genome.fa.s8029.2.7.7.80.10.50.1000.2.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

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

This is table  2  of  18  ( 2124 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)
300780--300927	73	2.0	73	97	0	278	32	12	16	37	1.87
304885--304947	3	21.7	3	87	6	94	38	0	0	61	0.96
306500--306534	15	2.5	13	86	13	52	22	5	5	65	1.36
310813--310849	18	2.1	18	100	0	74	32	10	16	40	1.83
313170--313245	9	8.7	9	94	5	138	78	0	10	10	0.95
313170--313245	17	4.3	18	98	1	138	78	0	10	10	0.95
313170--313298	18	7.2	18	87	9	126	79	0	13	6	0.93
313157--313298	26	5.3	26	76	15	82	78	0	15	6	0.95
313230--313290	31	2.0	30	87	9	88	78	0	19	1	0.83
314448--315214	54	14.2	54	84	2	855	32	19	25	22	1.97
314448--315214	163	4.7	162	83	3	884	32	19	25	22	1.97
314451--315199	217	3.5	216	85	2	925	32	20	25	22	1.97
315396--315448	3	17.7	3	76	7	54	37	1	3	56	1.28
326955--326991	19	2.1	18	90	10	58	37	10	5	45	1.62
327198--327253	24	2.3	24	96	0	103	33	17	16	32	1.92
332970--333054	42	2.0	43	84	6	111	25	30	17	25	1.97
334999--335040	15	2.9	15	79	10	52	11	0	28	59	1.33
335310--335336	13	2.1	13	100	0	54	40	7	7	44	1.60
335450--335501	19	2.7	19	96	0	95	42	11	3	42	1.59
340372--340434	24	2.6	25	78	16	71	44	0	0	55	0.99
340468--340511	13	3.5	13	93	3	72	13	15	52	18	1.75
341918--341945	13	2.2	13	100	0	56	50	0	21	28	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350877--350923	24	2.0	24	83	4	60	55	2	2	40	1.24
351223--351273	19	2.6	20	90	3	77	43	23	17	15	1.88
351223--351646	20	20.8	20	77	8	203	39	19	21	19	1.93
351327--351558	123	1.9	123	92	0	392	36	16	24	22	1.94
351327--351560	103	2.3	103	85	5	323	36	17	24	22	1.94
351348--351558	83	2.6	81	88	5	320	36	16	24	22	1.94
351327--351558	40	5.7	40	86	4	293	36	16	24	22	1.94
351591--351668	22	3.6	22	91	6	133	33	29	19	17	1.95
351663--351733	21	3.4	21	66	11	56	18	16	29	35	1.93
351818--351856	6	6.5	6	100	0	78	33	48	17	0	1.48
355976--356017	2	20.5	2	95	4	75	47	2	0	50	1.14
356362--356449	27	3.3	27	100	0	176	22	26	25	26	2.00
356620--356647	14	2.0	14	100	0	56	42	0	7	50	1.30
357166--357217	22	2.3	23	87	9	72	55	3	3	36	1.36
361309--361366	28	2.1	27	83	3	71	60	18	0	20	1.36
362372--362443	21	3.4	21	94	0	117	40	22	15	22	1.91
363281--363374	21	4.4	21	77	10	100	23	12	29	34	1.92
369463--369531	21	3.2	22	72	24	65	28	14	23	33	1.94
370171--370352	78	2.4	76	76	10	208	32	7	13	46	1.72
370344--370441	30	3.3	29	74	17	85	22	1	16	60	1.42
370346--370415	31	2.3	31	85	9	90	20	1	14	64	1.36
371649--371701	21	2.5	22	84	6	74	22	24	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371687--371736	20	2.5	20	100	0	100	42	20	18	20	1.90
371730--371836	20	5.3	20	94	2	171	30	26	18	24	1.98
375151--375244	20	4.7	20	89	2	145	32	25	23	18	1.97
375227--375311	33	2.5	33	92	1	134	47	17	22	12	1.82
375326--375410	33	2.5	33	90	1	125	14	21	18	45	1.84
375527--375563	14	2.6	14	86	0	56	48	21	0	29	1.50
377219--377253	12	2.9	12	100	0	70	42	8	14	34	1.76
377548--377656	20	5.4	20	92	0	146	35	22	20	22	1.96
377721--377814	33	2.8	34	81	3	118	13	18	22	45	1.84
380119--380184	22	3.0	22	88	0	96	22	15	37	24	1.92
380380--380552	20	8.6	20	94	0	301	20	19	19	40	1.92
380549--380594	21	2.2	21	88	0	65	41	17	23	17	1.90
381048--381131	43	2.0	42	92	2	141	36	0	15	47	1.46
383559--383584	12	2.2	12	100	0	52	73	0	7	19	1.07
