genome.fa.s8319.2.7.7.80.10.50.1000.16.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  16  of  21  ( 2487 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)
3375967--3376109	69	2.1	69	94	0	250	34	1	24	39	1.64
3376707--3376822	42	2.7	43	84	4	155	18	15	17	49	1.80
3377005--3377123	31	4.1	31	71	20	87	47	0	1	49	1.17
3377013--3377056	22	2.0	23	86	4	63	45	0	0	54	0.99
3377112--3377175	28	2.2	28	86	8	85	48	0	1	50	1.10
3377133--3377185	20	2.7	19	73	18	54	49	0	1	49	1.12
3377180--3377224	23	2.0	23	86	0	63	53	2	2	42	1.25
3377299--3377359	21	3.0	21	75	18	67	50	0	3	45	1.17
3377485--3377525	14	2.9	14	88	0	55	36	19	14	29	1.92
3377515--3377564	20	2.5	20	100	0	100	34	16	10	40	1.81
3377547--3377617	30	2.4	30	95	2	126	32	16	7	43	1.75
3377547--3377617	15	4.8	15	81	8	92	32	16	7	43	1.75
3378801--3378915	43	2.6	44	80	5	117	33	24	22	20	1.97
3378830--3378915	43	2.0	42	86	2	118	33	24	24	17	1.96
3383287--3383660	44	8.6	43	82	3	365	36	22	20	20	1.95
3383288--3383655	87	4.2	86	81	5	366	36	22	20	20	1.96
3383287--3383660	43	8.6	42	81	3	320	36	22	20	20	1.95
3393460--3393650	98	1.9	98	92	0	319	32	13	20	34	1.91
3397050--3397306	124	2.1	124	97	0	487	17	8	14	58	1.62
3397943--3398021	38	2.1	38	100	0	158	16	21	24	37	1.93
3399798--3399859	31	2.0	31	90	0	97	20	14	12	51	1.75
3406227--3406280	25	2.2	25	82	0	63	59	1	0	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3406263--3406296	18	1.9	17	88	5	50	52	0	0	47	1.00
3408964--3409012	15	2.9	15	78	21	53	34	20	24	20	1.96
3414309--3414333	13	1.9	13	100	0	50	0	32	0	68	0.90
3415003--3415080	24	3.2	24	94	0	138	25	17	25	30	1.97
3415994--3416021	14	2.0	14	100	0	56	28	0	28	42	1.56
3416164--3416255	31	2.9	32	73	16	84	34	15	16	33	1.90
3417178--3417272	45	2.1	46	86	5	131	31	7	21	40	1.80
3417324--3417355	8	4.0	8	95	0	55	46	0	15	37	1.46
3417716--3417805	6	14.8	6	76	2	72	40	1	25	33	1.63
3417711--3417804	18	5.1	18	77	3	89	39	1	26	32	1.64
3419090--3419123	2	17.0	2	100	0	68	50	0	0	50	1.00
3421670--3421711	16	2.6	16	88	0	57	45	21	2	30	1.65
3434223--3434262	21	1.9	21	89	0	62	37	5	5	52	1.45
3434727--3434862	57	2.4	57	83	7	177	11	11	17	59	1.60
3437446--3437470	9	2.8	9	100	0	50	44	0	36	20	1.52
3442950--3443015	33	2.0	33	96	3	123	24	13	48	13	1.79
3447816--3447854	2	19.5	2	100	0	78	48	0	0	51	1.00
3456399--3456435	17	2.2	17	95	0	65	67	13	0	18	1.23
3461136--3461161	7	3.7	7	100	0	52	88	11	0	0	0.52
3461121--3461168	17	3.0	17	74	22	50	77	10	6	6	1.13
3462179--3462341	87	1.9	87	96	0	299	42	10	12	33	1.77
3462477--3463318	182	4.6	182	93	1	1431	28	16	13	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3462477--3463317	362	2.3	363	93	1	1427	27	17	13	41	1.86
3465979--3466315	184	1.8	184	93	0	584	33	15	13	37	1.86
3467604--3467673	12	5.8	12	84	0	77	18	31	10	40	1.84
3467622--3467673	6	8.7	6	75	8	52	17	30	9	42	1.81
3471697--3471737	21	2.0	21	90	0	64	19	26	12	41	1.87
3471820--3471852	15	2.2	15	94	0	57	9	63	9	18	1.49
3473996--3474413	182	2.3	181	88	2	615	27	16	13	42	1.85
3478608--3478637	14	2.1	14	93	0	51	23	33	6	36	1.81
3480441--3480483	22	2.0	22	95	0	77	39	11	4	44	1.62
3487367--3487435	29	2.4	29	82	0	84	33	31	7	27	1.84
3492419--3492532	61	1.9	61	85	1	158	44	10	12	32	1.76
3493309--3493677	20	18.5	20	84	5	442	34	26	18	20	1.95
3494360--3494406	24	2.0	24	87	8	69	25	14	21	38	1.92
3494581--3494605	12	2.1	12	100	0	50	72	0	28	0	0.86
3496888--3497180	19	16.4	19	83	14	392	47	18	20	14	1.83
