genome.fa.s5397.2.7.7.80.10.50.1000.2.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: VEPZ01005397.1 Hibiscus syriacus cultivar Beakdansim tig00012370_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1218879

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 577 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)
358089--358122	15	2.2	16	94	5	61	88	0	11	0	0.52
371021--371046	12	2.2	12	100	0	52	76	0	15	7	0.99
372180--373033	82	10.4	82	97	0	1539	29	14	20	35	1.92
373680--374323	113	5.7	113	96	0	1139	38	14	18	28	1.89
374642--374751	3	36.7	3	94	0	193	34	1	0	63	1.05
374751--374794	20	2.3	19	84	4	52	63	6	0	29	1.20
375289--375322	12	2.7	13	86	9	52	85	0	14	0	0.60
375290--375323	16	2.1	17	94	5	61	88	0	11	0	0.52
380783--380824	19	2.2	19	83	8	50	54	0	2	42	1.13
384728--384866	68	2.0	68	94	0	242	25	34	9	30	1.88
394873--394930	29	2.1	28	81	15	68	44	13	17	24	1.85
395000--395088	28	3.5	24	77	18	83	32	15	14	37	1.88
395046--395144	41	2.4	40	86	6	146	35	13	12	39	1.81
395070--395144	18	3.9	18	71	20	55	34	12	12	41	1.79
403078--403129	26	2.0	26	96	0	95	34	9	26	28	1.88
406762--406801	20	2.0	20	90	0	62	22	30	5	42	1.75
408486--408566	30	2.6	32	84	3	103	43	7	6	43	1.57
414259--414284	13	2.0	13	100	0	52	46	0	0	53	1.00
415159--415196	20	1.9	20	88	0	58	21	26	10	42	1.85
415578--415623	21	2.1	23	84	8	60	30	4	8	56	1.49
428700--428726	2	13.5	2	100	0	54	48	0	0	51	1.00
429034--429096	15	4.3	15	92	4	103	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429052--429164	54	2.1	52	85	6	147	39	0	9	50	1.35
429174--429281	32	3.7	32	76	23	146	34	0	13	51	1.42
429207--429249	22	2.0	22	100	0	86	34	0	13	51	1.42
429175--433135	54	73.6	54	77	14	3127	34	0	13	52	1.41
429307--433027	32	120.7	32	65	24	535	34	0	13	52	1.41
429340--429382	22	2.0	22	100	0	86	34	0	13	51	1.42
429427--429468	22	1.9	22	100	0	84	35	0	14	50	1.43
429480--429522	22	2.0	22	95	0	77	32	0	13	53	1.41
429669--429710	22	1.9	22	100	0	84	35	0	14	50	1.43
429888--429930	22	2.0	22	85	0	59	34	0	11	53	1.37
429996--430144	22	6.0	22	68	24	91	35	0	13	51	1.41
430156--430198	22	2.0	22	100	0	86	34	0	13	51	1.42
430242--430284	22	2.0	22	100	0	86	34	0	13	51	1.42
430296--430338	22	2.0	22	100	0	86	34	0	13	51	1.42
430350--430393	22	2.0	22	100	0	88	31	0	13	54	1.39
430567--430663	22	5.1	20	70	26	77	35	0	12	52	1.39
430619--430713	22	3.9	22	73	21	91	34	0	13	51	1.42
430725--430767	22	2.0	22	95	0	77	37	0	11	51	1.39
430781--430821	21	2.0	21	100	0	82	34	0	14	51	1.43
431011--431096	33	2.7	32	96	3	163	33	0	13	52	1.41
431155--431194	21	1.9	21	94	0	71	37	0	12	50	1.41
431336--431428	22	4.0	22	78	20	107	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431629--431671	22	2.0	22	100	0	86	34	0	13	51	1.42
431682--431724	22	2.0	22	100	0	86	34	0	13	51	1.42
431896--432036	22	6.0	22	76	20	142	35	0	13	51	1.42
432048--432090	22	2.0	22	100	0	86	34	0	13	51	1.42
432154--432196	22	2.0	22	100	0	86	34	0	13	51	1.42
432320--432362	22	2.0	22	100	0	86	34	0	13	51	1.42
432374--432416	21	2.1	21	91	4	70	37	0	13	48	1.43
432592--432633	22	1.9	22	95	0	75	33	0	11	54	1.37
432704--432746	22	2.0	22	100	0	86	34	0	13	51	1.42
432758--432801	22	2.0	22	100	0	88	31	0	13	54	1.39
432789--432842	14	3.6	14	72	18	54	37	0	7	55	1.28
432922--432964	22	2.0	22	100	0	86	34	0	13	51	1.42
433085--433127	20	2.1	21	91	4	70	34	0	13	51	1.42
433150--433208	31	1.9	31	92	0	100	42	10	6	40	1.65
