genome.fa.s9175.2.7.7.80.10.50.1000.17.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  17  of  51  ( 6037 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)
3369037--3369081	17	2.6	17	92	0	72	48	6	20	24	1.73
3369312--3369412	3	34.0	3	80	5	71	41	0	0	57	1.05
3369365--3369412	19	2.5	19	86	0	69	39	0	0	60	0.97
3370737--3370799	8	7.8	8	75	8	56	36	0	3	60	1.13
3370761--3370808	14	3.1	15	82	8	53	31	0	2	66	1.03
3371179--3371224	25	1.9	23	86	8	65	54	2	0	43	1.12
3371221--3371258	2	20.0	2	89	10	62	50	0	0	50	1.00
3374440--3374582	36	4.0	34	80	5	151	23	23	18	35	1.95
3377195--3377307	54	2.1	55	86	5	158	43	17	13	25	1.86
3377455--3377569	58	2.0	58	92	0	194	42	14	17	25	1.87
3378372--3378577	37	5.7	37	75	17	143	46	3	6	43	1.48
3378406--3378521	37	3.2	35	85	8	160	46	2	4	46	1.36
3378450--3378658	69	3.1	65	75	13	199	47	3	4	43	1.42
3378488--3378553	29	2.3	29	90	10	102	46	4	6	42	1.48
3378516--3378591	37	1.9	39	84	10	102	47	5	6	40	1.52
3378621--3378694	35	2.3	31	81	13	78	45	1	5	47	1.34
3378694--3378751	13	4.5	13	81	12	66	20	3	0	75	0.94
3383551--3383733	94	2.0	93	91	3	296	32	18	18	31	1.94
3384893--3385181	81	3.5	83	81	7	331	29	23	20	25	1.99
3384893--3385193	164	1.8	164	83	1	397	29	23	20	26	1.99
3385948--3386094	75	1.9	75	86	5	206	47	3	5	43	1.43
3385950--3386094	39	3.8	38	78	9	150	46	3	5	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385985--3386094	37	2.9	38	81	10	154	47	2	3	46	1.34
3386067--3386130	29	2.2	30	91	5	105	46	4	4	43	1.45
3386025--3386238	67	3.1	67	74	9	191	48	4	4	42	1.41
3386208--3386269	25	2.6	23	80	10	70	45	1	6	46	1.38
3386315--3386343	13	2.2	13	100	0	58	17	6	0	75	1.01
3387613--3387646	15	2.2	16	89	5	52	11	5	2	79	1.02
3388613--3388643	16	1.9	16	93	0	53	38	29	6	25	1.81
3389479--3389613	45	3.0	45	78	10	143	30	25	15	28	1.96
3395389--3395485	44	2.2	44	83	10	119	26	23	19	29	1.98
3395408--3395489	23	3.6	22	78	8	94	24	24	21	29	1.99
3397033--3397065	2	16.5	2	100	0	66	48	0	0	51	1.00
3397496--3397547	20	2.6	20	96	0	95	30	30	15	23	1.95
3399782--3399810	15	1.9	15	100	0	58	27	3	6	62	1.37
3399960--3400002	16	2.8	16	82	3	52	69	6	0	23	1.12
3400527--3400580	22	2.3	24	84	6	67	38	12	0	48	1.42
3403701--3403917	42	5.4	42	79	15	242	52	16	4	27	1.62
3403782--3403924	74	1.9	76	88	5	220	53	14	2	29	1.55
3405971--3406119	77	1.9	79	83	8	198	40	11	5	42	1.64
3407162--3407186	2	12.5	2	100	0	50	52	0	0	48	1.00
3407750--3407812	29	2.3	26	75	19	74	28	22	15	33	1.95
3407757--3407812	29	1.9	29	89	7	87	30	21	16	32	1.95
3407915--3407970	22	2.6	21	77	2	58	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409214--3409246	16	2.1	16	94	0	57	33	24	9	33	1.87
3409281--3409327	2	23.5	2	100	0	94	48	0	0	51	1.00
3415145--3415189	15	3.1	15	78	18	51	55	2	0	42	1.12
3415151--3415379	11	20.4	11	65	25	72	48	5	3	42	1.44
3415150--3415267	36	3.2	37	79	10	127	50	4	2	43	1.35
3415165--3415407	47	5.1	46	69	18	158	49	5	4	40	1.46
3415262--3415326	17	3.8	17	73	21	55	49	4	1	44	1.32
3415178--3415361	92	2.0	94	94	2	327	47	5	4	42	1.46
3415339--3415379	13	3.2	13	89	0	64	48	7	4	39	1.52
3415369--3415407	17	2.2	18	95	4	71	58	5	5	30	1.41
3415434--3415473	15	2.7	15	88	0	62	52	5	2	40	1.37
3415447--3415516	31	2.3	31	80	7	81	42	1	7	48	1.39
3415682--3415732	7	7.3	7	86	0	57	23	0	31	45	1.53
3415682--3415732	21	2.4	21	90	0	75	23	0	31	45	1.53
3415960--3416012	20	2.7	20	96	0	97	24	28	0	47	1.52
3415960--3416012	12	5.1	12	67	32	50	24	28	0	47	1.52
