genome.fa.s7754.2.7.7.80.10.50.1000.3.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: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3698414

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

This is table  3  of  15  ( 1710 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)
420240--420378	43	3.4	42	79	6	117	17	15	25	40	1.90
427321--427347	2	13.5	2	100	0	54	51	0	0	48	1.00
430808--431000	41	4.7	42	72	13	134	30	17	17	34	1.93
430906--431137	41	5.7	40	72	16	152	34	18	15	31	1.92
430808--431137	82	4.0	81	80	7	333	31	17	16	33	1.93
431360--431730	42	8.9	42	83	4	396	33	17	20	28	1.95
431384--431731	41	8.4	41	84	2	383	32	16	21	29	1.95
431360--431707	166	2.1	166	87	0	507	34	18	20	27	1.95
433065--433143	41	1.9	41	86	0	113	30	17	13	37	1.89
433148--433289	41	3.4	42	73	10	139	27	16	19	36	1.93
434564--434589	12	2.2	12	100	0	52	19	0	0	80	0.71
441181--441207	3	9.0	3	100	0	54	66	0	0	33	0.92
441551--441758	98	2.1	98	89	1	310	32	10	18	38	1.84
448078--448116	20	1.9	20	89	5	60	30	7	7	53	1.57
457432--457483	26	2.0	25	96	3	95	38	0	0	61	0.96
461836--461990	59	2.6	60	82	8	192	36	9	14	40	1.77
462181--462213	13	2.4	14	90	5	50	33	3	0	63	1.10
463909--463946	20	1.9	20	94	0	67	57	7	2	31	1.41
464746--464804	31	2.0	28	81	15	66	49	28	5	16	1.67
464870--464930	32	1.9	32	86	6	88	42	24	8	24	1.82
464883--465065	87	2.1	90	93	3	318	40	18	13	27	1.88
472957--473022	2	33.5	2	96	3	125	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473406--473440	2	18.0	2	94	5	63	51	0	0	48	1.00
473935--474047	35	3.2	35	97	0	217	25	34	20	19	1.96
474154--474234	35	2.3	35	97	0	153	25	34	20	18	1.96
474206--474345	71	2.0	68	94	4	244	23	25	32	19	1.98
474340--474448	29	3.8	29	91	2	166	15	32	30	22	1.95
474454--474500	23	2.0	23	100	0	94	25	44	8	21	1.80
474621--474672	25	2.1	25	92	0	86	28	9	32	28	1.89
474710--474741	17	1.9	16	93	6	55	62	0	37	0	0.95
474711--474783	27	2.8	25	86	12	101	60	1	35	2	1.20
474969--475042	39	1.9	38	81	13	89	41	0	12	45	1.41
476754--476812	26	2.3	24	78	16	64	40	3	8	47	1.51
477083--477112	15	1.9	16	93	6	53	43	13	0	43	1.43
477241--477278	19	2.0	20	84	5	51	2	26	5	65	1.27
477526--477617	46	2.1	43	84	13	116	48	7	1	42	1.38
477588--477653	26	2.5	26	87	7	89	51	12	0	36	1.39
477971--478034	32	2.0	32	100	0	128	31	21	25	21	1.98
478134--478162	14	2.1	14	100	0	58	20	51	6	20	1.70
478105--478245	50	2.9	50	88	8	209	19	52	7	20	1.69
478183--478210	14	2.0	14	100	0	56	21	50	7	21	1.72
478184--478313	33	4.2	32	75	16	130	19	49	8	23	1.75
478279--478366	42	2.1	41	91	8	142	18	40	13	27	1.88
478350--478384	18	1.9	18	100	0	70	17	22	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478403--478491	29	3.1	29	100	0	178	17	37	31	13	1.89
490687--491042	179	2.0	176	92	2	597	27	17	19	34	1.95
491337--491435	43	2.3	42	78	11	103	40	11	15	33	1.82
493350--493381	17	1.9	17	93	6	57	56	3	28	12	1.51
498656--498689	15	2.2	16	89	5	52	23	8	0	67	1.18
499594--499678	29	2.9	29	80	15	86	75	2	11	10	1.14
499635--499677	23	2.0	21	86	9	59	79	2	11	6	1.02
500671--500706	2	18.0	2	100	0	72	50	0	0	50	1.00
501357--501406	2	25.0	2	100	0	100	50	0	0	50	1.00
506835--506897	28	2.2	29	80	8	76	68	1	6	23	1.22
506808--506903	19	5.2	17	69	23	52	68	2	7	21	1.24
506978--507038	8	8.2	8	78	10	51	62	3	0	34	1.12
507819--507853	16	2.1	18	89	10	56	65	0	8	25	1.21
508395--508529	37	3.8	36	84	9	170	28	14	14	42	1.85
