genome.fa.s8577.2.7.7.80.10.50.1000.2.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: VEPZ01008577.1 Hibiscus syriacus cultivar Beakdansim tig00111506_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1329373

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 525 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)
319943--319986	2	22.5	2	95	4	81	50	0	0	50	1.00
320161--320185	12	2.1	12	100	0	50	28	8	8	56	1.57
322414--322468	24	2.3	25	81	9	69	14	9	18	58	1.62
323977--324051	10	7.7	10	68	21	52	9	10	21	58	1.59
323983--324047	16	4.1	16	91	0	112	7	10	23	58	1.57
324117--324149	16	2.1	16	100	0	66	6	12	24	57	1.57
346654--346729	36	2.1	36	85	7	100	47	1	2	48	1.24
348575--348616	22	1.9	22	85	9	59	57	2	9	30	1.44
350564--350634	36	2.0	36	97	0	133	40	11	25	22	1.87
357896--358550	326	2.0	328	96	3	1216	41	20	15	22	1.90
364609--364633	12	2.1	12	100	0	50	40	8	8	44	1.63
365200--365249	25	2.0	24	81	11	57	64	0	2	34	1.05
371515--371565	24	2.2	24	83	13	70	74	0	0	25	0.82
371516--371565	23	2.2	24	89	7	77	74	0	0	26	0.83
372349--372388	21	1.9	21	84	0	53	50	10	2	37	1.50
372347--372394	21	2.3	20	79	10	51	52	8	2	37	1.44
376722--376842	64	1.9	63	84	1	161	26	17	20	35	1.95
388533--388619	36	2.5	35	76	12	88	44	1	3	50	1.26
388563--388621	22	2.8	21	72	10	57	49	0	3	47	1.18
389429--389466	5	7.6	5	100	0	76	39	21	0	39	1.53
390395--390443	21	2.3	22	79	13	57	38	8	0	53	1.31
391223--391267	23	1.9	24	81	4	56	51	2	6	40	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391362--391402	21	2.0	21	95	0	73	9	21	29	39	1.86
394509--394572	22	2.9	22	70	11	67	53	0	3	43	1.16
395641--395683	21	2.1	21	87	12	63	37	2	0	60	1.10
396295--396377	28	3.0	28	92	0	139	38	22	10	27	1.88
396666--396698	14	2.3	15	84	10	50	42	9	6	42	1.61
402558--402641	34	2.5	33	94	1	150	39	0	0	60	0.97
402894--403091	64	3.1	64	94	0	342	34	12	11	41	1.78
409623--409667	24	1.9	24	95	4	83	57	0	2	40	1.11
419490--419541	18	2.9	18	91	0	77	7	28	46	17	1.75
424590--424625	2	18.0	2	100	0	72	50	0	0	50	1.00
424762--424799	2	19.0	2	100	0	76	50	0	0	50	1.00
434181--434232	23	2.3	23	100	0	104	28	26	0	44	1.55
438958--438989	2	16.5	2	93	6	57	53	0	0	46	1.00
439446--439578	60	2.2	59	82	4	151	36	16	13	33	1.88
440405--440452	25	1.9	25	83	8	62	58	6	6	29	1.47
440441--440510	18	3.6	19	78	9	70	62	0	1	35	1.04
440445--440486	15	2.9	16	76	23	56	64	0	0	35	0.94
443422--443449	13	2.2	13	100	0	56	28	10	7	53	1.62
452301--452361	16	3.8	16	88	0	95	55	22	11	9	1.64
454621--454706	27	3.0	29	72	16	90	54	1	1	43	1.15
454621--454699	15	5.6	14	73	19	67	54	1	1	43	1.16
487891--487936	21	2.2	21	100	0	92	23	13	19	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488879--488906	2	14.0	2	100	0	56	50	0	0	50	1.00
489914--489952	6	6.2	6	88	11	60	51	0	0	48	1.00
489914--490045	20	6.6	20	70	18	80	41	4	0	53	1.27
489919--490029	6	16.8	6	81	14	78	39	4	0	54	1.27
489970--490142	2	86.0	2	66	18	74	42	6	3	47	1.47
489956--490045	43	2.1	43	87	4	128	38	5	1	54	1.31
490835--490873	16	2.5	16	87	4	53	41	23	15	20	1.90
493967--494045	29	2.7	29	88	2	113	31	16	10	41	1.81
496997--497125	59	2.2	59	78	8	136	39	6	24	29	1.81
499270--499297	2	14.0	2	100	0	56	50	0	0	50	1.00
499550--499646	3	32.3	3	100	0	194	0	32	0	67	0.91
503537--503568	2	16.0	2	100	0	64	50	0	0	50	1.00
506044--506070	14	1.9	14	100	0	54	59	0	0	40	0.98
516476--516503	14	2.0	14	100	0	56	50	7	0	42	1.30
