genome.fa.s9643.2.7.7.80.10.50.1000.17.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  17  of  41  ( 4862 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)
3441979--3442018	17	2.2	19	86	8	57	72	2	0	25	0.97
3442509--3442541	16	2.0	17	88	5	50	51	0	0	48	1.00
3444001--3444033	16	2.0	17	88	5	50	51	0	0	48	1.00
3445676--3445730	22	2.5	22	90	0	92	34	12	14	38	1.84
3446407--3447152	76	9.8	76	97	0	1393	22	19	20	37	1.95
3447319--3447363	3	15.0	3	90	0	72	35	0	2	62	1.08
3448810--3448842	18	1.9	18	88	11	52	48	0	0	51	1.00
3455221--3455249	13	2.2	13	100	0	58	27	6	17	48	1.72
3459488--3459539	13	3.6	15	80	19	58	71	0	1	26	0.97
3460520--3460567	13	3.8	12	78	8	51	12	2	45	39	1.54
3463464--3463518	28	1.9	29	96	3	103	30	10	14	43	1.80
3465827--3465872	20	2.3	19	89	10	74	47	23	6	21	1.74
3468246--3468313	36	1.9	36	93	3	120	29	7	16	47	1.73
3474555--3474603	2	24.5	2	95	0	89	53	0	0	46	1.00
3478878--3478958	5	16.2	5	100	0	162	40	0	0	59	0.98
3479167--3479218	21	2.5	21	81	3	61	38	19	25	17	1.93
3479207--3479280	20	3.7	20	98	0	139	31	24	18	25	1.98
3479227--3479361	61	2.2	61	79	7	157	33	25	16	25	1.96
3479309--3479363	21	2.7	20	86	8	67	29	27	16	27	1.97
3479835--3479893	20	3.0	20	87	0	73	16	18	22	42	1.89
3480030--3480084	25	2.2	24	78	15	58	20	9	18	52	1.71
3480927--3480971	18	2.5	18	88	0	72	26	44	15	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481453--3481519	20	3.4	20	81	2	73	38	23	22	14	1.92
3481492--3481556	33	2.0	32	91	8	105	46	21	20	12	1.83
3481585--3481642	14	3.9	14	79	16	71	10	17	24	48	1.78
3481568--3481658	32	2.8	33	94	3	166	12	18	21	47	1.81
3481631--3481698	20	3.5	19	78	6	73	16	22	22	39	1.92
3481733--3481799	27	2.5	28	73	11	68	23	10	16	49	1.77
3483567--3483602	14	2.6	14	90	0	54	30	0	22	47	1.52
3483685--3483723	20	2.0	20	94	0	69	46	30	10	12	1.75
3483729--3483793	19	3.7	19	84	15	95	46	18	21	13	1.84
3483819--3483868	20	2.5	20	96	3	93	16	24	28	32	1.96
3485063--3485087	12	2.1	12	100	0	50	72	0	28	0	0.86
3487378--3487442	19	3.7	19	70	19	68	44	20	21	13	1.86
3487453--3487542	14	5.7	14	72	23	72	8	24	22	44	1.81
3487438--3487560	33	3.7	33	96	0	219	12	22	21	43	1.85
3487467--3487560	19	5.5	19	70	23	91	10	23	21	44	1.83
3487667--3487703	14	2.6	14	91	0	65	45	24	0	29	1.53
3489097--3489260	42	3.9	42	77	0	175	23	17	36	23	1.94
3489088--3489263	84	2.1	84	95	0	316	23	17	36	22	1.94
3489479--3489665	91	2.0	90	91	6	304	47	19	12	21	1.82
3489674--3489719	18	2.6	18	100	0	92	41	0	21	36	1.54
3489836--3489968	63	2.1	62	91	0	176	26	36	18	19	1.94
3489850--3489980	63	2.1	63	100	0	262	23	37	18	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3491433--3491577	19	8.1	18	73	17	108	45	18	22	13	1.84
3491458--3491522	33	2.0	33	93	0	112	41	21	24	12	1.87
3491441--3491577	52	2.6	52	90	1	202	44	19	22	13	1.85
3491573--3491639	19	3.5	19	78	8	64	10	16	23	49	1.77
3492156--3492269	20	5.7	20	80	6	95	25	19	23	31	1.98
3492340--3492380	21	2.0	21	85	0	55	34	31	17	17	1.93
3492518--3492584	5	13.4	5	100	0	134	40	0	0	59	0.97
3493161--3493477	43	7.5	42	80	2	319	34	18	21	25	1.96
3497794--3497912	63	1.9	64	85	3	170	34	22	17	25	1.96
3498601--3498667	23	2.9	23	84	0	89	23	22	22	31	1.98
3499291--3499362	23	3.1	23	88	7	110	30	26	27	15	1.96
3505929--3505980	23	2.3	23	86	0	68	30	26	25	17	1.97
3506210--3506269	31	2.0	30	83	9	77	36	25	1	36	1.66
3508858--3508918	23	2.7	23	94	0	104	29	27	24	18	1.98
3509140--3509199	31	2.0	30	83	9	77	36	23	3	36	1.71
