genome.fa.s6530.2.7.7.80.10.50.1000.3.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: VEPZ01006530.1 Hibiscus syriacus cultivar Beakdansim tig00015919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  612433

Tables:   1   2   3   4   

This is table  3  of  4  ( 440 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)
401503--401573	21	3.4	21	70	18	76	36	26	21	15	1.93
401483--401621	41	3.4	41	92	4	219	38	24	21	15	1.92
401632--401677	19	2.3	20	81	7	58	23	17	30	28	1.97
401913--401945	4	8.2	4	93	0	57	48	24	0	27	1.51
415039--415187	5	29.8	5	100	0	298	60	0	20	19	1.36
415185--415280	13	7.2	12	75	20	77	81	0	15	3	0.82
415186--415280	9	9.8	9	76	15	66	81	0	15	3	0.82
415188--415279	19	4.9	18	72	22	75	80	0	16	3	0.84
415037--415277	5	48.4	5	89	5	114	68	0	18	13	1.22
415184--415280	23	4.4	21	71	22	74	80	0	16	3	0.84
415184--415289	22	4.8	22	78	12	85	79	0	16	4	0.90
416606--417218	134	4.6	134	89	0	841	31	20	17	30	1.96
420246--420286	12	3.4	12	100	0	82	34	17	31	17	1.93
422502--422532	2	15.5	2	100	0	62	48	0	0	51	1.00
422957--423713	216	3.5	216	92	1	1240	49	7	12	30	1.69
423738--423828	2	44.0	2	70	14	60	47	2	5	45	1.38
423747--423854	20	5.4	20	69	18	82	47	2	5	44	1.41
423745--423827	22	3.9	22	80	15	102	46	2	4	45	1.37
423738--423852	42	2.9	41	85	11	141	47	2	6	43	1.41
423919--423944	9	2.9	9	100	0	52	42	0	11	46	1.40
424212--424275	13	4.7	13	75	11	65	53	4	1	40	1.31
424212--424250	15	2.8	14	88	11	62	56	2	0	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425026--425079	21	2.6	21	97	2	101	24	24	20	31	1.98
425111--425270	63	2.5	64	83	8	186	33	20	20	26	1.97
426166--426231	24	2.8	24	72	19	75	22	25	25	25	2.00
426866--426896	11	2.8	11	90	0	53	25	19	29	25	1.99
427153--427203	20	2.5	20	93	0	84	54	25	0	19	1.44
427315--427358	2	22.0	2	82	17	56	47	2	2	47	1.27
428283--428341	2	29.5	2	83	6	75	45	1	1	50	1.21
428174--428504	179	1.9	172	93	5	574	35	6	5	52	1.51
428581--428623	19	2.2	19	83	4	50	44	0	25	30	1.55
428605--428659	19	2.9	18	89	7	67	43	0	30	25	1.55
428615--428659	20	2.3	20	96	3	83	44	0	33	22	1.53
428872--428909	15	2.4	16	91	8	60	47	5	5	42	1.48
429115--429215	49	2.1	48	88	5	150	42	5	9	41	1.62
429154--429249	2	46.0	2	73	12	68	46	5	5	42	1.48
429161--429245	15	5.8	15	77	10	77	47	5	4	42	1.48
429337--429384	7	6.9	7	85	0	69	45	35	0	18	1.50
429337--429384	21	2.3	21	92	0	78	45	35	0	18	1.50
429404--429439	18	2.0	18	100	0	72	33	5	5	55	1.46
429865--429903	16	2.4	16	91	0	60	33	17	28	20	1.96
432986--433023	19	2.0	19	100	0	76	10	36	10	42	1.74
434051--434116	31	2.1	33	88	5	100	39	24	13	22	1.90
438759--438824	31	2.1	33	85	5	91	39	22	13	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440633--440728	3	32.0	3	95	4	176	33	0	0	66	0.92
440961--440997	17	2.2	17	100	0	74	16	13	43	27	1.85
443853--443916	24	2.7	24	90	0	92	51	32	7	7	1.59
443854--443927	24	3.1	24	82	3	87	50	32	8	9	1.64
443934--443989	24	2.3	23	85	8	76	51	39	1	7	1.40
444011--444060	12	4.2	12	82	5	66	40	44	14	2	1.56
443990--444056	35	1.9	35	84	6	91	37	44	16	1	1.57
446196--446317	40	3.0	41	75	8	113	36	20	15	27	1.93
446303--446332	12	2.5	12	88	0	51	50	26	13	10	1.73
449182--449228	21	2.2	21	92	0	76	42	19	21	17	1.89
450696--450760	18	3.7	17	81	8	69	12	4	6	76	1.12
450696--450740	16	2.7	16	86	6	63	11	4	6	77	1.09
450695--450749	16	3.3	16	76	18	58	14	3	5	76	1.10
450945--451166	117	1.9	116	86	2	320	44	13	21	20	1.86
