genome.fa.s7823.2.7.7.80.10.50.1000.3.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  3  of  33  ( 3920 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)
380569--380613	18	2.5	18	96	0	81	44	15	6	33	1.73
383220--383262	21	2.0	22	81	4	52	51	2	9	37	1.47
384899--384942	20	2.2	20	88	4	63	13	31	34	20	1.92
396009--396049	21	2.0	21	85	0	55	24	9	4	60	1.47
396092--396126	14	2.6	13	91	8	61	22	0	2	74	0.95
404378--404616	67	3.6	66	89	2	354	29	19	12	38	1.88
404567--404799	36	6.5	36	91	1	351	26	23	12	37	1.91
404603--404670	21	3.5	21	62	22	58	25	23	13	38	1.91
404678--404740	17	3.3	21	62	25	57	25	23	7	42	1.81
406386--406425	21	1.9	21	84	0	53	20	10	5	65	1.42
406469--406503	14	2.6	13	91	8	61	22	0	2	74	0.95
411957--412030	2	38.0	2	75	10	55	47	1	1	50	1.18
412290--412337	23	2.1	23	96	0	87	39	45	4	10	1.58
416333--416377	14	3.2	13	81	12	54	46	0	2	51	1.13
416349--416396	7	6.7	7	85	4	69	47	0	0	52	1.00
416316--416396	21	3.9	21	75	13	69	45	0	2	51	1.14
416338--416396	14	4.1	14	82	8	66	45	0	1	52	1.10
416362--416411	22	2.3	22	86	6	66	52	0	0	48	1.00
416361--416412	21	2.5	22	76	17	56	51	0	0	48	1.00
428169--428254	23	3.7	23	84	3	102	17	25	24	32	1.97
430918--430960	17	2.6	16	78	7	50	34	0	25	39	1.56
431830--431872	22	2.0	22	85	0	59	27	27	27	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433276--433361	23	3.7	23	84	3	102	17	25	24	32	1.97
436932--436974	22	2.0	22	86	9	61	27	25	30	16	1.97
438395--438508	23	5.0	23	91	0	156	18	27	25	28	1.98
443498--443595	24	4.0	25	69	19	64	70	3	5	21	1.21
444035--444069	2	18.0	2	88	5	54	54	0	0	45	0.99
444061--444099	11	3.5	11	86	6	51	66	5	5	23	1.32
444173--444217	12	3.7	12	81	3	54	66	0	4	28	1.11
444780--444884	37	2.8	37	86	0	147	31	13	14	40	1.84
445615--446693	106	10.3	106	89	2	1595	22	18	24	34	1.96
445605--447068	318	4.7	318	85	6	1930	22	18	24	34	1.96
446634--446775	43	3.4	43	65	20	122	18	20	26	35	1.95
446609--446773	80	2.1	78	94	2	285	18	20	26	35	1.95
446691--447068	106	3.6	107	88	3	550	23	17	24	34	1.96
447893--447962	22	3.2	22	91	4	115	24	14	25	35	1.93
448585--448635	13	3.6	14	82	12	68	1	11	7	78	1.04
453201--453251	25	2.2	23	82	10	59	78	0	3	17	0.90
453558--453584	2	13.5	2	100	0	54	51	0	0	48	1.00
453606--453670	33	2.0	31	85	11	87	69	1	1	27	1.07
453801--453841	11	3.6	11	87	6	55	65	4	4	24	1.32
453923--453967	12	3.7	12	81	3	54	66	0	4	28	1.11
453924--453974	24	2.1	24	92	0	84	68	0	3	27	1.07
454519--454619	37	2.7	37	85	0	130	33	13	9	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455081--455107	13	2.1	13	100	0	54	22	29	25	22	1.99
458647--458691	21	2.2	20	88	4	63	26	8	15	48	1.74
458898--459015	13	8.6	14	67	17	70	44	0	0	55	1.05
458909--459009	27	3.8	27	71	17	77	42	0	0	57	0.98
458918--458952	19	1.9	19	88	11	56	37	0	0	62	0.95
458922--458992	9	8.0	9	71	16	51	38	0	0	61	0.96
458913--459014	41	2.5	40	83	10	118	44	0	0	55	0.99
458897--459015	53	2.2	55	80	14	131	44	0	0	54	1.05
461888--461928	22	1.9	21	90	5	64	12	4	24	58	1.53
466819--466861	17	2.5	17	88	0	68	4	11	20	62	1.46
468119--468156	18	2.1	19	95	5	69	0	23	21	55	1.44
468119--468166	18	2.7	18	87	6	53	0	22	22	54	1.45
469712--469792	23	3.7	22	76	12	78	19	24	30	24	1.98
475910--475949	21	1.9	21	85	10	55	35	10	2	52	1.48
477893--477929	18	2.1	18	100	0	74	24	16	21	37	1.93
