genome.fa.s8054.2.7.7.80.10.50.1000.2.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: VEPZ01008054.1 Hibiscus syriacus cultivar Beakdansim tig00110549_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  738886

Tables:   1   2   3   

This is table  2  of  3  ( 315 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)
376642--376750	15	7.3	15	75	10	80	0	43	0	55	1.05
376642--376739	44	2.3	42	82	6	117	0	43	0	56	0.99
376685--376769	31	2.8	31	81	12	95	0	38	3	57	1.16
378447--378492	24	1.9	24	86	0	65	15	10	17	56	1.67
378945--379033	10	9.5	10	65	26	52	10	11	20	58	1.61
378949--379029	16	5.1	16	95	0	144	8	12	22	56	1.62
379100--379138	16	2.6	14	85	14	60	15	7	12	64	1.49
380898--381023	27	4.6	26	68	23	80	45	0	1	52	1.16
381048--381092	23	2.0	23	86	0	63	53	2	2	42	1.25
381388--381447	15	4.1	15	77	10	61	40	13	5	41	1.66
381378--381442	30	2.2	29	88	2	94	38	13	4	43	1.65
382744--382784	12	3.2	13	89	6	57	29	0	0	70	0.87
382744--382790	14	3.4	14	88	5	78	29	0	0	70	0.88
382744--382797	27	2.0	27	89	3	83	33	0	0	66	0.92
383499--383531	12	2.8	12	95	0	57	36	0	3	60	1.12
385286--385382	36	2.6	37	85	6	126	30	15	14	39	1.87
385843--386148	97	3.0	99	78	9	298	23	20	22	33	1.97
386068--386459	213	1.8	215	84	4	542	22	19	25	32	1.97
385998--386459	109	4.4	109	82	5	513	23	19	24	32	1.98
386877--387020	66	2.2	66	86	7	204	33	10	23	32	1.89
386976--387063	35	2.5	33	78	8	86	38	11	21	28	1.88
386976--387358	100	3.9	101	89	5	570	37	12	20	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387084--387159	38	2.1	37	85	5	100	40	14	19	25	1.89
387084--387373	36	8.5	35	67	20	159	37	13	20	28	1.90
387275--387371	34	2.8	34	90	3	140	37	13	22	26	1.91
388226--388276	22	2.3	22	96	0	93	25	11	27	35	1.91
388871--388933	18	3.4	19	78	8	58	1	14	4	79	0.97
388889--388952	31	2.1	30	82	5	76	0	18	6	75	1.01
389884--389949	21	3.1	21	93	0	105	30	27	25	16	1.97
390623--390745	31	4.0	31	90	4	180	20	20	22	36	1.95
393849--393893	21	2.1	21	87	0	63	31	28	24	15	1.96
394560--394684	62	2.0	62	87	6	182	21	19	22	36	1.95
394560--394669	31	3.5	31	92	4	186	20	20	21	38	1.94
398754--398802	23	2.2	23	85	7	66	57	0	4	38	1.18
399270--399367	37	2.6	37	82	6	110	32	15	13	38	1.86
408395--408430	3	12.7	3	88	11	58	27	0	0	72	0.85
408485--408536	21	2.5	20	84	12	68	21	5	1	71	1.17
408549--408598	2	25.0	2	95	0	91	50	0	2	48	1.12
408812--408868	5	11.8	5	83	7	64	17	7	0	75	1.02
408813--408891	14	5.6	14	76	7	79	15	5	2	77	1.05
409977--410384	203	2.0	204	99	0	809	24	22	25	26	2.00
415236--415576	177	1.9	175	95	1	612	27	18	13	40	1.88
415890--415985	41	2.3	42	85	5	124	32	20	19	27	1.97
416424--416474	21	2.4	21	96	0	93	17	13	29	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418167--418224	20	2.7	20	84	10	71	31	18	22	27	1.97
419136--419259	30	4.1	30	88	2	151	21	21	25	30	1.98
419530--419578	2	25.0	2	95	4	91	48	0	0	51	1.00
425643--425688	21	2.2	21	84	7	58	43	17	28	10	1.82
426023--426150	44	2.9	44	82	0	148	32	21	14	31	1.93
426123--426182	30	2.0	30	83	6	77	31	15	18	35	1.91
426185--426424	43	5.6	42	80	5	250	31	22	18	27	1.97
437271--437342	21	3.4	21	74	14	76	22	19	19	38	1.93
437257--437344	42	2.1	42	89	0	131	23	18	21	36	1.95
437487--437555	21	3.2	21	89	4	84	33	23	23	20	1.97
437501--437555	21	2.6	21	97	0	101	30	27	23	18	1.97
437543--437614	20	3.6	20	92	0	126	38	15	20	25	1.92
439698--439775	32	2.4	32	85	8	95	39	0	2	57	1.12
