genome.fa.s8041.2.7.7.80.10.50.1000.2.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  2  of  21  ( 2430 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)
305271--305325	25	2.2	26	83	9	69	45	3	3	47	1.38
305472--305533	7	9.4	7	76	16	53	46	41	1	9	1.46
305472--305533	13	4.7	14	73	18	53	46	41	1	9	1.46
307162--307214	18	2.9	18	75	5	54	50	18	11	18	1.76
309769--309804	17	2.1	17	94	0	63	16	22	13	47	1.82
315660--315691	13	2.5	13	100	0	64	46	31	0	21	1.52
320104--320611	226	2.2	228	87	4	715	30	16	25	26	1.97
320726--320844	42	2.8	41	74	5	103	32	20	20	26	1.97
320897--321087	58	3.4	58	74	9	187	42	17	8	30	1.80
320898--321234	110	3.0	110	82	3	390	40	17	9	32	1.81
323168--323249	17	4.9	16	75	10	58	3	14	2	79	0.98
323676--323706	15	2.1	15	93	0	53	9	25	0	64	1.24
329058--329105	21	2.2	21	85	10	62	33	14	27	25	1.94
330986--331059	15	4.9	15	100	0	148	27	12	27	33	1.92
331801--331860	18	3.4	18	71	17	54	68	3	0	28	1.05
331801--331860	17	3.4	17	73	13	59	68	3	0	28	1.05
332735--332853	39	3.1	39	82	1	141	40	15	0	43	1.47
332886--332934	14	3.4	14	81	10	53	30	0	2	67	1.02
332890--332930	16	2.6	16	88	0	55	26	0	2	70	0.99
334871--334909	20	2.0	20	84	0	51	30	7	17	43	1.77
341649--341699	26	2.0	24	92	7	84	49	23	0	27	1.51
341670--341759	46	2.1	43	82	12	105	43	26	1	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349694--349726	12	2.8	12	95	0	57	30	24	15	30	1.95
351211--351270	30	2.0	30	100	0	120	26	30	6	36	1.82
352182--352258	32	2.5	31	78	4	82	11	24	31	32	1.91
355121--355167	22	2.1	23	92	4	78	38	4	12	44	1.62
355314--355392	40	2.0	40	89	0	122	22	17	27	31	1.97
356599--356853	127	2.0	127	100	0	510	45	10	18	25	1.81
363580--363627	20	2.3	21	85	3	62	43	0	10	45	1.38
365747--365785	20	2.0	20	90	9	64	46	17	7	28	1.76
369242--369272	11	2.8	11	100	0	62	29	0	9	61	1.28
384812--384851	21	2.0	20	90	5	62	17	7	32	42	1.77
390144--390289	77	1.9	78	85	4	206	39	13	4	43	1.62
392270--392345	28	2.7	27	71	16	75	38	17	9	35	1.81
398569--398608	20	2.0	20	95	0	71	32	12	15	40	1.84
400235--400348	35	3.3	35	82	2	140	36	17	22	22	1.94
413578--413628	20	2.6	20	87	3	77	43	5	13	37	1.69
414386--414631	120	2.0	120	99	0	483	44	11	14	29	1.80
414936--414989	17	3.1	16	82	15	54	55	7	0	37	1.28
415958--416033	37	2.1	37	92	0	125	31	14	9	44	1.76
416978--417025	24	2.0	24	83	0	60	39	16	20	22	1.92
435065--435121	25	2.3	25	84	0	69	52	1	3	42	1.28
437873--438153	140	2.0	140	99	0	553	44	14	25	16	1.84
442266--442324	26	2.3	26	84	0	82	45	5	3	45	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443976--444016	19	2.2	19	100	0	82	51	9	14	24	1.72
444404--444439	2	18.0	2	100	0	72	50	0	0	50	1.00
444450--444486	12	3.1	12	92	0	56	13	35	0	51	1.41
444442--444487	16	2.9	16	86	0	56	15	32	0	52	1.43
447564--447610	23	2.0	23	100	0	94	38	8	8	44	1.65
447655--447700	20	2.3	20	88	3	67	34	0	26	39	1.57
455714--455754	22	1.9	21	90	5	64	34	36	2	26	1.70
456087--456143	29	2.1	26	84	12	71	70	3	12	14	1.30
467437--467466	12	2.4	13	94	5	53	33	6	0	60	1.23
472692--472768	2	39.5	2	92	5	131	0	1	49	49	1.09
478732--479110	55	6.9	55	85	2	449	32	20	17	29	1.96
479139--479198	2	30.0	2	100	0	120	50	0	0	50	1.00
479445--479565	63	2.0	61	90	3	188	28	26	16	28	1.97
482998--483031	15	2.3	15	89	0	50	5	26	38	29	1.80
487097--487141	2	22.5	2	100	0	90	48	0	0	51	1.00
487487--487529	23	1.9	22	90	4	68	11	0	37	51	1.39
