54	1.24
3431745--3432149	182	2.2	182	89	0	621	29	18	13	39	1.88
3431990--3432297	162	1.9	162	94	0	544	31	15	12	41	1.83
3437535--3437582	23	2.1	23	100	0	96	29	16	18	35	1.93
3437777--3437805	15	1.9	15	100	0	58	37	0	0	62	0.96
3440774--3440850	33	2.3	33	88	0	118	37	14	38	9	1.78
3441063--3441661	181	3.3	181	89	2	859	40	14	16	28	1.87
3444112--3444235	65	1.9	66	80	5	144	34	2	39	23	1.68
3444333--3444381	18	3.1	15	78	18	55	59	0	28	12	1.34
3444340--3444396	18	3.2	18	97	0	105	57	0	31	10	1.32
3445948--3445996	19	2.6	19	96	0	89	32	2	6	59	1.34
3446348--3447905	200	7.8	200	88	1	2018	37	13	16	32	1.89
3446352--3447911	802	1.9	803	86	2	2231	37	13	16	32	1.88
3449401--3449436	3	12.0	3	93	0	63	33	2	30	33	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3450728--3450779	24	2.2	25	79	10	63	30	1	15	51	1.54
3450747--3450783	18	2.1	18	89	0	56	32	5	10	51	1.60
3450739--3450791	24	2.2	24	86	0	70	35	3	13	47	1.61
3451006--3451770	200	3.8	198	85	5	1008	39	13	15	32	1.86
3452926--3452969	19	2.3	19	92	0	70	31	2	13	52	1.53
3455626--3456141	200	2.6	197	83	6	621	38	13	14	32	1.86
3463087--3463132	20	2.2	21	88	3	67	41	4	8	45	1.55
3463170--3463201	16	2.0	16	93	0	55	28	12	15	43	1.83
3463393--3463448	19	2.9	19	94	2	94	37	19	7	35	1.79
3466391--3466463	20	3.7	19	87	5	92	36	19	8	35	1.81
3467952--3467992	14	3.1	14	76	16	52	26	2	4	65	1.25
3468187--3468217	16	1.9	16	93	0	53	67	0	9	22	1.19
3468835--3468875	17	2.4	17	95	0	73	24	26	36	12	1.91
3473446--3473975	14	38.1	14	71	23	77	61	0	0	37	1.02
3473476--3473970	5	99.8	5	84	14	656	61	0	0	38	0.98
3473476--3473970	91	5.4	95	85	13	641	61	0	0	38	0.98
3473475--3473967	8	65.0	7	72	25	238	61	0	0	38	0.98
3474192--3474451	52	5.0	52	88	3	364	29	15	25	29	1.96
3474539--3474950	52	7.9	52	89	1	592	28	16	24	30	1.96
3475332--3475774	36	12.2	36	87	2	546	23	21	15	39	1.92
3475332--3475774	110	4.1	110	86	4	549	23	21	15	39	1.92
3475915--3476058	61	2.4	60	90	5	220	31	14	27	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3476582--3476681	50	2.0	50	98	0	191	19	28	16	37	1.92
3479334--3479416	34	2.5	32	88	11	100	38	0	28	32	1.57
3479347--3479416	34	2.0	34	97	2	131	40	0	28	31	1.57
3479548--3479574	13	2.1	13	100	0	54	33	14	22	29	1.94
3479529--3479590	34	1.9	31	87	9	88	30	12	20	35	1.91
3480178--3480524	45	7.8	45	87	3	452	40	13	20	25	1.89
3480190--3480524	135	2.5	135	90	2	507	40	13	20	25	1.89
3485471--3486044	44	13.2	45	79	9	543	40	14	21	24	1.90
3485492--3486032	171	3.1	175	80	7	617	38	14	22	24	1.92
3485471--3486031	130	4.3	130	79	9	571	39	14	21	24	1.91
3490205--3490245	13	3.3	13	76	13	50	36	2	4	56	1.34
3490208--3490253	21	2.0	23	88	12	69	32	2	4	60	1.28
3492058--3492183	30	4.2	30	92	0	198	8	26	26	38	1.85
3493038--3493106	24	2.9	24	89	2	104	20	18	28	31	1.96
3496453--3496487	2	18.0	2	94	5	63	51	0	0	48	1.00
3496455--3496484	15	2.0	15	100	0	60	53	0	0	46	1.00
3496453--3496486	17	2.0	17	100	0	68	52	0	0	47	1.00
3498292--3498475	85	2.2	85	88	2	262	25	14	23	36	1.93
3502716--3502756	20	2.0	21	85	4	57	36	12	17	34	1.87
3503736--3503808	31	2.4	31	81	2	85	30	5	27	36	1.79
3504839--3505008	45	3.7	45	90	4	270	39	6	21	32	1.79
3513449--3513499	17	3.0	17	94	0	93	23	39	0	37	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3516758--3516799	19	2.2	19	83	8	50	30	35	4	28	1.78
3525116--3525230	61	1.9	60	82	5	142	45	5	19	30	1.72
3528021--3528052	16	2.1	16	94	5	57	43	3	15	37	1.63
3528351--3528386	16	2.4	16	90	9	58	58	0	0	41	0.98
3528496--3528575	8	10.2	8	70	20	53	51	1	1	46	1.17
3528495--3528569	13	5.8	13	73	14	57	53	1	1	44	1.17
3530329--3530379	20	2.5	20	83	0	66	31	19	21	27	1.97
3534816--3534888	31	2.4	30	82	8	94	23	20	35	20	1.96
3535135--3535179	23	2.0	23	90	0	72	62	0	31	6	1.21
3535741--3535812	30	2.4	29	84	6	99	23	20	34	20	1.96

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   57   58   59   60   61   62