451177--451226	25	2.0	25	84	0	64	50	10	12	28	1.71
451198--451264	33	2.0	34	88	2	100	44	11	16	26	1.82
452223--452260	15	2.6	15	87	4	51	13	10	5	71	1.30
453153--453204	23	2.4	21	82	17	63	21	5	13	59	1.55
457634--457674	21	2.0	21	85	0	55	21	24	21	31	1.98
457707--457773	33	2.0	34	91	2	109	23	22	32	20	1.98
457706--457773	19	3.9	18	79	13	88	23	22	33	20	1.97
457912--457971	30	2.0	30	100	0	120	43	20	6	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458082--458139	19	3.0	19	80	12	73	51	8	12	27	1.68
458466--458503	20	1.9	20	94	0	67	39	10	10	39	1.74
461094--461133	21	1.9	21	85	10	55	15	10	37	37	1.80
461162--461202	21	2.0	21	85	0	55	21	24	21	31	1.98
461409--461468	30	2.0	30	100	0	120	43	20	6	30	1.77
463419--463491	12	6.3	12	75	16	66	80	1	15	2	0.89
463420--463491	17	3.8	18	78	12	65	80	1	15	2	0.89
463408--463468	22	2.9	21	80	4	77	80	4	14	0	0.87
463420--463480	21	2.8	20	80	14	61	80	1	16	1	0.88
463387--463481	22	4.1	23	73	9	61	76	3	16	3	1.04
463419--463491	23	3.2	22	71	19	51	80	1	15	2	0.89
464142--464218	13	5.6	13	70	11	55	32	22	3	41	1.72
464134--464234	28	3.6	28	94	0	175	34	22	4	37	1.76
464134--464233	15	7.1	15	67	13	68	35	22	5	38	1.76
465350--465399	24	2.1	24	96	0	91	18	8	42	32	1.79
467673--467751	35	2.3	35	93	0	131	29	20	22	27	1.98
468870--468915	17	2.7	17	96	0	83	19	43	19	17	1.88
469105--469201	13	7.2	13	70	18	56	12	7	4	76	1.13
469105--469322	9	24.0	9	65	19	53	16	6	4	72	1.23
469157--469197	16	2.5	16	88	4	64	12	2	7	78	1.06
469411--469454	21	2.0	23	83	16	67	11	6	4	77	1.11
470357--470411	26	2.1	27	76	10	51	54	5	0	40	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477197--477999	55	14.6	55	79	3	722	26	23	19	30	1.98
478624--478762	51	2.7	51	80	4	163	38	16	17	27	1.91
478769--478869	45	2.2	45	81	10	125	43	18	14	22	1.87
480357--480453	39	2.5	39	96	1	176	27	25	13	32	1.93
487065--487093	14	2.0	15	93	6	51	55	0	0	44	0.99
487102--487143	19	2.1	21	86	8	61	78	0	2	19	0.86
489190--489303	42	2.7	41	76	6	113	33	21	19	25	1.97
489335--489810	39	12.3	39	93	0	767	33	18	19	28	1.95
489790--490054	76	3.5	76	83	5	297	41	12	14	31	1.83
489784--490054	75	3.6	73	82	7	278	41	12	14	31	1.83
489790--490062	151	1.8	152	80	7	340	40	13	14	31	1.85
495397--495425	14	2.0	15	93	6	51	55	0	0	44	0.99
495435--495475	21	1.9	22	90	5	66	73	2	2	21	1.07
495888--495952	33	1.9	34	81	3	78	66	6	3	24	1.29
495992--496027	14	2.6	14	91	8	56	55	2	16	25	1.55
497728--497780	2	27.0	2	86	3	72	50	1	0	47	1.12
498450--498485	2	18.0	2	100	0	72	50	0	0	50	1.00
498575--498617	2	22.0	2	90	4	70	51	0	0	48	1.00
500100--500134	3	11.7	3	88	11	54	65	0	0	34	0.93
501170--501391	69	3.2	69	79	1	248	26	27	18	27	1.98
501600--502012	76	5.5	75	84	4	442	40	17	13	29	1.87
501627--502012	149	2.6	150	84	2	472	40	17	12	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503521--503553	2	16.5	2	93	0	57	48	0	0	51	1.00
504429--504454	2	13.0	2	100	0	52	50	0	0	50	1.00
505179--505238	3	20.0	3	100	0	120	33	0	0	66	0.92
507793--508010	117	1.8	119	92	2	368	33	6	27	31	1.82
508612--509235	312	2.0	312	98	0	1196	33	19	12	33	1.90
519520--520357	134	6.3	132	77	6	683	34	19	16	30	1.94
519520--520357	268	3.2	265	81	4	929	34	19	16	30	1.94
523117--523151	3	11.7	3	87	0	52	62	0	5	31	1.18
523292--523963	82	8.2	82	87	2	897	21	19	22	36	1.95
523292--523963	247	2.7	246	87	5	923	21	19	22	36	1.95

Tables:   1   2   3   4