487487--487536	23	2.2	23	85	7	66	10	0	40	50	1.36
488058--488151	42	2.3	41	78	10	102	31	20	22	25	1.98
488148--488228	39	2.1	40	83	4	103	32	20	13	33	1.92
488045--488563	275	1.9	274	87	1	770	33	19	16	30	1.94
488428--488858	98	4.4	98	88	3	634	36	19	12	31	1.89
488771--488910	53	2.5	55	82	10	169	40	21	9	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490226--490286	31	2.0	31	93	0	104	44	13	6	36	1.69
494513--494551	15	2.7	14	80	7	51	33	2	0	64	1.08
495722--495759	16	2.4	16	90	0	67	55	0	0	44	0.99
495725--495770	24	1.9	24	90	0	74	50	0	0	50	1.00
495722--495766	8	5.6	8	81	0	54	53	0	0	46	1.00
496169--496345	60	3.0	60	94	0	318	38	24	13	23	1.91
496614--496664	24	2.3	21	86	10	66	50	1	11	35	1.50
498071--498176	36	2.9	35	78	9	106	34	16	19	29	1.93
498071--498212	72	2.0	72	84	0	185	35	16	18	28	1.93
498096--498214	36	3.3	36	77	4	123	36	17	17	28	1.93
502371--502471	42	2.4	41	81	3	130	30	22	22	23	1.99
501776--503102	214	6.2	215	92	1	2169	31	19	15	33	1.93
502801--502902	42	2.5	41	82	4	116	29	22	21	26	1.99
503118--503282	37	4.6	35	80	11	140	18	17	24	39	1.92
503141--503292	37	4.1	37	88	5	218	18	18	22	40	1.91
505222--505259	2	20.0	2	89	10	62	47	0	0	52	1.00
505222--505259	19	2.0	19	100	0	76	47	0	0	52	1.00
507348--507396	6	8.2	6	88	8	73	53	16	14	16	1.74
507348--507396	19	2.7	18	90	6	73	53	16	14	16	1.74
510359--510425	23	2.9	23	77	4	73	28	22	23	25	1.99
510444--510656	101	2.1	102	93	3	367	36	23	14	25	1.93
511667--511828	64	2.5	63	76	10	159	26	20	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521114--521694	144	4.0	144	89	1	837	35	18	11	34	1.87
528911--528950	20	2.0	21	95	5	73	30	22	20	27	1.98
540704--540746	16	2.8	16	89	3	61	39	11	20	27	1.88
540716--540746	16	1.9	16	100	0	62	38	12	19	29	1.89
546555--546651	46	2.1	45	82	1	113	35	9	19	36	1.84
546635--546722	20	4.4	21	71	15	69	27	13	26	32	1.94
546675--546725	20	2.5	20	90	0	84	25	13	25	35	1.93
555679--555703	13	1.9	13	100	0	50	48	8	0	44	1.32
558596--558662	28	2.4	28	85	11	93	37	1	17	43	1.59
558642--558833	29	6.7	29	73	9	126	38	7	7	46	1.61
558643--558833	86	2.2	87	89	0	285	38	7	7	46	1.61
558643--558861	86	2.5	85	85	3	233	40	8	6	44	1.61
558757--558886	57	2.3	57	77	7	138	40	7	6	46	1.58
560351--560441	6	16.2	5	89	7	83	21	6	0	71	1.09
560867--560919	29	1.9	28	88	11	83	64	3	24	7	1.37
561835--561877	19	2.3	19	100	0	86	13	13	16	55	1.69
562188--562232	11	4.1	11	80	8	56	51	0	0	48	1.00
568582--568657	23	3.4	22	77	12	73	77	5	15	1	1.01
568583--568640	16	3.8	16	76	13	59	79	6	12	1	1.00
570761--571706	241	3.9	237	73	13	745	32	15	17	34	1.92
571933--571957	3	8.3	3	100	0	50	32	0	0	68	0.90
572464--572530	27	2.5	25	80	15	80	71	4	17	5	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575621--575687	33	2.1	32	88	2	98	23	26	14	34	1.94
576092--576133	22	2.0	22	90	4	68	21	21	23	33	1.97
576099--576153	22	2.5	22	78	3	56	30	14	20	34	1.92
576151--576204	22	2.5	22	96	0	99	25	14	27	31	1.95
576151--576211	22	2.8	21	85	9	77	26	18	26	29	1.98
576424--576481	18	3.1	18	88	11	89	48	12	12	27	1.76
579154--579223	33	2.1	33	89	0	104	22	30	14	32	1.94
579689--579757	22	3.1	22	97	0	129	26	18	26	28	1.98
579654--579721	35	2.0	35	91	2	111	27	14	26	30	1.95
579629--579743	57	2.0	57	88	3	169	26	15	24	33	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21