genome.fa.s9463.2.7.7.80.10.50.1000.18.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

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

This is table  18  of  20  ( 2327 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)
3417587--3417628	15	3.0	14	83	10	50	14	16	14	54	1.71
3417687--3417738	6	8.7	6	80	0	59	23	17	7	51	1.70
3417687--3417765	24	3.2	24	81	10	95	21	15	7	55	1.64
3417687--3417738	12	4.3	12	97	0	95	23	17	7	51	1.70
3420151--3420184	12	2.8	12	86	4	50	88	0	11	0	0.52
3420155--3420193	17	2.2	18	95	4	71	84	0	15	0	0.62
3421705--3421926	114	1.9	114	89	0	345	34	15	19	31	1.93
3422102--3422164	31	2.0	31	93	0	108	36	19	12	31	1.89
3422909--3422974	35	1.9	34	93	3	114	31	10	24	33	1.89
3423020--3423192	76	2.3	77	85	2	233	30	13	24	31	1.94
3424562--3424616	22	2.5	22	84	0	74	34	16	12	36	1.87
3425023--3426369	113	11.9	113	96	0	2417	35	15	20	28	1.93
3426712--3426794	3	28.0	3	80	2	96	30	1	0	68	0.97
3426708--3426794	15	5.9	15	87	2	106	28	1	0	70	0.95
3427332--3427368	18	2.1	18	95	5	67	51	35	10	2	1.51
3438069--3438112	21	2.2	20	83	4	52	34	6	0	59	1.24
3444078--3444175	45	2.2	44	90	5	160	32	2	12	53	1.50
3446044--3446481	41	10.8	41	71	7	275	38	15	15	30	1.89
3446034--3446422	161	2.4	161	80	5	417	39	16	15	29	1.89
3446044--3446489	81	5.5	80	76	4	367	38	15	15	30	1.89
3451078--3451123	18	2.6	18	100	0	92	39	17	19	23	1.92
3452144--3452266	51	2.4	51	87	2	167	23	6	39	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3453100--3453166	35	1.9	35	93	0	116	25	16	22	35	1.94
3455235--3455292	30	1.9	30	89	0	89	17	34	5	43	1.71
3456495--3456553	21	2.8	21	72	10	57	32	25	20	22	1.98
3456541--3456755	20	10.6	20	73	11	134	39	24	17	18	1.92
3456602--3456768	81	2.0	80	93	3	264	38	25	17	18	1.92
3456618--3456768	41	3.7	41	92	1	268	39	25	17	17	1.92
3456602--3456768	20	8.2	20	78	8	176	38	25	17	18	1.92
3456887--3457014	20	6.4	20	88	1	168	35	22	21	20	1.96
3457874--3457927	24	2.2	24	93	0	90	20	18	20	40	1.91
3460368--3460442	20	3.8	20	89	0	114	36	24	21	18	1.95
3460335--3460440	40	2.8	41	86	10	138	35	23	21	18	1.95
3460414--3460509	33	2.8	33	87	3	120	42	19	22	14	1.88
3460524--3460619	33	2.8	33	84	3	111	15	22	18	42	1.88
3460721--3460757	14	2.6	14	86	0	56	48	21	0	29	1.50
3462098--3462189	42	2.2	42	82	3	105	21	17	35	25	1.95
3462699--3462767	20	3.5	20	89	0	93	37	23	18	20	1.94
3462810--3462886	33	2.4	32	89	4	111	10	22	24	42	1.84
3462975--3463354	94	4.1	94	96	1	674	47	18	12	21	1.82
3465043--3465117	20	3.8	20	81	10	82	42	20	24	13	1.87
3465043--3465099	20	2.9	19	89	7	87	38	22	24	14	1.91
3465034--3465179	19	8.1	19	72	17	114	44	19	23	12	1.84
3465083--3465174	33	2.8	33	94	0	166	46	20	21	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3465186--3465263	20	3.8	20	80	9	95	11	17	19	51	1.76
3465821--3466095	20	13.6	20	73	14	181	20	18	22	37	1.94
3465823--3466034	41	5.2	41	88	1	293	21	19	22	36	1.95
3465823--3466034	61	3.5	59	78	6	174	21	19	22	36	1.95
3465820--3466095	40	6.8	40	80	9	256	20	18	22	37	1.94
3469786--3469852	21	3.2	21	89	0	98	10	19	14	55	1.68
3490747--3490799	23	2.3	23	96	0	97	30	28	20	20	1.98
3495365--3495415	22	2.3	22	75	0	57	35	17	19	27	1.94
3495574--3495600	14	1.9	14	100	0	54	29	11	0	59	1.32
3499773--3499890	54	2.2	54	81	0	137	32	17	14	35	1.90
3501938--3501997	20	3.0	20	78	2	77	43	13	6	36	1.70
3503565--3503612	18	2.7	18	100	0	96	22	25	12	39	1.89
3505445--3505494	20	2.5	20	87	3	66	38	22	6	34	1.78
3508334--3508375	10	4.3	10	75	6	50	50	0	33	16	1.46
3512393--3512443	17	3.0	18	91	8	81	19	0	21	58	1.39
