genome.fa.s7800.2.7.7.80.10.50.1000.17.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  17  of  23  ( 2671 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)
3321048--3321096	22	2.2	22	82	7	64	32	30	28	8	1.86
3321584--3321904	103	3.1	103	98	0	615	26	13	23	36	1.92
3321911--3322030	47	2.6	47	91	1	188	23	22	23	30	1.99
3321911--3322035	23	5.3	23	73	6	108	24	21	23	31	1.98
3326778--3326826	22	2.2	22	82	7	64	32	30	28	8	1.86
3327363--3327579	103	2.1	103	96	0	398	25	13	23	36	1.92
3327587--3327706	47	2.6	47	91	1	197	23	21	23	31	1.98
3327587--3327711	23	5.3	23	75	2	115	24	20	23	32	1.98
3334346--3334385	9	4.3	9	84	6	53	15	27	32	25	1.95
3334346--3334385	19	2.2	18	86	4	53	15	27	32	25	1.95
3334379--3334435	17	3.4	17	90	0	87	19	36	24	19	1.94
3335325--3335449	64	2.0	63	81	7	146	17	28	28	25	1.98
3341647--3341716	10	7.3	9	73	12	59	20	25	25	28	1.99
3341646--3341716	19	3.7	19	86	5	81	21	25	25	28	1.99
3341711--3341767	17	3.4	17	87	0	78	19	36	22	21	1.95
3341756--3341793	7	5.6	7	87	6	60	15	26	28	28	1.96
3341756--3341794	20	2.0	20	100	0	78	15	25	28	30	1.96
3342663--3342786	63	2.0	63	82	6	153	16	28	29	25	1.97
3346988--3347074	2	43.5	2	88	0	129	0	48	0	51	1.00
3347074--3347136	2	31.5	2	100	0	126	49	0	0	50	1.00
3353669--3353701	2	17.0	2	93	6	59	51	0	48	0	1.00
3356567--3356633	31	2.2	31	88	0	98	37	10	28	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3358590--3358655	31	2.1	31	91	0	105	31	18	25	24	1.97
3363864--3363956	21	4.5	21	78	4	100	39	18	24	17	1.91
3363864--3363956	41	2.3	41	100	0	186	39	18	24	17	1.91
3363942--3364019	41	1.9	41	81	0	93	42	21	14	21	1.88
3363945--3364038	20	4.7	20	73	2	71	36	23	15	24	1.94
3364612--3364776	19	9.1	19	75	15	143	12	21	21	45	1.84
3364612--3364776	33	4.6	38	74	12	143	12	21	21	45	1.84
3364725--3364751	14	1.9	14	100	0	54	7	29	22	40	1.81
3364736--3364774	20	2.0	20	94	0	69	12	23	15	48	1.79
3366828--3366894	21	3.2	21	64	6	55	25	35	19	19	1.95
3366772--3366894	42	2.9	42	81	4	115	23	36	17	22	1.94
3368250--3368285	14	2.6	14	95	0	63	30	0	25	44	1.54
3368392--3368444	20	2.7	20	91	2	81	47	18	22	11	1.81
3368450--3368637	19	10.7	19	75	16	199	15	22	18	44	1.87
3368450--3368637	33	5.4	35	82	10	201	15	22	18	44	1.87
3368475--3368637	33	4.8	33	84	6	211	15	22	17	44	1.87
3370926--3370979	24	2.2	24	90	0	81	38	20	16	24	1.92
3372036--3372092	19	3.0	19	97	0	105	35	26	22	15	1.94
3372039--3372112	19	3.8	19	89	3	103	37	24	21	16	1.93
3372137--3372210	19	4.5	16	83	16	66	13	20	18	47	1.82
3372133--3372200	19	3.8	19	87	12	101	13	22	17	47	1.82
3374221--3374287	19	3.5	19	83	4	89	37	23	23	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3374276--3374333	14	3.9	14	79	16	71	48	25	17	8	1.75
3374260--3374338	32	2.4	33	95	2	142	46	24	18	10	1.80
3374345--3374409	18	3.8	18	76	17	75	12	20	21	46	1.83
3374367--3374424	14	3.9	14	77	16	62	12	17	22	48	1.80
3374350--3374440	32	2.8	33	91	3	148	14	17	20	47	1.82
3374434--3374479	20	2.3	20	88	0	65	15	21	26	36	1.93
3374945--3374989	18	2.5	18	85	0	63	15	15	42	26	1.87
3376307--3376344	20	1.9	20	88	0	58	50	21	15	13	1.78
3376608--3376651	22	2.0	22	100	0	88	18	18	45	18	1.86
3376839--3376891	20	2.7	20	93	0	88	24	18	28	28	1.98
3376859--3376936	41	1.9	41	84	5	104	24	16	19	39	1.91
3376922--3377014	41	2.3	41	96	0	141	19	24	16	39	1.91
3376927--3376997	21	3.4	21	80	3	99	15	23	18	42	1.88
3376941--3377014	20	3.7	20	78	3	85	18	22	17	40	1.91
3382660--3382857	97	2.0	97	93	1	335	32	14	14	39	1.85
