genome.fa.s8428.2.7.7.80.10.50.1000.14.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  14  of  30  ( 3508 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)
3416388--3416434	14	3.4	14	70	5	51	17	27	31	23	1.96
3416445--3416490	23	2.0	23	87	8	67	34	36	13	15	1.86
3416732--3416854	60	2.0	60	98	0	237	30	18	28	21	1.97
3417239--3417290	21	2.5	21	81	3	61	38	19	25	17	1.93
3417279--3417392	20	5.7	20	78	6	86	31	23	17	27	1.97
3417341--3417393	20	2.7	20	93	0	88	24	28	20	26	1.99
3417945--3417989	19	2.4	19	84	0	54	48	22	15	13	1.79
3417985--3418130	19	8.1	19	72	17	105	13	24	19	42	1.87
3418018--3418105	33	2.6	33	94	1	149	12	27	21	38	1.89
3418073--3418130	20	2.9	20	80	10	64	15	24	17	43	1.87
3419230--3419265	16	2.2	16	100	0	72	16	5	19	58	1.58
3419833--3420015	91	2.0	90	87	8	264	22	12	17	47	1.80
3420237--3420439	42	4.8	42	79	2	194	22	36	18	23	1.95
3420373--3420443	21	3.4	21	64	22	51	22	36	19	21	1.95
3420234--3420409	84	2.1	84	98	0	343	21	37	17	23	1.94
3420234--3420439	84	2.5	84	91	1	288	21	36	18	23	1.95
3421787--3421822	14	2.6	14	95	0	63	30	0	25	44	1.54
3421929--3421995	19	3.8	19	77	18	81	44	20	22	11	1.84
3422002--3422126	33	3.8	32	83	8	171	16	23	17	43	1.88
3424058--3424107	20	2.5	20	80	0	73	38	22	18	22	1.94
3424321--3424388	20	3.4	20	72	8	75	39	23	20	16	1.91
3424305--3424408	40	2.9	34	77	15	111	41	22	21	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3424565--3424601	14	2.6	14	86	0	56	48	21	0	29	1.50
3426469--3426542	20	3.7	20	78	5	60	43	21	20	14	1.88
3426481--3426525	20	2.3	20	88	3	74	37	17	24	20	1.93
3426525--3426615	14	5.9	14	75	20	74	48	21	18	10	1.79
3426509--3426620	33	3.4	33	95	1	199	47	21	19	11	1.81
3426509--3426631	65	1.9	66	91	5	205	47	22	18	11	1.81
3426650--3426706	14	3.8	14	78	17	69	10	15	24	49	1.76
3426632--3426718	32	2.7	33	92	7	151	12	17	21	48	1.80
3426695--3426761	20	3.4	19	75	6	62	17	19	23	38	1.93
3427237--3427281	18	2.5	18	92	0	72	15	15	42	26	1.87
3428602--3428644	20	2.2	20	86	0	59	53	20	16	9	1.70
3428611--3428660	20	2.5	20	86	0	64	40	26	18	16	1.90
3429153--3429204	20	2.6	20	93	0	86	25	21	28	25	1.99
3429213--3429266	20	2.7	20	97	0	99	25	18	24	31	1.97
3429136--3429269	61	2.2	61	86	0	187	23	17	23	35	1.95
3430084--3430145	31	2.1	31	85	8	85	59	1	3	35	1.23
3433108--3433137	15	2.0	15	93	0	51	33	16	13	36	1.88
3434300--3434367	31	2.2	30	81	2	73	44	7	19	29	1.77
3434345--3434376	15	2.0	17	88	11	50	43	6	6	43	1.54
3434849--3434916	31	2.2	30	81	2	73	42	7	19	30	1.78
3434894--3434925	15	2.0	17	88	11	50	43	6	6	43	1.54
3434094--3435742	549	3.0	549	98	0	3127	38	9	15	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3435398--3435465	31	2.2	30	81	2	73	44	7	19	29	1.77
3435443--3435474	15	2.0	17	88	11	50	43	6	6	43	1.54
3443945--3443990	20	2.3	20	85	3	58	41	23	0	34	1.55
3445803--3445863	31	2.0	31	87	6	88	40	8	18	32	1.80
3446425--3446467	22	1.9	23	85	4	61	30	9	11	48	1.71
3450517--3450564	25	2.1	23	85	14	64	27	2	6	64	1.28
3454748--3454807	23	2.6	23	81	5	77	15	20	30	35	1.93
3456196--3456240	20	2.3	20	84	3	56	37	0	20	42	1.52
3458992--3459112	65	1.9	64	89	5	190	33	20	15	30	1.94
3458994--3459160	65	2.6	65	82	8	164	31	19	17	31	1.95
3467486--3467656	65	2.6	65	89	4	281	31	23	15	29	1.95
3473055--3473088	18	1.9	17	88	5	50	38	11	2	47	1.55
3474291--3474340	20	2.5	20	93	0	82	38	20	28	14	1.91
3474311--3474386	30	2.6	29	77	6	80	35	21	28	14	1.92
3481337--3481373	5	7.6	5	90	3	58	62	0	37	0	0.96