3416558--3416606	19	2.5	19	83	3	53	32	30	16	20	1.94
3417359--3417406	20	2.3	20	89	3	69	31	33	10	25	1.89
3417371--3417456	20	4.2	21	81	10	88	32	26	11	29	1.92
3417375--3417456	41	2.0	40	83	2	101	34	26	12	26	1.92
3417461--3417556	40	2.4	40	82	3	104	30	21	12	35	1.91
3417501--3417568	20	3.4	20	78	8	75	29	22	13	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3417490--3417567	40	2.0	40	86	0	111	29	20	12	37	1.90
3418512--3418582	24	3.0	24	95	0	124	25	22	18	33	1.96
3418517--3418594	24	3.3	23	87	7	102	23	20	17	38	1.93
3420765--3420805	22	1.9	22	90	5	66	24	31	29	14	1.95
3420789--3420844	19	3.2	18	69	25	57	21	30	32	16	1.95
3420790--3420869	33	2.4	34	93	2	135	21	32	26	20	1.97
3420984--3421025	21	2.0	21	95	0	75	23	21	28	26	1.99
3424349--3424388	20	2.0	20	90	9	64	17	35	30	17	1.93
3424381--3424436	15	3.5	15	71	21	51	19	35	25	19	1.95
3424358--3424437	33	2.4	34	93	4	135	20	36	25	18	1.95
3424361--3424421	18	3.4	18	70	25	58	18	36	26	19	1.94
3424550--3424591	21	2.0	21	95	0	75	23	21	28	26	1.99
3424874--3424943	34	2.1	32	89	5	104	31	15	31	21	1.95
3425536--3425571	18	2.0	18	94	0	63	55	22	2	19	1.56
3427301--3427423	21	5.9	21	78	14	119	26	18	34	19	1.95
3427301--3427419	42	2.8	41	87	2	157	26	19	34	20	1.96
3427750--3427871	63	1.9	63	83	3	156	29	35	14	20	1.93
3427735--3427875	21	6.7	21	68	8	90	31	34	13	19	1.91
3429570--3429622	19	2.7	19	80	13	63	45	20	16	16	1.86
3429875--3429923	20	2.5	20	82	0	62	42	20	12	24	1.86
3430490--3430544	20	2.7	20	91	2	83	12	18	20	49	1.79
3430508--3430551	20	2.2	20	84	8	54	15	18	18	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3432181--3432233	21	2.5	21	84	0	70	22	11	30	35	1.89
3432303--3432356	21	2.6	21	84	0	72	18	16	29	35	1.93
3432453--3432494	4	10.5	4	89	0	66	26	0	2	71	0.98
3432637--3432734	21	4.7	21	84	0	115	21	35	18	24	1.95
3432643--3432734	42	2.2	42	92	0	148	20	35	19	23	1.95
3434259--3434294	18	2.0	18	88	0	54	13	5	25	55	1.60
3437310--3437349	16	2.5	16	83	0	53	67	0	5	27	1.11
3437508--3437634	40	3.2	40	75	0	110	36	12	22	28	1.91
3437589--3437634	20	2.3	20	85	7	58	36	13	28	21	1.91
3437627--3437696	20	3.5	21	80	16	69	31	12	24	31	1.93
3437659--3437698	20	2.0	20	95	0	71	32	10	25	32	1.89
3437687--3437737	19	2.6	20	81	12	70	15	15	31	37	1.89
3438019--3438094	39	1.9	39	89	5	118	47	0	27	25	1.52
3438019--3438083	20	3.3	20	93	2	114	46	0	30	23	1.53
3438283--3438323	18	2.3	18	87	8	57	41	2	12	43	1.55
3441371--3441799	213	2.0	213	95	0	768	25	24	19	29	1.98
3442139--3442170	7	4.7	7	96	3	57	46	31	12	9	1.73
3442930--3442973	22	2.0	23	86	4	63	54	11	15	18	1.70
3443738--3443790	27	2.0	27	84	0	70	62	3	1	32	1.24
3444681--3444718	19	2.0	19	100	0	76	36	31	5	26	1.79
3445086--3445112	10	2.7	10	100	0	54	18	11	48	22	1.79
3464307--3464382	20	3.8	20	73	15	68	35	11	27	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464844--3465234	55	7.1	55	89	0	613	35	10	17	36	1.85
3464862--3464947	28	3.1	28	61	15	70	37	10	12	39	1.78
3471343--3471412	20	3.5	20	78	9	72	31	12	28	27	1.93
3471874--3472359	55	8.8	55	91	0	785	33	12	18	35	1.88
3472784--3472834	25	1.9	26	84	11	68	33	3	7	54	1.47
3473566--3473612	23	2.0	23	87	0	67	34	23	23	19	1.97
3479872--3479959	22	4.0	22	82	5	97	26	19	21	32	1.97
3480706--3480752	23	2.0	23	95	0	85	17	25	29	27	1.97
3481582--3481622	16	2.6	16	88	3	57	31	19	9	39	1.84
3481705--3481761	24	2.4	24	84	0	78	49	3	35	12	1.58

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51