genome.fa.s9643.2.7.7.80.10.50.1000.2.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: 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  2  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)
306355--306525	52	3.4	51	84	7	208	35	13	25	25	1.92
306355--306541	51	3.7	50	83	6	195	37	14	23	24	1.92
306351--306542	52	3.8	50	82	4	192	36	15	23	24	1.93
307943--308145	108	1.9	108	85	6	286	29	12	16	41	1.85
307950--308170	54	4.1	53	80	8	239	31	12	15	39	1.85
308551--308770	99	2.2	99	91	2	354	35	19	18	26	1.95
308650--308908	137	1.9	138	91	2	423	36	18	20	25	1.95
308498--309082	236	2.5	236	92	0	983	35	18	19	25	1.95
308787--309006	99	2.2	99	89	0	325	34	18	20	26	1.96
309080--309143	20	3.2	20	63	12	51	39	9	25	26	1.86
312998--313049	16	3.4	15	77	12	61	59	9	0	30	1.29
314473--314555	29	2.8	29	92	1	139	43	9	14	32	1.78
319242--319324	29	2.8	29	92	1	139	43	9	14	32	1.78
321120--321551	215	2.0	215	96	0	792	35	16	21	26	1.94
324077--324106	14	2.1	14	93	0	51	6	16	26	50	1.70
326366--326403	20	2.0	20	84	5	51	57	5	2	34	1.35
328127--328161	18	1.9	18	88	0	52	40	28	14	17	1.88
328355--328400	23	2.0	23	86	0	65	32	23	15	28	1.95
328431--328556	50	2.5	49	83	10	155	15	32	32	19	1.93
328431--328587	50	3.1	51	81	7	144	16	29	33	20	1.95
328667--328707	10	4.1	10	84	12	57	31	29	0	39	1.57
328728--328756	14	2.1	14	93	6	51	27	6	0	65	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331225--331343	49	2.4	49	88	4	170	27	22	26	23	2.00
331355--331479	51	2.5	50	81	3	144	18	31	34	16	1.93
332217--332266	9	5.3	9	79	9	55	16	30	28	26	1.96
332216--332266	19	2.7	18	79	8	57	17	29	27	25	1.98
332270--332336	22	3.0	22	82	0	98	22	47	20	8	1.78
338141--338179	21	1.9	21	89	5	62	17	25	23	33	1.96
338187--338232	17	2.6	18	82	3	58	21	47	19	10	1.80
338201--338260	22	2.7	22	92	0	102	20	50	21	8	1.74
339838--339889	23	2.3	23	96	0	95	26	15	25	32	1.95
347635--347674	22	1.9	21	85	10	55	50	12	20	17	1.78
349708--349771	31	2.1	31	85	2	85	56	1	7	34	1.38
353511--353571	23	2.7	24	82	7	74	11	9	13	65	1.47
362059--362115	14	3.9	14	70	6	51	47	1	15	35	1.56
362306--362356	26	1.9	27	84	11	70	45	0	0	54	0.99
362312--362363	19	2.6	19	74	17	52	40	0	0	59	0.97
362460--362510	23	2.2	23	82	6	59	47	1	1	49	1.24
362675--362735	30	2.0	32	90	6	99	49	0	0	50	1.00
362688--362744	10	5.6	10	76	17	55	52	0	1	45	1.11
362677--362759	22	3.8	22	76	14	73	48	0	1	50	1.08
362957--363046	42	2.1	42	91	0	144	48	17	15	17	1.81
363370--363409	20	2.0	20	85	9	55	37	7	12	42	1.71
365903--365931	5	5.8	5	100	0	58	58	41	0	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379710--379740	15	2.1	15	93	0	53	58	0	0	41	0.98
380237--380314	31	2.5	30	83	2	102	42	11	8	37	1.73
381987--382062	35	2.2	35	87	0	116	39	22	1	36	1.63
382459--382706	130	1.9	130	92	0	415	36	16	12	34	1.87
382473--382737	130	2.0	129	80	4	291	39	14	13	32	1.84
383032--383094	28	2.3	27	78	8	63	46	1	3	49	1.27
383175--383208	16	2.0	18	88	11	54	64	5	2	26	1.30
395585--395621	17	2.2	17	100	0	74	32	5	5	56	1.45
400090--400141	25	2.1	25	100	0	104	55	15	5	23	1.61
400559--400636	18	4.2	20	87	11	80	34	2	1	61	1.18
400573--400636	18	3.5	18	93	6	103	32	1	1	64	1.13
400615--400644	15	1.9	16	93	6	53	36	6	3	53	1.44
400923--400960	19	2.0	20	89	5	60	44	2	23	28	1.67
400883--400982	29	3.3	29	85	8	130	45	6	23	26	1.75
408486--408638	76	2.0	76	100	0	306	28	9	7	54	1.60