3483828--3483919	39	2.4	39	88	0	130	32	23	23	19	1.97
3485424--3485453	15	2.0	15	93	0	51	50	0	6	43	1.28
3486335--3487120	8	98.5	8	97	0	1216	24	3	25	46	1.70
3487126--3487215	30	2.9	30	86	5	117	35	4	21	38	1.73
3487195--3487292	4	24.8	4	73	13	60	31	5	19	43	1.72
3489598--3489631	2	17.0	2	100	0	68	50	0	0	50	1.00
3492783--3493506	105	7.0	105	93	1	1149	22	16	26	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3492783--3493506	207	3.5	208	91	2	1141	22	16	26	33	1.95
3492784--3493506	312	2.3	313	91	2	1143	22	16	26	34	1.95
3494147--3494304	68	2.4	66	83	6	194	36	8	22	31	1.85
3494148--3494330	65	2.7	67	80	5	185	38	8	22	30	1.84
3494280--3494402	36	3.4	36	80	8	151	39	13	21	25	1.90
3494892--3494925	17	2.0	17	94	0	59	44	29	8	17	1.79
3495979--3496034	15	3.8	15	77	13	62	1	12	7	78	1.02
3499976--3500026	18	2.9	17	77	13	50	64	0	3	31	1.11
3500312--3500463	76	2.0	76	96	2	279	11	26	10	51	1.71
3503715--3503775	29	2.1	28	82	8	70	26	8	9	55	1.60
3503782--3503836	23	2.4	23	96	0	101	52	10	7	29	1.63
3507339--3507393	27	2.0	28	86	13	78	50	9	5	34	1.57
3514076--3514258	73	2.6	71	83	8	216	30	0	14	55	1.44
3521081--3521163	21	3.7	22	75	15	73	25	3	1	69	1.11
3521133--3521164	3	10.7	3	100	0	64	34	0	0	65	0.93
3521187--3521236	7	7.1	7	78	13	50	16	4	2	78	1.00
3521188--3521236	20	2.3	22	76	16	59	16	4	2	77	1.01
3521378--3521470	9	9.8	9	72	15	53	15	10	3	70	1.27
3521378--3521470	18	4.9	18	71	17	62	15	10	3	70	1.27
3521378--3521543	68	2.4	68	76	9	169	13	12	4	69	1.32
3533230--3533436	102	2.0	103	98	1	398	37	15	19	27	1.92
3533332--3533693	185	2.0	184	96	0	670	37	16	19	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3534385--3534439	23	2.4	22	80	14	58	74	7	16	1	1.12
3537834--3537858	2	12.5	2	100	0	50	52	0	0	48	1.00
3547931--3548038	34	3.2	34	98	0	207	51	12	10	25	1.70
3552583--3552653	34	2.1	34	82	12	83	45	16	12	25	1.83
3555397--3556472	538	2.0	538	95	0	1945	41	15	19	23	1.90
3558798--3558848	24	2.0	26	85	7	70	45	0	13	41	1.44
3561008--3561040	2	16.5	2	100	0	66	48	0	0	51	1.00
3563369--3563415	2	23.5	2	100	0	94	48	0	0	51	1.00
3566499--3566683	99	1.9	99	89	2	291	33	16	18	31	1.93
3568420--3568585	45	3.7	45	78	5	140	25	14	17	42	1.87
3569323--3570494	81	14.4	81	82	3	963	33	20	18	27	1.96
3569326--3570455	325	3.5	324	80	5	1024	33	20	18	27	1.96
3571462--3571502	2	20.5	2	100	0	82	51	0	0	48	1.00
3573219--3573258	19	2.0	20	86	13	57	40	0	0	60	0.97
3588201--3588228	12	2.3	12	100	0	56	50	0	0	50	1.00
3598200--3598269	23	3.0	23	87	0	104	18	15	27	38	1.91
3598262--3598313	24	2.2	24	86	6	70	25	19	15	40	1.90
3603871--3604530	81	8.2	81	87	0	908	36	11	19	31	1.88
3608446--3608504	3	19.7	3	100	0	118	33	0	0	66	0.92
3613789--3613823	19	1.9	17	88	11	52	37	8	25	28	1.85
3615094--3615129	18	2.0	18	100	0	72	0	27	22	50	1.50
3623729--3623772	22	2.0	22	100	0	88	22	13	18	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3625155--3625232	31	2.5	31	93	0	129	23	29	15	32	1.95
3628027--3628094	31	2.2	31	97	0	127	20	30	16	32	1.94
3628578--3628608	3	10.3	3	100	0	62	32	0	0	67	0.91
3628626--3628663	2	19.0	2	100	0	76	50	0	0	50	1.00
3629782--3629823	19	2.2	19	95	0	75	23	9	28	38	1.86
3630625--3630663	19	2.1	18	85	4	51	48	0	2	48	1.15
3631308--3631544	56	4.3	56	85	7	281	31	10	12	45	1.75
3631326--3631545	79	2.7	81	82	4	248	32	10	12	44	1.76
3631308--3631545	28	8.7	28	83	6	254	31	10	12	45	1.75
3631697--3631963	28	9.4	28	70	3	142	30	13	13	42	1.82

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