3512497--3512547	17	3.0	18	91	8	81	19	0	21	58	1.39
3512367--3512577	104	2.0	103	99	0	413	22	7	18	51	1.71
3514343--3514938	294	2.0	295	95	1	1072	32	8	18	41	1.80
3521222--3521271	24	2.1	24	89	10	77	48	4	0	48	1.20
3521282--3521405	57	2.1	58	78	10	128	57	1	4	36	1.30
3521426--3521510	25	3.2	26	82	11	77	54	0	2	43	1.13
3521415--3521483	25	2.7	26	79	6	68	53	0	2	43	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3521467--3521513	14	3.4	14	76	5	60	57	0	2	40	1.11
3521473--3521522	13	3.4	17	65	35	51	54	0	4	42	1.19
3521446--3521531	27	3.2	27	90	8	124	55	1	3	39	1.24
3522426--3522606	28	6.3	29	84	1	188	41	16	22	19	1.90
3522426--3522613	29	6.6	29	84	1	193	42	15	21	20	1.89
3522410--3522585	57	3.1	57	79	4	194	40	16	21	21	1.91
3522426--3522606	85	2.1	86	80	4	204	41	16	22	19	1.90
3523205--3523242	20	1.9	20	89	10	60	34	15	28	21	1.94
3525995--3526093	31	3.2	31	91	0	162	49	11	11	28	1.72
3528257--3528299	2	21.5	2	100	0	86	48	0	0	51	1.00
3531800--3531912	35	3.3	34	85	3	145	44	18	0	36	1.56
3532462--3532570	35	3.1	35	90	0	155	33	0	22	43	1.60
3536865--3536895	16	1.9	16	100	0	62	45	12	25	16	1.83
3539121--3539221	51	2.0	51	94	0	175	35	12	19	31	1.90
3542198--3542364	54	3.0	55	84	9	182	29	18	30	21	1.97
3550227--3550813	209	2.8	210	89	1	885	39	17	10	32	1.84
3550977--3551042	32	2.1	33	85	5	91	16	13	30	39	1.87
3559938--3560133	96	2.0	96	87	0	275	36	18	25	20	1.95
3567353--3567392	21	1.9	21	85	10	55	35	10	2	52	1.48
3569332--3569420	45	2.0	46	82	6	110	29	17	24	28	1.98
3569440--3569477	20	1.9	20	88	0	58	21	13	31	34	1.91
3570086--3570129	12	3.8	12	78	6	54	36	20	18	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3570098--3570151	11	4.8	11	77	4	54	31	18	18	31	1.95
3570080--3570140	23	2.7	23	94	0	104	32	19	19	27	1.96
3581641--3581738	48	2.0	48	94	0	169	40	12	32	14	1.83
3582027--3582073	18	2.7	17	78	15	51	36	8	27	27	1.86
3584041--3584086	22	2.1	22	87	0	65	19	13	4	63	1.46
3584023--3584111	18	4.8	19	72	14	53	22	6	3	67	1.29
3585296--3585373	36	2.2	36	97	0	147	35	24	16	23	1.95
3589022--3589148	29	4.3	29	72	7	103	30	11	14	42	1.82
3600236--3600269	12	2.8	12	95	0	59	38	0	20	41	1.53
3600907--3601049	2	71.5	2	100	0	286	50	0	0	49	1.00
3601575--3601694	39	3.0	39	85	9	170	23	22	28	25	1.99
3601575--3601694	21	6.0	21	84	8	162	23	22	28	25	1.99
3601575--3601694	60	2.0	59	84	12	156	23	22	28	25	1.99
3603018--3604070	187	5.6	185	83	5	1129	42	8	15	32	1.77
3603009--3604061	372	2.8	371	83	3	1272	42	8	15	32	1.77
3604630--3604665	18	2.0	18	100	0	72	55	5	16	22	1.62
3605334--3605367	13	2.6	13	85	0	50	32	26	23	17	1.97
3606898--3607101	99	2.1	99	81	8	236	36	15	11	35	1.84
3607783--3607811	11	2.5	12	88	11	51	51	10	20	17	1.74
3609694--3609742	23	2.0	25	84	7	66	40	10	8	40	1.69
3609817--3610189	99	3.8	98	74	8	290	39	13	12	35	1.82
3609816--3610203	100	3.9	99	74	8	270	39	12	12	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3609829--3610527	202	3.5	202	76	6	499	38	12	11	36	1.80
3615259--3615328	6	11.7	6	80	6	79	77	0	5	17	0.96
3615207--3615284	40	1.9	41	84	7	106	67	2	11	17	1.32
3615187--3615309	36	3.3	34	74	21	104	70	1	9	17	1.22
3615259--3615344	28	2.8	30	77	13	61	76	0	6	16	0.99
3615395--3615423	2	14.5	2	100	0	58	51	0	0	48	1.00
3615514--3615539	2	13.0	2	100	0	52	50	0	0	50	1.00
3615543--3615591	12	3.4	15	75	18	59	81	0	4	14	0.83
3615547--3615584	19	2.0	20	94	5	69	81	0	5	13	0.85
3616741--3616956	67	3.2	67	80	2	234	36	11	20	31	1.89

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