genome.fa.s8563.2.7.7.80.10.50.1000.2.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: VEPZ01008563.1 Hibiscus syriacus cultivar Beakdansim tig00111473_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  653500

Tables:   1   2   3   

This is table  2  of  3  ( 252 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)
324031--324064	5	6.6	5	86	6	50	82	0	0	17	0.67
324031--324064	16	2.2	16	89	5	52	82	0	0	17	0.67
324105--324149	23	2.0	23	83	8	58	60	6	13	20	1.55
325243--325313	3	24.0	3	97	2	135	66	0	0	33	0.92
330928--330989	20	3.0	20	77	11	72	12	25	38	22	1.90
341537--341561	13	1.9	13	100	0	50	24	8	0	68	1.16
347917--348000	31	2.7	31	92	0	132	23	29	17	28	1.97
352859--352921	31	2.0	31	90	0	99	36	11	12	39	1.79
357705--357758	3	18.0	3	81	7	65	59	0	0	40	0.98
357903--358186	124	2.3	120	84	8	353	24	18	16	40	1.90
358106--358507	225	1.8	216	89	4	633	30	18	13	37	1.89
358105--358508	112	3.7	109	83	6	526	30	18	13	37	1.89
358454--358541	17	5.1	16	70	24	72	23	19	9	47	1.78
358454--358543	36	2.6	36	92	3	148	23	20	8	47	1.77
358473--358536	19	3.5	20	70	25	59	18	21	9	50	1.75
358341--358622	143	1.9	145	85	2	388	28	18	13	40	1.88
359340--359999	115	5.7	115	95	0	1191	31	20	13	34	1.92
359903--360193	93	3.1	93	93	1	476	35	19	15	29	1.93
361201--361251	7	7.7	7	78	12	63	1	13	0	84	0.71
361200--361256	14	4.2	14	80	14	66	1	15	0	82	0.75
361203--361251	25	2.0	25	91	0	80	2	14	0	83	0.73
361210--361255	18	2.6	18	85	0	65	2	15	0	82	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368581--368612	15	2.1	15	94	0	55	46	6	18	28	1.73
374085--374153	3	23.0	3	88	5	95	60	0	0	39	0.97
377845--377926	23	3.7	23	91	4	125	20	34	25	19	1.96
377865--377948	23	3.8	20	89	6	69	22	35	25	16	1.95
377845--377949	44	2.4	42	80	10	115	21	35	24	18	1.96
379367--379419	13	3.9	13	90	5	70	24	30	9	35	1.87
381642--381694	26	2.1	26	92	3	90	49	1	7	41	1.42
381716--381793	24	3.0	27	71	17	85	41	0	6	52	1.27
381730--381788	22	2.7	21	78	2	64	40	0	6	52	1.28
381800--381854	23	2.3	23	78	9	58	14	7	0	78	0.96
393066--393192	21	5.9	21	76	12	123	25	11	25	37	1.90
393066--393198	44	3.0	43	87	4	185	25	12	25	36	1.90
399491--399597	21	5.0	21	75	16	103	26	12	24	37	1.90
399490--399590	43	2.3	44	83	8	134	26	11	24	36	1.90
400169--400200	13	2.5	13	95	5	57	34	0	0	65	0.93
400390--400436	20	2.3	20	78	7	51	29	6	25	38	1.81
408895--408928	2	17.0	2	100	0	68	50	0	0	50	1.00
409636--409786	45	3.4	45	91	1	232	43	5	21	29	1.76
411414--411472	30	1.9	30	86	10	84	33	3	16	45	1.64
411523--411602	2	40.5	2	92	7	137	50	1	0	48	1.08
412005--412040	2	18.5	2	94	5	65	50	0	0	50	1.00
412227--412283	30	1.9	30	89	3	89	54	1	0	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414977--415020	20	2.2	20	84	4	63	68	0	2	29	1.02
417652--417710	21	2.6	22	75	20	59	20	18	30	30	1.96
418061--418164	54	1.9	54	96	3	192	38	16	5	39	1.72
425862--425934	35	2.0	37	82	10	89	50	4	1	43	1.29
427445--427490	21	2.1	22	92	4	76	19	15	32	32	1.93
431218--431387	90	1.9	88	93	2	295	38	10	6	44	1.65
434258--434289	15	2.1	15	94	0	55	50	21	12	15	1.77
435116--435146	16	1.9	16	93	0	53	38	9	12	38	1.77
435424--435454	16	1.9	16	93	0	53	41	25	19	12	1.87
435702--435775	37	2.0	36	86	2	103	52	13	8	25	1.67
439618--439647	14	2.1	14	93	0	51	33	6	0	60	1.23
446215--446291	14	5.1	15	78	10	68	67	2	0	29	1.04
446215--446291	29	2.5	30	81	12	86	67	2	0	29	1.04
451734--451812	36	2.2	36	93	0	131	32	29	3	34	1.75