3386715--3386744	9	3.3	9	100	0	60	86	0	0	13	0.57
3396447--3396549	23	4.5	23	97	0	197	35	12	29	22	1.91
3397681--3397746	24	2.8	24	84	9	82	13	9	16	60	1.58
3401333--3401385	24	2.2	24	100	0	106	30	18	0	50	1.47
3407145--3407187	22	2.0	21	95	4	77	41	13	18	25	1.88
3412922--3412952	16	1.9	16	93	0	53	64	0	3	32	1.09
3413167--3413242	2	40.0	2	78	19	83	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3415934--3416241	154	2.0	154	95	0	553	31	19	11	37	1.87
3418362--3418521	32	5.1	31	70	15	91	32	19	16	31	1.94
3418396--3418519	32	3.9	33	75	13	109	31	17	16	34	1.92
3422472--3422611	32	4.5	31	75	9	106	35	15	16	32	1.90
3423129--3423172	18	2.4	18	81	7	54	50	20	4	25	1.67
3423461--3423518	20	2.7	20	86	10	71	27	24	18	29	1.98
3429035--3429067	15	2.2	15	100	0	66	27	24	27	21	1.99
3429348--3429391	23	2.0	23	86	4	63	65	6	2	25	1.28
3429452--3429500	21	2.3	21	82	10	55	57	4	2	36	1.30
3436072--3436098	4	6.8	4	100	0	54	77	0	0	22	0.76
3437058--3437097	21	1.9	21	89	0	62	17	22	17	42	1.89
3437031--3437105	21	3.6	21	73	7	55	22	24	18	34	1.96
3437095--3437186	20	4.6	20	83	2	130	36	20	21	20	1.95
3437095--3437186	41	2.3	40	88	1	130	36	20	21	20	1.95
3437363--3437424	18	3.0	22	72	18	69	25	38	16	19	1.92
3437749--3437862	40	3.2	33	75	15	95	13	18	24	43	1.85
3437792--3437841	20	2.5	20	90	0	73	18	18	28	36	1.94
3437749--3437821	33	2.2	33	85	7	94	13	20	26	39	1.90
3437809--3437863	20	2.8	20	91	0	83	10	16	23	49	1.77
3437828--3437871	20	2.2	20	87	0	61	13	13	20	52	1.74
3439581--3439621	21	1.9	21	85	5	55	26	14	14	43	1.84
3439741--3439884	20	7.5	20	82	9	174	41	20	18	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3439931--3440056	20	6.4	20	91	2	130	19	19	20	40	1.92
3440572--3440668	21	4.6	21	75	3	88	22	36	18	22	1.95
3442035--3442070	14	2.6	14	90	0	54	30	0	22	47	1.52
3442284--3442386	19	5.4	19	90	4	172	16	18	15	49	1.80
3442391--3442479	20	4.4	20	87	2	126	17	21	24	35	1.95
3444914--3444967	24	2.2	24	93	0	90	40	20	18	20	1.91
3444914--3444981	24	2.8	24	84	0	64	38	20	17	23	1.93
3447936--3448102	20	8.3	20	82	2	169	24	17	19	38	1.93
3447915--3448046	40	3.3	39	83	6	124	25	17	19	37	1.94
3448695--3448738	2	22.0	2	100	0	88	50	0	0	50	1.00
3449994--3450047	21	2.6	21	88	5	74	24	33	18	24	1.97
3450492--3450556	34	1.9	34	87	0	94	36	12	24	26	1.91
3453223--3453279	18	3.0	18	80	14	69	31	12	8	47	1.72
3453223--3453279	21	3.0	20	82	12	66	31	12	8	47	1.72
3472552--3472589	18	2.1	19	90	5	60	42	0	5	52	1.24
3472905--3474449	386	4.0	386	98	0	3003	36	10	11	41	1.75
3483051--3483118	23	3.0	23	76	4	68	51	17	10	20	1.74
3483782--3483882	35	2.9	35	85	2	123	40	27	0	30	1.63
3484044--3484337	149	2.0	148	92	0	489	37	6	8	47	1.60
3494326--3494369	22	2.0	22	95	0	79	25	38	13	22	1.91
3498258--3498330	19	3.7	19	75	15	60	65	4	26	4	1.28
3498274--3498310	18	2.2	18	85	9	51	67	0	24	8	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500428--3500713	58	5.1	57	74	10	232	33	8	18	39	1.81
3500435--3500656	52	4.0	54	75	13	200	32	9	18	39	1.84
3500429--3500654	109	2.0	111	87	5	325	31	9	19	39	1.84
3501008--3501107	42	2.4	42	78	5	105	26	20	22	32	1.98
3501230--3501334	41	2.5	42	72	13	101	25	20	21	31	1.98
3502836--3502886	20	2.6	20	90	3	77	37	3	19	39	1.70
3502945--3503006	19	3.2	19	88	4	88	33	22	14	29	1.94
3504938--3505012	29	2.6	29	97	2	143	28	14	12	45	1.80
3508813--3508841	14	2.1	14	100	0	58	20	0	6	72	1.07
3513663--3513694	2	16.0	2	100	0	64	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23