genome.fa.s8041.2.7.7.80.10.50.1000.15.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

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  15  of  21  ( 2430 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)
3439232--3439446	44	4.9	44	91	1	342	40	11	23	24	1.87
3443164--3443453	49	5.9	49	93	0	474	41	16	19	23	1.90
3444111--3444311	104	1.9	105	84	3	271	39	11	13	34	1.81
3445301--3445342	21	2.0	21	100	0	84	52	9	23	14	1.71
3445856--3445893	19	2.0	19	94	0	67	28	0	23	47	1.52
3447263--3447319	25	2.5	22	77	11	60	47	1	1	49	1.22
3447280--3447328	21	2.3	20	89	6	71	53	0	0	46	1.00
3447352--3447378	13	2.1	13	100	0	54	48	0	0	51	1.00
3456018--3456339	55	6.0	55	87	4	460	35	15	11	36	1.85
3456024--3456339	104	2.9	104	87	6	418	35	15	11	37	1.84
3463008--3463146	54	2.6	54	91	1	215	36	15	11	35	1.84
3466846--3466912	21	3.2	20	83	8	80	25	13	34	26	1.93
3466883--3466924	21	2.0	21	85	0	57	21	14	33	30	1.93
3481389--3481843	46	9.9	46	90	0	658	44	11	21	22	1.85
3481389--3481461	26	3.0	26	73	22	95	43	15	21	19	1.87
3481606--3481829	26	9.5	26	67	23	111	43	12	21	22	1.86
3481721--3481843	20	5.6	20	68	20	75	41	10	23	24	1.86
3484979--3485085	24	4.5	24	77	0	106	51	15	8	24	1.71
3484981--3485085	48	2.2	48	85	0	147	51	16	8	23	1.72
3487395--3487434	18	2.2	18	90	0	62	10	22	45	22	1.82
3489291--3489354	30	2.1	30	97	0	119	29	17	25	28	1.97
3490564--3490614	18	2.9	17	82	11	59	47	1	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3490569--3490614	17	2.6	17	83	13	58	50	2	0	47	1.13
3490353--3490773	213	2.0	208	97	2	788	36	9	12	42	1.75
3491714--3491747	15	2.2	16	94	5	61	79	0	5	14	0.91
3493231--3493299	3	23.3	3	97	2	131	66	0	0	33	0.92
3493420--3493627	69	3.0	69	99	0	407	35	9	8	47	1.66
3498847--3499196	186	1.9	186	85	1	486	28	18	17	34	1.94
3500268--3500309	19	2.2	20	91	4	68	54	4	16	23	1.61
3501677--3501721	21	2.2	20	88	11	65	64	0	4	31	1.13
3502851--3502926	3	26.0	3	74	15	70	64	0	3	31	1.12
3503285--3503843	47	11.9	47	92	1	879	28	20	21	29	1.98
3503285--3503843	187	3.0	187	90	2	861	28	20	21	29	1.98
3503802--3503910	42	2.6	42	83	2	112	33	22	17	26	1.96
3504975--3505136	54	3.0	54	88	0	243	25	22	14	37	1.92
3506009--3506261	75	3.4	75	80	3	251	31	20	15	31	1.94
3508386--3508530	72	2.0	72	95	0	263	31	19	22	26	1.98
3513546--3513837	151	2.0	147	81	6	349	45	8	7	38	1.63
3513970--3514014	21	2.2	20	88	11	65	64	0	4	31	1.13
3514958--3515059	3	34.3	3	75	13	95	65	0	1	32	1.04
3514958--3515059	24	4.3	24	82	1	125	65	0	1	32	1.04
3514958--3515059	48	2.1	47	91	5	161	65	0	1	32	1.04
3516224--3516282	6	10.2	6	81	7	68	32	27	16	23	1.96
3516230--3516282	22	2.3	22	83	6	61	32	26	16	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3516854--3516917	16	4.2	14	75	15	56	35	0	0	64	0.94
3516885--3516909	2	12.5	2	100	0	50	48	0	0	52	1.00
3518710--3518756	25	1.9	24	86	4	67	51	0	0	48	1.00
3518779--3518810	16	2.1	15	94	5	55	53	3	0	43	1.16
3521923--3522068	23	6.6	23	68	18	96	45	0	4	48	1.28
3521969--3522002	2	17.5	2	87	6	52	50	2	0	47	1.16
3521923--3522064	20	6.6	21	68	22	73	45	0	4	48	1.29
3522031--3522100	35	2.0	34	83	10	88	42	2	7	47	1.45
3533842--3533939	48	2.0	48	100	0	196	32	19	13	34	1.90
3534769--3534793	2	12.5	2	100	0	50	48	0	0	52	1.00
3537264--3537872	225	2.7	224	80	6	608	31	19	17	31	1.95
3537493--3538035	224	2.4	222	78	8	501	33	19	17	30	1.95
3538337--3538386	23	2.2	23	82	10	59	42	0	8	50	1.32
3538337--3538386	22	2.3	22	80	10	59	42	0	8	50	1.32
3541540--3541586	20	2.3	20	82	17	62	38	17	29	14	1.89
