genome.fa.s4048.2.7.7.80.10.50.1000.3.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: VEPZ01004048.1 Hibiscus syriacus cultivar Beakdansim tig00008843_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  625444

Tables:   1   2   3   

This is table  3  of  3  ( 358 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)
487383--487542	57	2.8	56	91	2	239	36	18	14	31	1.90
487543--487621	20	3.9	20	96	1	140	25	18	18	36	1.94
495680--495721	18	2.2	20	83	12	52	33	9	7	50	1.62
496606--496674	36	1.9	36	87	0	102	28	18	10	42	1.83
499584--499630	23	2.0	23	92	8	78	40	4	25	29	1.75
500670--500724	2	27.5	2	96	0	101	49	1	0	49	1.11
503468--503550	31	2.7	32	77	5	107	20	18	18	43	1.88
503783--503832	21	2.4	21	83	6	57	48	0	0	52	1.00
505993--506043	21	2.4	21	93	0	84	35	19	15	29	1.93
507310--507361	23	2.3	23	93	0	86	26	25	5	42	1.77
507318--507364	23	2.0	23	100	0	94	25	21	4	48	1.68
518853--518926	22	3.3	21	70	18	51	37	1	4	56	1.27
520457--520547	42	2.2	42	84	2	112	21	36	16	25	1.94
520528--520639	21	5.3	21	84	12	149	19	33	21	25	1.97
520531--520639	42	2.6	42	95	0	191	19	33	21	26	1.97
521205--521257	21	2.5	21	93	0	88	28	28	22	20	1.99
521452--521506	13	4.2	13	75	13	58	49	12	3	34	1.59
521492--521590	33	3.0	32	91	4	153	46	14	7	32	1.71
521585--521623	21	1.9	21	94	5	71	48	7	15	28	1.72
521587--521632	21	2.2	21	84	7	58	56	4	10	28	1.53
523904--523955	22	2.2	24	90	6	81	28	19	19	32	1.96
524613--524647	14	2.5	14	100	0	70	60	11	0	28	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530070--530128	29	2.0	29	100	0	118	23	13	13	49	1.78
534752--534810	29	2.0	29	100	0	118	23	13	13	49	1.78
537903--537954	21	2.5	21	84	6	61	53	0	5	40	1.25
537939--537977	18	2.2	18	85	0	51	51	0	2	46	1.14
538761--538794	17	2.0	17	100	0	68	41	17	23	17	1.90
539800--539840	20	2.0	21	90	9	68	19	9	29	41	1.83
549722--549780	21	2.8	21	80	10	66	20	23	23	32	1.98
551332--551387	24	2.3	25	78	3	69	42	7	0	50	1.30
551335--551398	26	2.4	27	79	10	69	42	4	0	53	1.22
551338--551434	30	3.7	24	68	24	61	39	4	2	54	1.31
554247--554309	30	2.1	31	85	8	85	26	4	3	65	1.28
554541--554594	20	2.6	21	82	5	65	29	25	18	25	1.98
554650--554676	14	1.9	14	100	0	54	22	14	18	44	1.86
555265--555367	14	6.6	14	73	20	80	11	24	21	42	1.86
555279--555388	33	3.3	31	91	6	148	11	23	22	41	1.87
555360--555416	20	2.8	20	82	10	71	14	21	19	45	1.85
557048--557232	91	2.0	89	88	6	271	21	10	18	48	1.78
557506--557572	21	3.2	21	66	6	55	23	35	20	19	1.95
557479--557572	42	2.2	42	81	7	102	22	35	21	21	1.96
558923--558958	14	2.6	14	95	0	63	30	0	25	44	1.54
559065--559142	19	4.4	19	81	15	112	46	17	21	14	1.84
559081--559176	33	2.9	33	90	3	149	47	21	18	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559116--559192	19	4.3	19	78	18	76	46	24	15	12	1.81
559192--559318	33	3.8	33	95	0	218	12	24	18	44	1.85
559227--559318	19	5.4	19	71	24	96	14	21	18	45	1.84
559213--559300	14	5.6	14	69	23	50	12	23	19	44	1.85
559312--559384	20	3.6	20	67	10	58	26	13	23	36	1.92
561647--561683	12	3.1	12	92	0	65	0	29	0	70	0.88
561858--561911	24	2.2	24	90	0	81	40	20	16	22	1.91
562684--562735	21	2.5	21	87	3	70	38	17	23	21	1.93
562720--562811	20	4.6	20	73	2	76	40	19	18	21	1.92
564712--564803	42	2.2	42	86	5	134	22	14	40	22	1.90
565147--565233	20	4.4	19	77	7	75	36	24	20	18	1.95
565147--565265	33	3.2	39	76	14	101	40	23	19	16	1.91