439693--439756	16	3.7	18	70	16	55	37	0	3	59	1.13
439682--439730	19	2.4	20	76	13	55	34	0	4	61	1.15
439706--439780	30	2.4	32	82	6	91	38	0	1	60	1.06
441460--441507	21	2.3	21	85	0	60	25	39	12	22	1.89
441511--441583	21	3.5	21	88	7	112	17	34	27	20	1.95
442107--442203	33	2.9	34	85	3	133	55	4	3	37	1.35
442105--442210	34	3.2	33	82	8	133	54	4	2	37	1.36
442595--443600	127	7.9	127	97	0	1910	32	18	25	22	1.97
442595--443600	253	4.0	255	97	0	1914	32	18	25	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443668--443708	8	5.2	8	82	5	57	36	29	0	34	1.58
455102--455175	19	3.9	19	94	0	94	33	21	20	24	1.97
455222--455286	32	2.0	32	81	0	76	24	26	18	30	1.98
455276--455382	20	5.3	20	80	8	128	38	19	20	21	1.94
455276--455384	41	2.7	40	80	9	132	37	20	21	21	1.94
455332--455392	20	3.0	20	88	4	61	36	19	21	22	1.95
456245--456298	24	2.2	24	93	0	90	20	18	20	40	1.91
458731--458819	20	4.4	20	82	2	108	34	21	22	21	1.97
458791--458886	33	2.9	34	87	6	133	41	19	21	16	1.90
458901--458996	33	2.8	33	85	3	111	15	21	18	43	1.87
459098--459134	14	2.6	14	86	0	56	48	21	0	29	1.50
460486--460568	42	2.0	42	85	4	114	20	20	37	21	1.95
460486--460597	42	2.7	42	77	5	111	22	18	37	21	1.94
461074--461170	33	2.9	34	84	3	142	47	23	17	11	1.80
461144--461192	20	2.5	20	86	0	71	34	24	20	20	1.96
461216--461329	34	3.2	34	77	13	120	19	20	16	43	1.88
461242--461360	20	6.2	20	75	14	117	21	17	19	42	1.90
461216--461360	74	2.0	74	87	2	211	20	18	18	42	1.89
463235--463302	20	3.4	20	85	0	73	44	23	14	17	1.86
463348--463394	20	2.3	20	88	0	67	21	19	23	36	1.95
463963--464052	20	4.4	20	75	5	74	23	20	18	37	1.94
463963--464052	41	2.2	40	86	2	117	23	20	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464054--464098	21	2.1	21	87	0	63	37	17	26	17	1.93
469283--469657	187	2.0	187	100	0	750	33	20	23	21	1.97
475823--475898	35	2.2	35	92	0	125	39	23	1	35	1.63
476297--476544	130	1.9	130	91	0	406	36	15	12	35	1.86
476311--476575	130	2.0	129	80	4	291	40	13	12	33	1.83
483642--483689	25	1.9	25	83	8	62	43	37	10	8	1.69
484501--484537	2	19.0	2	91	5	58	45	0	54	0	1.00
485910--485934	2	12.5	2	100	0	50	48	0	52	0	1.00
493661--493686	3	8.7	3	100	0	52	0	30	0	69	0.89
496273--496387	60	1.9	60	87	3	169	34	13	14	36	1.86
496265--496408	60	2.4	60	80	10	168	32	13	18	36	1.89
498632--498695	23	2.8	23	82	0	74	20	20	9	50	1.75
502796--502828	17	1.9	17	100	0	66	30	6	18	45	1.73
504132--504192	23	2.6	24	82	7	81	16	24	26	32	1.96
508537--508590	23	2.3	23	96	0	99	16	25	24	33	1.96
508537--508597	23	2.7	23	92	0	86	18	24	24	32	1.97
508537--508605	23	3.0	23	89	0	75	18	23	23	34	1.96
511625--511700	37	2.1	37	100	0	152	23	13	32	30	1.93
514549--514595	20	2.3	20	81	0	58	31	21	21	25	1.98
514589--514635	20	2.3	20	96	0	85	44	27	12	14	1.82
514629--514676	20	2.4	20	92	0	87	41	16	20	20	1.90
515053--515107	20	2.8	20	88	0	83	21	20	12	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515237--515263	14	1.9	14	100	0	54	25	0	0	74	0.83
520739--520782	9	4.6	10	80	8	56	11	2	11	75	1.15
520739--520782	19	2.3	19	92	0	70	11	2	11	75	1.15
520664--520911	114	2.2	114	91	2	401	37	4	7	49	1.53
520863--520896	10	3.5	10	84	8	52	8	5	8	76	1.15
520853--520896	19	2.3	19	96	0	79	11	4	9	75	1.19
521251--521332	42	2.0	42	82	4	103	20	18	29	31	1.96
545127--545204	26	3.0	27	80	12	85	44	1	1	52	1.17
545157--545239	36	2.2	36	85	12	105	44	0	1	54	1.08
545102--545265	62	2.7	63	88	8	250	41	1	1	55	1.18

Tables:   1   2   3