508428--508528	34	2.9	35	91	8	161	27	14	13	43	1.84
509069--510138	105	10.3	105	89	4	1507	22	18	25	33	1.97
509069--510138	205	5.2	205	91	2	1554	22	18	25	33	1.97
510965--511123	67	2.4	67	86	4	214	33	10	22	32	1.89
510998--511270	36	7.9	36	67	16	146	35	13	22	28	1.92
511166--511270	36	2.9	37	87	5	151	37	15	22	24	1.93
510998--511253	102	2.5	102	80	3	282	34	12	22	29	1.92
512123--512197	22	3.4	22	94	0	132	21	13	28	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512803--512838	14	2.6	13	87	12	54	2	8	5	83	0.89
512821--512870	21	2.4	21	87	12	68	0	14	6	80	0.90
512814--512867	22	2.7	20	78	13	65	0	14	3	81	0.82
512817--512865	10	5.3	9	76	13	55	0	14	4	81	0.83
512804--512865	18	3.4	18	73	18	58	1	12	4	80	0.94
516017--516050	16	2.1	17	88	5	52	64	0	8	26	1.22
516114--516250	32	4.4	30	74	14	98	59	5	5	29	1.43
517084--517169	39	2.2	39	81	6	95	58	5	4	31	1.42
515497--517420	962	2.0	960	95	3	3488	45	12	15	26	1.81
517546--517681	37	3.8	36	82	8	161	30	13	13	41	1.84
517580--517680	34	2.9	35	89	8	152	28	13	13	43	1.83
521018--521048	16	1.9	16	93	0	53	70	0	0	29	0.87
522278--522330	2	27.0	2	96	3	99	50	0	0	49	1.00
525606--525638	17	1.9	17	93	0	57	78	0	0	21	0.75
525623--525674	21	2.5	21	100	0	104	67	0	0	32	0.91
525604--525675	21	3.3	22	83	9	94	69	0	0	30	0.89
533337--533374	18	2.1	18	95	0	67	28	47	21	2	1.64
534785--534821	18	2.1	18	90	10	58	32	8	0	59	1.27
543099--543137	2	19.5	2	100	0	78	48	0	0	51	1.00
551066--551207	71	2.0	71	85	0	194	35	23	14	26	1.94
552343--552419	34	2.3	34	90	4	129	33	25	3	36	1.75
552814--553119	160	1.9	156	89	3	470	41	21	11	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555374--555653	107	2.6	107	86	1	391	38	10	15	36	1.80
556269--556326	23	2.5	23	88	0	80	36	10	15	37	1.82
556287--556331	23	2.0	23	90	0	72	37	8	17	35	1.81
556390--556439	23	2.2	23	92	0	82	36	14	12	38	1.83
556220--556521	121	2.5	121	89	1	453	34	13	11	41	1.80
556390--556447	23	2.5	23	88	0	71	37	13	10	37	1.79
556450--556769	75	4.3	75	80	7	310	33	12	12	41	1.80
556456--556741	150	1.9	151	84	5	391	34	12	11	41	1.79
556436--556769	151	2.2	150	81	3	395	34	12	11	41	1.79
562272--562403	60	2.2	60	79	5	142	37	7	17	37	1.78
563267--563298	13	2.5	13	94	0	55	34	28	9	28	1.88
573886--573959	6	11.8	6	77	8	76	24	33	0	41	1.55
577034--577079	20	2.5	17	86	10	56	45	10	8	34	1.70
584544--584611	31	2.2	29	80	14	82	64	2	4	27	1.27
586164--586203	21	1.9	21	100	0	80	20	25	15	40	1.90
591382--591432	21	2.4	21	93	0	84	43	11	17	27	1.84
592064--592116	25	2.1	25	82	6	63	45	3	5	45	1.45
607150--607217	2	34.5	2	97	2	129	50	0	0	50	1.00
609613--609649	12	3.1	12	88	0	56	62	0	0	37	0.96
609615--609655	12	3.3	12	86	3	55	63	0	2	34	1.08
611285--611335	20	2.6	19	76	11	59	52	3	1	41	1.31
618276--618416	60	2.3	60	86	2	183	47	4	17	30	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618322--618455	60	2.2	60	81	7	130	46	6	17	29	1.73
619008--619060	19	2.8	19	97	2	99	37	0	5	56	1.23
619054--619080	14	1.9	14	100	0	54	37	0	3	59	1.15
629653--629680	2	14.0	2	100	0	56	50	0	0	50	1.00
636035--636128	24	4.0	24	83	2	109	24	14	20	40	1.90
636031--636135	24	4.4	24	80	2	68	25	13	20	40	1.88
637978--638274	117	2.5	117	94	0	522	32	32	16	17	1.93
645321--645616	117	2.5	116	90	2	448	33	30	15	20	1.94
648802--648866	28	2.4	28	94	2	114	23	3	44	29	1.68
654570--654629	2	29.0	2	80	6	57	48	11	0	40	1.40

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