517183--517236	19	2.8	19	71	0	63	55	1	1	40	1.21
517915--517967	21	2.5	20	79	8	61	47	7	5	39	1.56
517944--517979	18	2.1	18	89	5	56	44	11	0	44	1.39
517933--517993	21	3.0	21	76	13	65	47	8	3	40	1.49
518493--518630	21	6.7	21	69	6	59	34	25	18	21	1.96
518598--518966	20	18.5	20	85	4	458	34	26	18	20	1.96
519649--519695	24	2.0	24	87	8	69	25	14	21	38	1.92
519869--519893	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522170--522476	19	17.4	19	80	16	376	46	18	20	14	1.83
522198--522476	52	5.2	52	93	4	388	46	17	21	14	1.83
522237--522476	71	3.4	71	86	11	373	47	17	20	14	1.83
522170--522498	52	6.3	55	88	9	332	46	18	20	14	1.84
522170--522503	142	2.4	142	90	5	520	47	17	20	14	1.83
522504--522605	19	5.6	19	85	12	151	14	23	17	44	1.86
524705--524761	14	3.7	14	77	20	60	45	22	21	10	1.82
524686--524778	33	2.8	33	93	0	159	47	21	19	11	1.81
524649--524783	19	7.6	19	76	16	119	45	23	18	11	1.82
524779--524906	19	7.3	19	73	19	116	8	17	28	45	1.78
524779--524869	32	2.8	34	90	6	143	7	18	28	45	1.77
524950--525513	93	6.1	93	98	0	1098	46	18	12	21	1.83
524950--525513	276	2.0	279	98	1	1098	46	18	12	21	1.83
527217--527306	14	5.7	14	74	23	81	42	23	25	8	1.83
527209--527323	33	3.5	33	95	0	212	45	20	24	9	1.81
527216--527328	19	6.8	18	72	23	88	43	22	24	9	1.83
527340--527394	14	3.6	14	73	21	56	9	25	23	41	1.83
527324--527394	33	2.2	33	94	0	124	8	22	25	43	1.81
527335--527416	33	2.5	33	89	2	119	9	25	21	42	1.84
527514--527584	33	2.2	33	92	0	115	47	18	22	11	1.80
527766--527820	22	2.5	22	81	0	74	20	16	40	23	1.91
527966--528158	20	9.6	20	82	5	219	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527966--528158	60	3.2	60	83	0	251	19	19	25	35	1.95
528126--528220	42	2.3	42	76	7	95	25	21	20	33	1.97
528215--528266	20	2.6	20	96	0	95	21	13	26	38	1.90
529998--530032	18	1.9	18	88	0	52	22	20	28	28	1.98
531303--531390	35	2.3	37	88	11	126	28	21	7	42	1.81
539389--539433	21	2.1	21	87	0	63	31	28	24	15	1.96
540288--540441	31	5.0	31	93	1	256	22	20	20	37	1.95
543388--543432	21	2.1	21	87	0	63	31	28	24	15	1.96
544292--544445	31	5.0	31	93	1	256	22	20	20	37	1.95
555327--555369	2	21.5	2	100	0	86	48	0	0	51	1.00
559930--560058	60	2.1	60	78	1	132	35	17	15	31	1.91
562825--562871	18	2.6	19	90	10	80	59	10	6	23	1.53
564800--564948	60	2.5	59	78	7	142	42	5	19	32	1.74
565319--565362	18	2.5	18	85	10	56	27	2	0	70	0.99
574835--574902	11	6.4	11	75	13	61	60	1	1	36	1.15
574831--574889	16	3.6	17	76	17	54	62	1	0	35	1.05
574851--574895	20	2.3	19	85	11	63	62	2	2	33	1.20
574838--574899	31	2.0	31	90	0	97	61	1	1	35	1.16
574851--574908	22	2.8	20	85	12	66	63	1	1	32	1.14
575756--575953	39	5.1	39	93	1	317	30	13	27	28	1.94
580207--580234	2	14.0	2	100	0	56	50	0	0	50	1.00
589114--589152	16	2.4	16	86	0	51	46	5	2	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589127--589160	16	2.1	16	88	0	50	47	2	0	50	1.16
589757--589789	9	3.8	9	92	8	59	48	0	0	51	1.00
589757--589789	17	1.9	17	100	0	66	48	0	0	51	1.00
589756--589804	9	5.9	9	77	18	52	55	0	0	44	0.99
589776--589810	15	2.4	15	90	4	54	65	0	0	34	0.93
593176--593216	20	1.9	21	85	14	57	7	12	31	48	1.68
593350--593421	26	2.6	28	80	14	69	44	29	13	12	1.81
593992--594182	97	2.0	93	95	4	346	39	12	15	32	1.84
594288--594358	31	2.3	31	92	0	115	35	14	15	35	1.88
597228--597265	2	19.5	2	94	5	69	52	0	0	47	1.00

Tables:   1   2   3   4   5