390629--390673	23	2.0	22	82	4	54	64	4	4	26	1.32
394079--394123	7	6.4	7	100	0	90	42	0	57	0	0.98
394179--394215	6	6.2	6	100	0	74	16	51	0	32	1.45
408954--408993	13	3.2	13	85	3	55	27	0	0	72	0.85
413781--414139	64	5.6	64	93	0	601	35	21	13	30	1.91
414162--414676	121	4.3	120	86	2	676	35	25	15	23	1.94
414474--414842	180	2.1	179	88	3	537	35	25	14	24	1.94
414832--414961	60	2.1	63	84	8	178	36	18	16	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417057--417115	28	2.1	29	81	12	70	18	3	3	74	1.10
419125--419176	24	2.1	25	82	3	61	28	5	1	63	1.28
419307--419353	17	2.8	18	81	12	64	29	4	2	63	1.25
419397--419444	25	1.9	25	87	8	71	22	2	2	72	1.05
419416--419517	41	2.7	38	82	11	104	18	4	4	71	1.22
419422--419517	38	2.6	37	81	16	112	18	4	5	71	1.21
419416--419522	40	2.7	41	81	12	116	19	4	4	71	1.22
419588--419651	31	2.1	31	96	0	119	6	21	12	59	1.55
419696--419739	23	1.9	23	90	9	72	36	0	2	61	1.09
419907--419987	9	9.4	9	75	15	64	14	7	1	76	1.06
419901--419978	15	5.3	15	75	14	56	12	7	1	78	1.02
419912--419978	20	3.4	19	74	20	66	14	5	1	77	1.03
419903--419969	35	1.9	35	90	6	109	11	8	1	77	1.05
419912--419981	5	14.2	5	75	14	56	15	5	1	77	1.03
427725--427840	61	1.9	61	98	0	223	32	22	28	16	1.95
429274--429444	15	11.0	15	77	15	152	47	0	2	48	1.21
429276--429444	43	3.7	43	78	18	180	47	0	2	48	1.21
429256--429419	58	3.0	54	80	11	174	48	0	3	47	1.21
429421--429463	22	2.0	22	95	0	77	41	0	4	53	1.21
429324--429473	69	2.2	67	84	9	198	46	0	4	49	1.25
429475--429517	22	2.0	22	95	0	77	37	0	11	51	1.39
429529--429572	21	2.1	21	95	0	79	34	0	11	54	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429601--429684	31	2.7	31	94	1	143	33	0	13	53	1.39
429758--429831	29	2.4	29	88	6	103	33	0	14	51	1.43
429896--430003	22	4.6	23	75	18	89	36	0	12	51	1.39
429948--430003	22	2.6	22	94	2	96	37	0	12	50	1.41
430002--430074	31	2.3	31	92	2	119	35	0	6	57	1.25
429939--430067	18	7.5	17	69	20	65	35	0	10	54	1.34
429819--430087	124	2.1	128	82	7	327	34	0	11	53	1.38
429550--430238	150	4.5	151	84	11	661	33	0	13	53	1.40
429894--430143	103	2.5	99	77	15	271	35	0	11	53	1.37
430072--430184	25	4.6	25	74	11	99	30	0	15	53	1.42
430267--430324	31	1.9	31	85	3	82	41	8	6	43	1.62
433590--433633	10	4.4	10	83	8	54	79	11	0	9	0.93
434840--435038	110	1.8	110	92	2	337	36	24	18	20	1.95
436990--437029	18	2.3	18	91	4	64	20	0	7	72	1.08
437188--437240	21	2.5	23	76	17	60	20	26	0	52	1.46
441440--441693	94	2.6	94	85	6	307	33	17	18	30	1.94
442760--443888	84	13.5	84	86	2	1447	34	23	18	23	1.96
445681--445752	2	36.0	2	100	0	144	50	0	0	50	1.00
445826--445869	23	1.9	23	85	0	61	18	11	2	68	1.30
445885--445939	28	1.9	29	85	10	78	25	1	1	70	1.06
445893--445939	13	3.1	14	77	22	51	25	2	2	70	1.10
446163--446219	3	18.7	3	79	16	64	36	0	1	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446316--446354	12	3.4	11	89	7	51	5	10	0	84	0.76
446313--446382	17	4.3	16	77	15	56	10	7	1	81	0.93
446314--446374	18	3.4	17	78	13	61	8	8	1	81	0.92
446362--446421	23	2.6	23	81	5	68	18	8	0	73	1.08
450703--450735	16	2.1	16	88	5	50	42	0	0	57	0.98
451859--451899	16	2.6	16	92	0	64	24	36	9	29	1.87
458184--458236	19	2.8	18	72	13	52	58	1	1	37	1.20
458187--458235	25	2.0	25	84	8	64	55	2	2	40	1.23
461263--461519	44	6.0	44	87	6	366	33	19	7	40	1.78
461326--461487	81	2.0	81	93	0	279	33	19	6	40	1.78

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