genome.fa.s9021.2.7.7.80.10.50.1000.2.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: VEPZ01009021.1 Hibiscus syriacus cultivar Beakdansim tig00112411_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1242735

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 520 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)
163250--163316	35	2.0	33	82	11	82	59	4	4	31	1.37
164461--164508	18	2.8	18	81	6	55	56	6	0	37	1.25
190628--191039	210	1.9	213	95	4	746	34	20	17	28	1.95
203264--203290	1	27.0	1	100	0	54	100	0	0	0	0.00
206830--206884	24	2.3	24	78	6	58	38	30	3	27	1.74
213979--214056	31	2.5	31	81	8	95	51	10	1	37	1.44
219665--219709	23	2.0	23	86	0	63	26	26	26	20	1.99
220335--220371	19	1.9	19	88	0	56	10	29	35	24	1.89
220398--220440	21	2.0	21	81	0	50	18	25	27	27	1.98
227961--228010	2	25.0	2	100	0	100	50	0	0	50	1.00
230062--230129	23	3.0	22	73	14	57	57	7	16	19	1.62
234320--234783	225	2.1	221	90	3	716	38	17	14	28	1.90
235309--235369	18	3.3	18	86	4	77	39	8	26	26	1.84
235503--235577	38	2.0	37	82	5	89	46	4	1	48	1.29
239881--239907	2	13.5	2	100	0	54	48	0	0	51	1.00
244072--244123	20	2.6	20	81	6	52	59	1	3	34	1.27
245305--245355	15	3.4	15	83	0	66	9	11	62	15	1.53
258788--258856	34	2.0	34	86	5	95	56	8	4	30	1.49
270199--270234	16	2.2	17	90	5	56	38	0	2	58	1.13
278835--278870	18	2.0	18	89	10	56	38	0	0	61	0.96
279393--279463	37	1.9	37	88	5	108	45	1	4	49	1.30
280929--280969	9	4.3	10	87	9	59	17	0	9	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
280929--280969	19	2.2	19	91	8	66	17	0	9	73	1.09
280974--281010	16	2.5	14	87	12	56	56	0	0	43	0.99
293264--293307	21	2.2	19	84	8	52	18	22	4	54	1.61
298999--299044	20	2.3	20	100	0	92	56	17	10	15	1.67
303179--303236	2	29.0	2	100	0	116	50	0	0	50	1.00
306861--307471	305	2.0	305	98	0	1177	33	20	13	32	1.91
308566--308654	2	47.0	2	67	10	53	50	0	0	49	1.00
308546--308654	42	2.8	38	82	12	107	52	0	0	47	1.00
310224--310653	214	2.0	214	99	0	851	42	22	12	23	1.87
311254--311303	21	2.4	21	86	0	64	20	60	12	8	1.57
311266--311310	21	2.1	21	95	0	81	22	57	11	8	1.60
312383--312412	6	5.2	6	92	8	53	66	0	0	33	0.92
316747--316800	24	2.2	24	100	0	108	68	18	5	7	1.33
326839--326898	27	2.3	26	80	11	61	21	15	6	56	1.61
328285--328336	26	2.0	26	85	3	70	32	17	21	28	1.96
331696--331720	2	12.5	2	100	0	50	48	0	0	52	1.00
339825--339873	22	2.2	22	82	13	57	69	4	4	22	1.23
347005--347291	36	8.1	36	87	3	350	18	23	22	35	1.96
350839--350887	18	2.7	18	87	6	64	22	18	44	14	1.85
352240--352287	2	24.0	2	100	0	96	50	0	0	50	1.00
358442--358557	57	2.0	57	81	6	137	22	8	37	31	1.84
358510--358734	33	6.8	33	84	0	261	22	11	36	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358708--358816	57	1.9	57	81	3	130	22	9	36	32	1.85
363475--363766	33	8.7	33	76	7	205	24	11	34	28	1.91
366453--366526	29	2.6	28	76	4	76	44	5	17	32	1.71
372387--372446	31	1.9	31	82	3	75	33	18	10	38	1.84
375727--375771	23	2.0	22	87	12	65	33	0	2	64	1.06
375732--375779	18	2.8	17	87	9	71	33	0	2	64	1.05
382814--382865	23	2.3	23	86	6	70	71	7	5	15	1.29
382893--382924	16	2.0	16	100	0	64	75	0	0	25	0.81
383657--383715	14	3.9	14	73	16	55	59	3	0	37	1.14
383649--383724	32	2.4	32	95	2	136	63	2	0	34	1.09
395863--395929	29	2.2	31	82	10	77	38	1	1	58	1.17
407074--407116	18	2.5	17	85	7	61	67	2	4	25	1.22
407507--407608	34	2.9	36	89	7	172	27	14	13	44	1.83