565222--565278	14	3.7	14	75	20	60	50	22	15	10	1.74
565206--565285	33	2.4	33	100	0	160	47	21	18	12	1.81
565315--565372	14	3.8	14	75	20	62	10	15	24	50	1.75
565297--565388	33	2.8	33	94	0	148	13	17	20	48	1.80
565330--565388	19	3.4	19	73	22	74	13	18	20	47	1.82
565373--565427	20	2.8	19	83	8	65	16	23	23	36	1.94
565966--566013	18	2.7	18	93	0	87	14	12	45	27	1.81
567333--567391	20	3.0	20	87	0	73	44	22	18	15	1.87
567654--567697	22	2.0	22	90	0	70	18	15	43	22	1.88
567924--568001	41	1.9	41	91	0	129	20	16	25	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567884--567997	20	5.7	20	75	10	97	24	14	26	34	1.94
567987--568038	20	2.5	20	84	3	59	19	23	19	38	1.93
567931--568019	41	2.2	41	83	4	108	21	19	23	35	1.95
569717--569774	28	2.1	28	96	0	107	37	0	25	36	1.57
572972--573014	19	2.3	19	91	0	68	4	9	25	60	1.47
574041--574088	25	1.9	25	95	0	87	64	4	2	29	1.23
574704--574830	62	2.0	63	90	4	204	46	8	11	33	1.71
579459--579512	28	1.9	28	85	14	76	40	14	18	25	1.89
579459--579517	29	2.1	28	82	14	70	45	13	16	23	1.83
579589--579721	24	5.5	24	75	12	121	32	17	15	34	1.91
579589--579723	23	5.5	24	78	10	141	33	17	15	34	1.91
579595--579721	49	2.6	48	91	5	193	33	16	14	35	1.90
581553--581589	2	18.5	2	94	0	65	48	2	0	48	1.15
584758--584899	20	6.9	21	72	7	130	17	21	23	37	1.94
584758--584899	41	3.5	41	90	3	232	17	21	23	37	1.94
584758--584924	82	2.0	83	95	1	300	17	21	23	37	1.94
584765--584946	82	2.2	81	90	3	285	20	19	23	37	1.94
584758--584924	41	4.1	40	86	8	196	17	21	23	37	1.94
585003--585074	6	12.2	6	94	2	92	41	33	0	25	1.55
585003--585074	18	4.1	18	92	3	110	41	33	0	25	1.55
585071--585101	6	5.2	6	100	0	62	35	48	16	0	1.46
585065--585101	18	2.1	18	89	0	56	37	45	13	2	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585601--585674	6	12.5	6	98	1	141	0	16	51	32	1.45
585773--585846	21	3.6	21	74	3	87	36	27	17	18	1.94
585770--585850	41	2.0	41	97	0	153	39	24	17	18	1.92
589069--589178	10	12.2	8	81	14	53	58	0	0	41	0.98
589069--589162	27	3.6	25	75	12	64	59	0	0	40	0.97
589057--589142	34	2.5	34	96	1	154	60	0	0	39	0.97
589128--589176	2	24.5	2	100	0	98	51	0	0	48	1.00
589066--589176	34	3.4	34	81	15	128	57	0	0	42	0.98
589423--589453	16	1.9	16	100	0	62	45	0	3	51	1.17
590236--590387	60	2.5	59	85	3	205	36	15	13	33	1.87
590748--590854	42	2.5	42	96	0	196	28	28	9	33	1.88
594794--594942	58	2.6	58	77	11	135	27	24	8	40	1.83
596290--596351	28	2.2	28	88	0	88	37	12	14	35	1.85
598275--598313	21	1.9	20	84	5	51	30	7	10	51	1.64
598716--598791	34	2.2	34	100	0	152	7	23	34	34	1.84
599733--599763	16	1.9	16	100	0	62	38	25	16	19	1.92
600334--600390	29	2.0	29	89	0	87	61	7	0	31	1.23
601107--601136	14	2.1	14	100	0	60	0	13	0	86	0.57
601267--601310	23	1.9	23	90	9	72	13	4	13	68	1.36
604526--604553	2	14.0	2	100	0	56	50	0	0	50	1.00
604707--604773	29	2.6	24	75	20	80	34	5	7	52	1.54
604710--604766	29	2.0	29	96	0	105	35	5	7	52	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608325--608366	10	4.0	10	84	9	57	26	0	0	73	0.83
615485--615519	2	17.5	2	100	0	70	51	0	0	48	1.00
616105--616132	3	9.3	3	100	0	56	67	0	32	0	0.91
619701--619740	15	2.7	15	92	0	62	12	40	2	45	1.56
619786--619828	16	2.6	16	80	16	52	0	25	4	69	1.07
619786--619834	18	2.8	17	82	17	57	2	24	4	69	1.17
621262--621319	19	2.9	21	82	10	84	32	15	22	29	1.95
621257--621322	21	3.2	21	80	8	91	31	16	22	28	1.96

Tables:   1   2   3

The End!