414118--414166	24	2.0	24	84	0	62	57	4	8	30	1.47
423383--423407	2	12.5	2	100	0	50	48	0	0	52	1.00
423550--423579	2	15.0	2	100	0	60	50	0	0	50	1.00
425279--425341	28	2.3	28	83	8	76	58	1	1	38	1.17
429645--429706	31	2.0	31	87	0	88	32	8	22	37	1.83
429811--429874	30	2.1	30	85	2	83	50	9	12	28	1.71
431711--431756	23	2.0	23	83	8	58	32	4	6	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432090--432142	24	2.2	24	86	6	72	67	9	1	20	1.28
434802--434862	2	30.5	2	100	0	122	49	0	0	50	1.00
435308--435540	117	2.0	117	99	0	459	41	13	15	29	1.85
437720--437779	23	2.6	23	81	7	68	53	0	3	43	1.17
438995--439047	2	26.5	2	100	0	106	49	0	0	50	1.00
439585--439627	22	2.0	22	90	9	70	32	0	4	62	1.15
439894--439946	24	2.3	23	81	18	65	32	7	0	60	1.25
446367--446517	30	5.0	30	69	24	104	34	7	3	53	1.49
446559--446685	59	2.1	59	84	4	157	52	0	8	38	1.32
446587--446722	30	4.5	30	83	8	163	55	0	5	38	1.24
446587--446718	59	2.2	58	83	15	155	55	0	5	39	1.23
449895--449983	45	2.0	45	86	0	124	20	23	30	25	1.98
460408--460443	17	2.1	17	94	0	63	33	8	19	38	1.82
461593--461648	18	2.9	18	89	7	76	25	0	0	75	0.81
461600--461662	3	22.0	3	78	15	55	28	1	0	69	0.97
461603--461649	13	3.7	13	83	10	53	25	0	0	74	0.82
461620--461659	10	4.0	10	86	0	53	35	2	0	62	1.09
479065--479105	14	2.8	15	81	7	57	65	0	0	34	0.93
484228--484448	113	2.0	113	99	0	433	40	19	13	26	1.89
486612--486683	23	3.0	24	79	8	83	45	8	15	30	1.75
486696--486755	31	2.0	31	86	3	86	55	16	8	20	1.67
487084--487125	12	3.5	12	80	9	50	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491337--491384	25	1.9	24	83	8	60	52	2	10	35	1.48
492769--492801	2	16.5	2	93	0	57	48	0	3	48	1.17
494620--494657	2	19.0	2	100	0	76	50	0	0	50	1.00
500171--500214	22	2.2	20	88	12	63	47	0	0	52	1.00
502470--502512	3	14.0	3	85	4	59	37	0	0	62	0.95
507492--508553	106	10.4	106	87	7	1586	33	25	18	23	1.97
507492--508553	200	5.2	200	90	4	1631	33	25	18	23	1.97
507713--507868	43	3.4	43	66	13	123	34	22	19	23	1.96
507496--508553	306	3.5	306	89	6	1694	33	25	18	23	1.97
508325--508480	43	3.4	43	69	14	134	33	25	17	22	1.96
508846--508881	3	12.0	3	87	0	54	38	0	0	61	0.96
510134--510177	20	2.1	21	91	4	72	18	2	2	77	0.98
511582--511649	2	34.5	2	97	2	129	50	0	0	50	1.00
517499--517562	21	3.1	21	71	11	60	17	18	26	37	1.93
517503--517607	41	2.6	41	85	7	126	20	20	21	36	1.96
517552--517634	19	4.1	20	73	11	62	21	16	24	37	1.94
517551--517643	22	4.4	22	77	9	95	20	18	24	36	1.95
517742--517770	6	4.8	6	100	0	58	34	51	13	0	1.42
518225--518273	6	8.5	6	93	6	84	0	16	51	32	1.45
518397--518587	41	4.8	41	70	16	134	35	25	19	19	1.96
518418--518544	20	6.6	20	70	21	101	37	24	22	14	1.92
518354--518549	96	2.1	95	92	0	320	35	23	19	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518533--518586	21	2.6	21	96	0	99	29	27	16	25	1.97
519208--519276	23	3.0	23	89	0	102	26	26	27	20	1.99
519486--519555	30	2.3	30	87	0	104	35	22	2	38	1.69
519882--520019	63	2.1	67	78	14	155	23	19	20	36	1.95
524787--524847	31	2.0	31	96	0	113	47	1	11	39	1.50
524792--524860	31	2.2	31	89	0	102	50	1	10	37	1.45
531810--531885	2	38.0	2	100	0	152	50	0	0	50	1.00
535325--535355	2	15.5	2	100	0	62	48	0	0	51	1.00
554744--554890	75	2.0	75	97	0	276	37	15	6	40	1.74
556404--556462	29	2.0	29	83	6	75	11	32	27	28	1.92

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