408156--408882	105	7.0	105	92	2	1106	22	17	26	33	1.96
409526--409681	68	2.3	67	84	3	199	36	9	21	32	1.86
409658--409990	36	9.5	35	74	13	254	39	14	19	26	1.90
409606--409919	138	2.3	137	83	1	405	39	13	20	27	1.89
409694--409882	102	1.9	102	86	4	274	39	13	19	27	1.89
410418--410453	18	2.0	18	88	0	54	41	30	5	22	1.76
410868--410916	22	2.2	22	92	0	80	28	14	24	32	1.94
410880--410923	22	2.0	22	86	0	61	31	13	22	31	1.93
411566--411639	35	2.1	34	80	11	80	0	13	8	78	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411583--411637	28	1.9	28	82	17	69	0	12	9	78	0.97
412803--412841	8	5.0	8	84	6	53	58	12	17	10	1.61
412803--412841	15	2.5	15	87	4	51	58	12	17	10	1.61
413364--413403	18	2.2	18	100	0	80	35	12	32	20	1.90
415951--415993	18	2.5	17	85	7	61	67	2	4	25	1.22
416384--416485	34	2.9	36	89	7	172	27	14	13	44	1.83
417957--418005	24	2.0	24	96	0	89	38	6	4	51	1.46
419140--419164	13	1.9	13	100	0	50	4	0	8	88	0.64
428262--428395	29	4.6	29	98	0	259	19	45	27	7	1.77
428410--428519	30	3.7	30	87	0	175	22	47	19	10	1.80
429167--429210	21	2.1	21	91	0	70	29	0	15	54	1.42
429187--429240	28	1.9	28	96	0	99	29	0	12	57	1.36
429209--429320	50	2.4	45	76	16	115	40	0	9	49	1.42
431578--431631	28	1.9	28	96	0	99	57	12	0	29	1.36
431574--431638	28	2.3	28	84	10	96	55	10	0	33	1.35
431608--431656	21	2.3	21	85	3	71	53	16	0	30	1.43
432299--432408	30	3.7	30	87	0	175	10	19	47	22	1.80
432423--432556	29	4.6	29	98	0	259	7	27	45	19	1.77
436150--436206	20	2.9	19	82	10	71	49	3	22	24	1.66
441229--441302	23	3.2	23	86	0	103	37	21	6	33	1.80
442504--442613	22	4.9	23	90	5	163	37	19	7	36	1.79
442513--442613	45	2.3	45	89	6	161	38	18	7	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442654--442727	23	3.2	23	90	0	112	33	17	8	40	1.79
460697--460723	6	4.5	6	100	0	54	44	0	0	55	0.99
463583--463613	2	16.0	2	93	6	55	48	0	0	51	1.00
463586--463611	13	2.0	13	100	0	52	46	0	0	53	1.00
463584--463614	15	2.1	15	100	0	62	45	0	0	54	0.99
464136--464223	44	2.0	44	100	0	176	38	15	20	25	1.92
464674--464806	61	2.2	61	90	0	221	33	18	19	27	1.96
470145--470189	12	3.7	12	81	3	54	44	6	20	28	1.76
470794--470836	17	2.4	19	81	14	56	44	2	0	53	1.13
472998--473073	12	6.8	12	71	18	65	26	1	2	69	1.09
473010--473063	21	2.5	22	90	6	83	24	1	3	70	1.13
473001--473072	21	3.3	21	76	16	74	23	1	2	72	1.06
475851--475911	22	2.8	22	84	0	68	31	16	24	27	1.96
476570--476613	21	2.1	21	95	0	79	27	25	25	22	2.00
478998--479024	2	13.5	2	100	0	54	51	0	0	48	1.00
479024--479059	2	18.0	2	94	0	63	47	0	52	0	1.00
479024--479079	8	7.0	8	91	0	58	37	0	62	0	0.95
480747--480776	2	15.0	2	100	0	60	50	0	0	50	1.00
485082--485144	31	2.0	31	96	0	117	36	20	9	33	1.85
485308--485346	15	2.5	16	83	8	53	33	0	2	64	1.08
485477--485560	43	2.0	43	88	4	125	51	8	10	29	1.66
488073--488133	30	2.0	30	96	0	113	49	9	13	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492770--492802	2	16.5	2	100	0	66	51	0	0	48	1.00
501009--501050	12	3.6	12	90	3	59	11	9	45	33	1.73
501068--501130	24	2.6	25	78	16	71	44	0	0	55	0.99
501161--501197	12	3.0	12	92	4	56	10	16	54	18	1.71
502624--502760	68	2.0	68	91	0	220	31	13	16	37	1.88
504653--504918	133	2.0	133	95	0	478	33	13	18	34	1.90
505986--506042	21	2.7	21	83	0	69	31	17	3	47	1.65
506750--506789	16	2.6	16	88	4	55	32	17	10	40	1.83
506979--507006	2	14.0	2	100	0	56	50	0	0	50	1.00
512824--512884	32	1.9	32	89	0	95	26	8	13	52	1.67

Tables:   1   2   3   4   5