433554--433595	2	21.5	2	95	4	77	47	0	0	52	1.00
435328--435356	5	5.8	5	100	0	58	79	0	0	20	0.74
436979--437044	12	5.6	12	85	3	80	10	13	48	27	1.75
436979--437044	23	2.8	24	81	4	80	10	13	48	27	1.75
437044--437124	24	3.4	25	71	19	66	44	0	0	55	0.99
438925--438967	2	22.0	2	80	4	52	48	0	0	51	1.00
447044--447101	29	2.0	29	100	0	116	24	31	17	27	1.97
447768--447824	14	4.0	14	76	13	62	15	40	22	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451180--451306	60	2.1	60	85	5	168	32	16	13	37	1.87
451517--451649	60	2.2	60	84	5	162	36	15	14	33	1.87
451764--451818	24	2.3	23	81	12	65	45	10	16	27	1.80
460420--460451	2	16.0	2	93	0	55	0	0	46	53	1.00
461647--461688	21	2.0	21	95	0	75	45	0	4	50	1.23
463132--463157	5	5.2	5	100	0	52	23	57	19	0	1.40
463541--463586	23	2.0	23	91	0	74	43	2	0	54	1.12
463548--463594	23	2.0	23	83	4	58	48	0	2	48	1.13
467177--467202	2	13.0	2	100	0	52	50	0	50	0	1.00
468705--468763	28	2.1	28	100	0	118	40	10	23	25	1.86
471900--471953	21	2.5	22	90	3	83	16	1	14	66	1.34
474160--474200	20	2.0	20	90	0	64	65	4	14	14	1.42
475860--475899	2	20.0	2	100	0	80	50	0	0	50	1.00
476156--476231	23	3.3	23	83	9	100	60	22	9	7	1.53
476486--476520	14	2.5	14	100	0	70	54	17	14	14	1.72
478717--478766	14	3.6	14	91	0	82	26	2	32	40	1.67
478716--478787	28	2.6	29	78	12	80	23	1	33	41	1.63
479113--479147	3	11.7	3	100	0	70	31	0	0	68	0.90
505344--505383	20	2.0	21	85	5	55	65	2	2	30	1.19
510082--510162	21	3.8	22	71	20	64	60	0	39	0	0.97
510070--510151	27	2.7	30	80	18	98	60	0	39	0	0.96
510083--510154	25	2.9	27	70	19	66	61	0	38	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510058--510178	33	3.4	35	76	19	99	59	0	39	0	1.03
510123--510171	21	2.4	19	80	12	53	65	2	32	0	1.04
512448--512504	24	2.4	24	96	0	105	19	26	14	40	1.89
512898--512923	2	13.0	2	100	0	52	50	0	0	50	1.00
513823--514120	45	6.6	45	87	2	366	30	14	36	18	1.90
513816--514133	135	2.4	135	86	0	429	31	13	36	18	1.90
516986--517354	45	8.3	44	71	13	224	28	9	36	24	1.87
516894--517216	177	1.8	177	84	4	445	28	9	36	25	1.88
517161--517418	132	2.0	132	92	0	435	28	10	37	24	1.88
516880--517287	87	4.7	87	80	5	419	29	9	36	25	1.87
517293--517521	87	2.6	85	84	2	278	28	11	36	23	1.89
517042--517575	219	2.4	219	86	1	714	29	10	36	23	1.88
517469--517566	45	2.2	45	86	0	133	28	15	35	20	1.93
518561--518617	21	2.7	21	94	0	96	33	22	21	22	1.97
529348--529389	20	2.0	22	86	9	61	42	0	2	54	1.13
530547--530596	23	2.2	23	100	0	100	34	16	4	46	1.65
530933--530979	2	23.5	2	100	0	94	48	0	0	51	1.00
531269--531407	60	2.3	60	79	7	149	36	12	12	38	1.81
541078--541237	65	2.5	64	85	5	207	31	23	18	27	1.97
546915--546982	21	3.2	21	82	0	82	35	30	8	25	1.86
549878--549985	55	2.0	55	98	0	207	31	13	21	33	1.92
553936--553999	33	1.9	33	90	6	103	29	12	17	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556551--556594	23	2.0	22	82	8	54	31	9	20	38	1.84
556678--556713	17	2.1	17	100	0	72	44	16	22	16	1.86
561432--561503	36	1.9	36	83	8	90	31	2	11	54	1.50
562619--563810	615	2.0	589	86	6	1660	33	12	19	34	1.90
569176--569340	90	1.8	90	86	0	240	38	7	18	35	1.78
572097--572170	31	2.3	31	83	4	85	24	8	9	58	1.57
582672--582732	26	2.5	23	84	10	68	47	0	3	49	1.18
586830--586884	26	2.0	28	83	13	71	49	1	3	45	1.30
588387--588456	36	1.9	37	85	2	97	40	10	17	32	1.82
595656--595742	42	2.1	41	91	2	138	36	12	4	45	1.63

Tables:   1   2   3   4   5