3541609--3541681	19	3.6	20	70	15	60	34	16	21	27	1.95
3542072--3542324	47	5.4	47	90	1	346	43	8	21	26	1.81
3542109--3542239	27	5.4	27	67	23	110	41	9	21	26	1.84
3542086--3542213	20	5.7	20	67	22	76	39	10	25	24	1.87
3547674--3547720	20	2.3	20	86	13	62	38	17	27	17	1.91
3548185--3548238	27	2.2	23	72	25	56	50	9	16	24	1.74
3548194--3548384	27	7.9	25	71	23	126	42	10	22	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3548230--3548310	20	3.7	20	76	20	90	40	9	28	20	1.85
3548203--3548421	47	4.7	47	90	2	325	42	11	22	23	1.86
3548230--3548404	20	7.8	20	67	24	82	41	12	25	21	1.87
3550652--3550721	36	1.9	36	94	0	122	32	12	12	41	1.82
3553633--3553686	25	2.2	25	83	6	65	74	0	3	22	0.98
3553700--3553733	5	6.8	5	87	12	52	82	0	0	17	0.67
3553700--3553742	19	2.3	19	84	8	52	79	0	0	20	0.74
3553894--3553936	18	2.4	18	88	0	59	72	0	9	18	1.11
3555085--3555674	270	2.2	270	89	1	914	26	16	23	34	1.95
3555613--3555877	123	2.1	122	78	5	282	26	13	22	38	1.90
3556885--3556919	6	6.0	6	86	6	54	2	14	0	82	0.77
3561274--3561309	9	4.0	9	100	0	72	55	0	22	22	1.44
3561591--3561616	4	6.5	4	100	0	52	76	0	0	23	0.78
3561810--3561843	17	2.0	17	88	0	50	73	0	8	17	1.08
3562788--3563025	119	2.0	119	91	0	386	33	16	16	33	1.92
3563297--3563583	141	2.0	142	97	0	549	31	17	14	36	1.90
3566532--3566707	94	1.9	93	82	10	225	40	13	21	24	1.89
3567142--3567475	46	7.3	46	90	0	533	44	11	21	21	1.84
3567166--3567492	20	14.6	20	70	20	150	44	11	22	22	1.85
3574294--3574507	26	9.0	25	70	20	147	46	11	20	21	1.82
3574201--3574376	46	3.8	46	88	0	253	45	10	21	22	1.82
3574294--3574448	72	2.2	71	94	1	274	45	10	21	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574391--3574468	20	3.7	20	70	21	68	43	8	25	21	1.82
3574365--3574492	45	2.8	45	94	4	213	46	11	21	21	1.82
3574247--3574507	117	2.2	118	90	2	409	46	11	19	21	1.82
3579946--3580571	46	13.3	46	84	6	815	21	21	12	44	1.85
3580298--3580379	12	6.5	12	67	25	53	20	24	13	41	1.88
3580250--3580447	108	1.8	109	91	2	326	20	22	13	43	1.86
3580392--3580559	20	7.5	20	69	21	102	20	24	11	43	1.85
3580203--3580492	154	1.9	155	91	1	474	21	22	12	43	1.85
3580111--3580571	246	1.9	247	89	1	728	21	21	12	44	1.85
3580157--3580539	200	1.9	201	89	1	597	21	22	12	44	1.85
3582841--3583052	2	111.5	2	72	19	125	44	2	2	50	1.29
3582885--3583057	65	2.7	63	83	8	210	45	3	2	48	1.32
3583339--3583456	44	2.7	44	77	2	121	20	26	21	32	1.97
3583660--3583756	42	2.3	43	81	10	112	24	18	18	38	1.93
3583909--3583934	13	2.0	13	100	0	52	30	15	23	30	1.95
3590502--3590557	14	4.1	14	81	6	62	46	0	1	51	1.11
3590503--3590560	28	2.2	26	84	12	73	44	0	1	53	1.10
3598269--3598318	19	2.7	19	84	9	59	30	2	14	54	1.51
3599446--3599480	18	1.9	18	100	0	70	17	22	34	25	1.96
3610615--3610653	16	2.4	16	82	0	51	53	0	0	46	1.00
3611040--3611088	2	24.5	2	100	0	98	48	0	0	51	1.00
3611235--3611268	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3611282--3611360	40	1.9	42	82	10	101	50	3	0	45	1.19
3611403--3611445	14	3.2	13	83	12	52	51	0	4	44	1.22
3613890--3614066	96	1.8	96	82	0	228	43	19	10	26	1.83
3615375--3615563	96	2.0	96	82	4	229	41	17	11	29	1.84
3619879--3620055	96	1.8	97	82	1	230	43	18	10	27	1.83
3629880--3629937	3	19.7	3	92	3	100	34	1	0	63	1.04
3630415--3630457	3	14.7	3	90	4	70	34	2	0	62	1.08
3630415--3630454	20	2.0	20	95	5	71	35	2	0	62	1.09
3632974--3633063	45	2.0	47	86	4	130	35	13	20	31	1.91
3645233--3645314	42	2.0	42	88	9	123	32	10	20	35	1.88

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