477894--478104	65	3.3	63	76	10	194	26	18	23	31	1.97
478503--478556	23	2.3	23	93	6	92	38	7	3	50	1.48
479397--479448	22	2.4	22	93	0	95	32	19	9	38	1.84
487177--487214	15	2.6	15	87	4	51	76	0	0	23	0.79
487227--487256	2	15.0	2	100	0	60	50	0	0	50	1.00
487432--487551	38	3.4	35	78	13	113	44	5	3	47	1.41
487524--487585	26	2.5	26	86	5	92	46	9	1	41	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488251--489062	165	4.9	164	88	1	1160	25	19	24	30	1.98
494295--494570	5	51.2	5	69	21	84	72	2	6	18	1.20
494340--494454	39	2.9	38	77	12	117	74	1	7	15	1.12
494375--494415	12	3.5	12	81	15	50	73	2	9	14	1.19
495792--495833	22	1.9	22	90	0	66	73	2	7	16	1.15
495854--496293	38	11.8	37	80	9	301	44	7	3	45	1.47
499337--499366	13	2.4	13	94	5	53	16	16	0	66	1.25
499549--499589	6	6.7	6	84	15	57	80	2	17	0	0.82
503763--503795	16	2.1	16	88	11	50	15	21	0	63	1.30
503785--503836	12	4.1	13	76	11	54	21	13	0	65	1.26
512675--512740	2	33.0	2	100	0	132	50	0	0	50	1.00
513880--514004	31	4.0	31	91	2	198	39	22	18	20	1.93
514659--514882	64	3.5	64	83	3	247	26	18	20	33	1.96
518059--518199	31	4.5	31	98	0	264	39	21	19	19	1.92
518853--519076	64	3.5	64	83	3	247	27	19	20	33	1.96
520890--520941	21	2.4	21	80	3	59	34	19	15	30	1.93
522081--522112	16	2.1	16	94	5	57	31	0	0	68	0.90
522642--522687	20	2.4	19	85	3	56	32	34	15	17	1.91
522824--522871	19	2.6	19	83	9	55	25	27	20	27	1.99
530271--530318	21	2.3	21	85	3	62	10	39	16	33	1.83
549004--549053	20	2.5	20	80	9	57	38	10	4	48	1.56
549004--549053	19	2.5	20	80	9	57	38	10	4	48	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550642--550700	19	3.1	18	75	20	57	50	3	0	45	1.18
550846--551022	88	2.0	88	91	2	284	24	31	22	22	1.98
553260--553352	43	2.3	40	76	21	95	53	2	1	43	1.19
553298--553352	18	2.7	21	70	18	62	52	0	0	47	1.00
553430--553471	21	2.0	21	90	0	66	35	21	26	16	1.94
553431--553486	21	2.7	21	83	8	62	39	19	23	17	1.92
558369--558407	12	3.3	12	89	3	53	69	0	2	28	1.02
558368--558401	16	2.2	16	84	5	52	70	0	2	26	1.01
558443--558507	26	2.5	26	82	7	78	43	10	3	43	1.55
558468--558798	37	9.0	38	79	12	354	43	7	3	45	1.49
558594--558643	2	25.5	2	95	4	93	48	0	0	52	1.00
558489--558752	142	1.8	144	92	2	451	43	6	3	45	1.48
558521--558713	106	1.9	102	91	6	316	44	5	3	47	1.43
558468--558837	76	5.0	76	77	12	211	43	8	3	44	1.52
562206--562250	20	2.3	20	80	3	56	44	4	4	46	1.43
566137--566185	19	2.6	19	93	0	80	22	6	28	42	1.77
568889--568925	15	2.5	15	95	0	65	8	70	16	5	1.30
570769--570795	2	13.5	2	100	0	54	51	0	0	48	1.00
592233--592270	19	2.0	19	89	0	58	57	0	34	7	1.28
595926--595963	16	2.4	16	95	0	67	39	13	15	31	1.86
599712--599868	21	7.8	20	72	9	86	38	25	17	19	1.93
599835--600084	20	12.5	20	81	6	229	37	24	17	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603309--603404	19	5.4	19	82	17	134	14	21	17	45	1.84
603290--603404	50	2.2	52	95	4	207	13	23	18	44	1.85
603462--603648	19	10.6	19	78	16	215	44	17	22	14	1.86
603462--603642	52	3.5	52	90	5	251	45	17	22	14	1.85
603513--603642	33	3.8	33	87	9	197	46	17	21	14	1.84
603494--603648	71	2.2	71	97	0	292	45	17	21	15	1.85
603655--603754	19	5.5	19	84	12	147	15	23	17	45	1.85
603638--603754	53	2.2	53	95	1	209	14	24	17	43	1.86
605020--605084	22	3.0	22	70	4	69	20	18	38	23	1.93
605020--605087	21	3.2	21	70	2	64	19	19	36	25	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33