461028--461107	33	2.5	32	79	4	97	50	8	5	36	1.55
461114--461289	88	2.0	88	90	0	280	47	13	5	34	1.64
460899--461283	186	2.1	186	81	4	429	48	10	4	36	1.58
469764--469817	21	2.6	21	80	8	67	27	24	20	27	1.99
477669--477720	21	2.5	20	81	9	61	28	25	17	28	1.97
485225--485260	19	1.9	19	88	5	56	13	27	30	27	1.94
485242--485291	23	2.2	22	92	3	82	20	24	34	22	1.97
492483--492560	29	2.8	28	88	2	111	47	17	12	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493114--493148	6	5.7	6	93	3	52	48	20	11	20	1.79
493688--493738	25	2.0	25	96	0	93	45	25	3	25	1.71
505241--505265	12	2.1	12	100	0	50	20	16	8	56	1.65
506130--506177	22	2.2	22	88	0	69	60	6	4	29	1.40
507621--507694	37	2.0	37	97	0	139	22	37	12	27	1.90
508177--508229	3	17.7	3	88	0	79	60	0	3	35	1.15
508469--508795	117	2.8	118	80	6	376	26	21	15	37	1.93
508469--508819	118	3.0	117	77	5	386	26	20	15	37	1.93
508821--509348	136	3.9	136	88	2	748	28	21	16	33	1.95
509389--509512	42	3.0	42	93	1	214	34	20	20	24	1.96
509503--509695	90	2.1	90	90	1	298	37	19	16	26	1.92
518320--518434	59	1.9	62	94	5	209	53	17	6	21	1.67
518328--518423	29	3.2	29	65	11	77	55	16	8	19	1.67
519413--519459	3	15.7	3	90	0	76	61	0	2	36	1.08
522449--522534	29	3.0	29	82	3	111	41	16	16	25	1.88
522534--522667	41	3.3	41	91	0	205	30	21	25	22	1.99
530522--530585	29	2.2	29	91	0	101	46	12	18	21	1.82
531451--531509	17	3.5	17	72	9	57	32	13	23	30	1.93
534724--535193	45	10.4	45	88	3	660	29	21	11	38	1.88
541243--541797	45	12.4	44	86	3	663	29	20	10	38	1.87
541253--541760	90	5.7	90	88	3	736	29	20	10	39	1.86
541253--541760	135	3.8	135	88	2	754	29	20	10	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559217--559259	18	2.4	18	96	0	77	23	4	0	72	1.04
559453--559537	12	7.0	11	75	21	73	18	4	0	76	0.96
559498--559537	6	6.7	6	100	0	80	15	0	0	85	0.61
559493--559571	18	4.5	17	73	10	70	18	3	0	77	0.92
566931--567160	123	1.9	123	85	3	320	37	23	13	25	1.91
567916--568078	85	1.9	85	81	7	197	31	1	11	55	1.47
568583--568625	18	2.4	18	88	0	59	23	6	0	69	1.12
568818--568871	14	4.2	13	75	15	58	12	5	0	81	0.85
568858--568962	40	2.9	34	70	21	88	20	8	0	70	1.19
570428--570487	29	2.0	31	90	6	97	35	6	16	41	1.75
570419--570495	31	2.4	32	83	14	97	36	6	15	41	1.73
572067--572124	24	2.4	24	94	0	98	39	27	6	25	1.81
575691--575715	3	8.3	3	100	0	50	68	0	0	32	0.90
576128--576245	45	2.5	45	79	6	119	38	25	11	24	1.88
576208--576381	45	3.9	45	83	3	206	37	17	17	27	1.92
576207--576381	90	1.9	90	84	0	233	37	18	17	27	1.93
576423--576502	36	2.2	36	82	6	90	48	10	12	28	1.73
578331--578539	105	2.0	105	80	8	237	30	16	15	36	1.91
587624--587672	24	2.0	24	92	0	80	20	26	16	36	1.93
594763--594909	77	1.9	79	83	5	192	40	8	5	46	1.57
598046--598086	20	2.0	20	95	0	73	39	14	17	29	1.89
598840--598930	19	4.8	18	75	14	85	47	20	18	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598840--599054	42	5.4	39	81	9	143	40	23	20	15	1.90
598918--599077	20	7.8	21	81	12	190	35	26	20	16	1.94
598914--599084	40	4.2	40	90	4	270	38	25	20	16	1.93
599183--599245	6	10.5	6	100	0	126	33	50	15	0	1.45
599728--599792	6	11.7	6	84	15	95	0	13	52	33	1.41
599728--599786	21	2.8	21	92	2	91	0	13	52	33	1.41
599728--599792	27	2.4	27	97	2	121	0	13	52	33	1.41
599888--600145	20	13.1	20	75	16	229	14	19	22	43	1.87
599892--600066	56	3.0	56	87	7	219	14	20	24	41	1.89
599890--600145	138	1.9	133	84	8	336	14	19	22	43	1.87

Tables:   1   2   3