3509562--3509698	63	2.2	64	81	6	154	29	17	18	34	1.94
3510222--3510251	13	2.2	14	94	5	53	66	0	33	0	0.92
3511791--3511851	23	2.7	23	97	0	113	27	27	26	18	1.98
3512074--3512133	31	2.0	30	83	9	77	36	23	3	36	1.71
3514712--3514757	23	2.0	23	86	0	65	30	26	23	19	1.98
3517303--3517375	30	2.4	30	95	0	128	31	23	19	26	1.98
3520147--3521362	610	2.0	610	92	0	2036	29	24	13	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3524956--3525015	31	2.0	30	87	9	86	36	25	1	36	1.66
3530860--3530950	31	3.0	31	93	3	150	35	5	17	41	1.73
3531016--3531082	19	3.5	19	91	0	98	40	10	13	35	1.79
3531188--3531229	21	2.0	21	90	9	68	23	19	28	28	1.98
3531258--3531297	20	1.9	22	90	10	66	37	40	10	12	1.77
3532611--3532771	63	2.5	65	83	7	181	32	21	19	26	1.97
3533413--3533473	23	2.7	23	89	0	95	19	27	26	26	1.99
3544022--3544301	82	3.4	80	80	12	284	33	18	16	31	1.93
3553311--3553336	13	2.0	13	100	0	52	38	23	7	30	1.83
3564772--3564840	35	2.0	35	88	0	102	39	10	31	18	1.84
3565851--3565884	15	2.2	16	89	5	52	41	0	5	52	1.25
3574501--3574551	21	2.4	21	84	12	61	68	1	7	21	1.25
3574722--3574748	2	13.5	2	100	0	54	51	0	0	48	1.00
3576093--3576324	106	2.2	107	87	0	322	21	17	25	35	1.95
3576735--3576862	31	3.9	31	72	17	82	33	12	21	32	1.90
3576638--3576829	67	2.8	67	85	1	240	36	12	21	28	1.90
3576784--3576898	33	3.5	33	89	5	162	32	11	19	37	1.87
3576937--3577110	37	4.9	37	70	17	154	39	13	19	28	1.89
3576936--3577202	102	2.6	102	94	2	464	37	13	19	29	1.90
3578412--3578761	183	1.9	183	96	0	646	30	21	21	27	1.98
3581644--3581677	17	1.9	18	88	5	52	29	32	11	26	1.92
3582672--3582722	21	2.4	21	84	12	61	68	1	7	21	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3584130--3584242	50	2.3	50	84	6	149	15	37	28	19	1.92
3584158--3584255	50	2.0	50	89	4	153	16	33	28	21	1.95
3584429--3584457	14	2.1	14	93	6	51	27	6	0	65	1.18
3584532--3584755	111	2.0	111	92	0	376	36	8	9	45	1.67
3597041--3597090	23	2.2	23	92	0	82	38	8	22	32	1.83
3597119--3597166	23	2.1	23	84	7	62	37	10	18	33	1.85
3597005--3597166	87	1.9	87	97	0	306	40	12	16	30	1.85
3597527--3597568	21	2.0	21	86	4	59	28	9	16	45	1.79
3597623--3598042	182	2.3	181	86	5	553	27	18	13	41	1.88
3601459--3601488	14	2.1	14	93	6	51	70	0	3	26	1.03
3601921--3602017	37	2.6	37	80	4	106	49	7	4	39	1.50
3601978--3602035	24	2.4	25	77	11	66	50	6	5	37	1.52
3603586--3603693	2	57.0	2	75	10	93	49	0	0	50	1.00
3604247--3604293	22	2.1	21	88	11	67	57	0	8	34	1.29
3604257--3604302	20	2.2	22	84	7	60	58	2	10	28	1.43
3606788--3606889	31	3.3	30	87	6	143	45	6	2	45	1.45
3617321--3617349	3	9.7	3	100	0	58	68	31	0	0	0.89
3627452--3627480	15	1.9	15	100	0	58	34	31	20	13	1.92
3627592--3627660	24	2.8	26	83	12	85	31	24	5	37	1.79
3627625--3627660	12	3.0	12	91	0	63	36	25	5	33	1.79
3627968--3628151	64	2.9	63	85	3	235	25	18	21	34	1.96
3628035--3628193	64	2.5	64	83	4	196	28	22	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3637222--3637319	49	2.0	49	97	0	187	30	9	31	28	1.88
3648604--3648663	28	2.1	28	100	0	120	60	0	10	30	1.30
3656138--3656198	21	3.2	21	65	26	62	47	16	4	31	1.68
3656129--3656199	36	2.0	35	97	2	133	46	16	5	30	1.70
3661666--3661708	22	2.0	21	86	8	61	53	4	0	41	1.21
3661687--3661722	18	1.9	18	88	5	54	55	5	0	38	1.23
3665055--3665095	17	2.4	17	87	4	55	56	0	2	41	1.13
3669230--3669349	64	1.9	64	87	0	177	36	20	17	25	1.94
3669228--3669388	64	2.5	64	80	4	173	34	19	19	26	1.96
3670033--3670099	23	2.9	23	97	0	125	19	29	25	25	1.98

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