3496916--3497202	52	5.4	55	90	8	356	46	17	21	14	1.83
3496888--3497202	128	2.6	128	88	7	462	46	18	20	14	1.83
3497209--3497310	19	5.6	19	85	12	151	14	23	17	44	1.86
3497417--3497453	14	2.6	14	91	0	65	45	21	0	32	1.52
3499356--3499488	19	7.6	19	76	17	110	45	24	19	11	1.83
3499393--3499483	33	2.8	33	91	3	150	46	21	20	10	1.82
3499492--3499572	33	2.5	33	91	4	128	7	19	27	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3499511--3499609	19	5.4	19	78	12	109	9	17	28	45	1.78
3499653--3500123	92	5.1	92	98	0	897	46	18	12	22	1.83
3501829--3501918	14	5.7	14	74	23	81	42	23	25	8	1.83
3501821--3501935	33	3.5	33	95	0	212	45	20	24	9	1.81
3501828--3501940	19	6.8	18	72	23	88	43	22	24	9	1.83
3501952--3502006	14	3.6	14	73	21	56	9	25	23	41	1.83
3501936--3502006	33	2.2	33	94	0	124	8	22	25	43	1.81
3501947--3502028	33	2.5	33	89	2	119	9	25	21	42	1.84
3501959--3502047	20	4.8	20	72	19	75	12	24	19	43	1.85
3502127--3502197	33	2.2	33	92	0	115	47	18	22	11	1.80
3502378--3502432	22	2.5	22	81	0	74	20	16	40	23	1.91
3502578--3502770	20	9.6	20	80	5	210	19	19	25	35	1.96
3502578--3502770	60	3.2	60	82	0	242	19	19	25	35	1.96
3502826--3502877	20	2.6	20	93	0	86	23	13	25	38	1.91
3506480--3506521	17	2.5	17	92	0	75	45	14	19	21	1.85
3510160--3510204	23	2.0	23	100	0	90	44	0	26	28	1.55
3511547--3511586	20	2.0	20	85	0	53	37	2	5	55	1.35
3514082--3514127	22	2.2	20	84	7	56	19	2	8	69	1.25
3514925--3514965	2	20.5	2	100	0	82	51	0	0	48	1.00
3518136--3518165	15	2.0	15	100	0	60	13	13	20	53	1.72
3529083--3529134	9	6.1	9	76	13	56	32	1	1	63	1.16
3529082--3529131	17	3.0	17	91	2	75	34	2	4	60	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529091--3529136	16	2.9	16	87	6	58	30	2	2	65	1.16
3530822--3530880	27	2.2	27	84	0	73	15	44	16	23	1.86
3533875--3533924	26	2.0	24	88	7	73	24	22	20	34	1.97
3543456--3543499	22	2.0	23	81	4	54	29	9	4	56	1.50
3543931--3543960	15	2.0	15	93	0	51	43	0	0	56	0.99
3546222--3546281	20	2.9	20	78	9	59	61	1	1	35	1.16
3546431--3546481	25	2.0	25	88	0	75	41	9	13	35	1.78
3546536--3546590	2	28.0	2	96	3	103	49	0	0	50	1.00
3546635--3546681	16	2.8	16	74	20	51	29	2	2	65	1.15
3548577--3548733	74	2.1	74	79	3	163	43	12	7	36	1.72
3556551--3556584	17	2.0	17	88	0	50	29	32	26	11	1.92
3557508--3557542	2	17.5	2	100	0	70	48	0	0	51	1.00
3558365--3558400	16	2.2	17	90	5	56	47	0	0	52	1.00
3559220--3559285	32	2.1	32	83	11	82	72	1	7	18	1.15
3559275--3559337	25	2.6	23	82	12	72	73	0	11	15	1.10
3559347--3559378	3	10.7	3	93	0	55	65	3	0	31	1.08
3559337--3559447	12	8.9	12	69	12	55	67	1	7	23	1.25
3559406--3559468	28	2.2	30	80	8	76	63	0	7	28	1.22
3559536--3559605	22	3.3	20	78	11	70	62	0	11	25	1.28
3559550--3559602	19	2.7	20	74	11	56	62	0	9	28	1.26
3559626--3559682	21	2.8	21	76	12	64	71	0	1	26	0.95
3559627--3559689	25	2.4	27	76	13	67	69	0	3	26	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3560065--3560174	37	3.0	37	88	5	170	34	9	13	42	1.76
3560069--3560172	35	2.9	36	88	4	156	34	7	14	43	1.74
3560143--3560767	311	2.0	312	95	0	1135	36	7	13	43	1.71
3562898--3562944	17	2.7	18	80	12	53	57	4	0	38	1.18
3565172--3565220	25	2.0	25	91	0	80	24	4	20	51	1.65
3567074--3567210	69	2.0	68	83	8	172	27	12	10	49	1.73
3570407--3570489	23	3.6	23	93	0	130	20	28	25	25	1.99
3577209--3577315	23	4.7	23	92	0	178	18	25	27	28	1.98
3588190--3588250	23	2.7	22	82	5	77	22	29	24	22	1.99
3592401--3592447	13	3.5	13	82	11	51	29	27	4	38	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21