genome.fa.s8639.2.7.7.80.10.50.1000.3.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: VEPZ01008639.1 Hibiscus syriacus cultivar Beakdansim tig00111614_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1076872

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 690 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)
345772--345816	2	23.0	2	95	4	83	51	0	0	48	1.00
346333--346367	1	35.0	1	100	0	70	100	0	0	0	0.00
355472--355504	17	2.0	17	88	5	50	21	3	42	33	1.68
356314--356350	6	6.3	6	96	3	67	35	0	51	13	1.41
365833--365887	14	3.6	15	75	25	53	25	5	1	67	1.22
379281--379349	23	3.0	23	84	0	93	26	24	27	21	1.99
379791--379846	25	2.2	25	90	0	85	37	26	8	26	1.86
383604--383667	23	2.8	23	82	0	83	28	25	26	20	1.99
384610--384655	20	2.3	20	96	0	83	21	28	0	50	1.49
389848--389881	17	2.0	17	100	0	68	29	29	0	41	1.57
405004--405042	13	2.9	14	85	14	55	46	2	0	51	1.14
407845--407890	24	1.9	24	95	0	83	36	4	36	21	1.74
407844--407896	24	2.2	24	86	0	79	35	3	41	18	1.69
412981--413028	24	2.0	24	91	0	78	37	0	41	20	1.53
413594--413644	2	25.5	2	100	0	102	49	0	0	50	1.00
413825--413850	3	8.7	3	100	0	52	30	0	0	69	0.89
416730--416805	39	2.0	39	94	5	138	27	26	7	38	1.84
417141--417186	3	15.3	3	100	0	92	0	34	0	65	0.93
418298--418376	35	2.3	35	100	0	158	41	8	12	36	1.74
419961--420565	216	2.8	215	87	5	796	30	16	26	26	1.96
420611--420676	9	7.6	9	76	17	59	39	3	0	57	1.14
420609--420672	28	2.3	27	81	7	74	37	3	0	59	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420627--420662	3	11.7	3	88	5	54	36	0	0	63	0.94
422212--422512	145	2.1	145	82	9	355	40	7	5	46	1.55
422262--422558	145	2.0	145	82	8	354	40	7	6	45	1.58
423013--423050	19	2.1	18	85	9	51	34	5	0	60	1.19
433750--433825	15	5.3	15	82	17	92	77	0	11	10	0.99
433759--433825	27	2.5	25	79	15	71	77	0	11	10	0.99
433750--433810	32	1.9	32	90	6	97	78	0	11	9	0.96
433750--433804	15	3.4	16	92	7	94	78	0	10	10	0.98
434182--434219	18	2.1	18	95	0	67	31	7	5	55	1.51
436794--437067	137	2.0	136	80	6	313	41	16	15	26	1.88
437722--437837	57	2.0	57	83	3	144	25	14	24	36	1.93
438365--438570	103	2.0	103	99	0	403	30	15	31	22	1.95
438629--438738	57	1.9	57	86	0	157	23	16	21	38	1.93
438083--438836	382	2.0	380	86	2	1055	30	15	26	27	1.96
441828--441891	32	2.0	32	93	0	110	40	18	7	32	1.80
441993--442045	22	2.4	22	93	0	88	28	26	13	32	1.93
447212--447287	37	2.1	37	87	0	107	35	15	11	36	1.85
451154--451193	21	1.9	21	89	0	62	32	22	27	17	1.96
454568--454618	17	3.1	17	80	2	50	74	3	3	17	1.12
456529--456570	3	13.7	3	90	5	66	69	0	0	30	0.89
457462--457530	36	1.9	36	96	0	129	34	2	23	39	1.70
458609--458672	32	2.0	32	93	0	110	40	6	25	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460727--460770	13	3.4	13	96	0	79	72	0	15	11	1.11
461628--461664	13	2.6	15	83	12	51	62	0	16	21	1.33
468571--468608	20	1.9	20	88	0	58	26	34	26	13	1.93
471554--471591	14	3.1	12	82	17	51	57	7	26	7	1.54
471561--471601	14	2.9	14	92	0	64	58	9	24	7	1.55
476841--476883	19	2.3	19	100	0	86	32	9	13	44	1.76
477191--477251	28	2.2	28	100	0	122	42	6	9	40	1.64
480587--480711	31	4.0	31	91	2	189	37	21	19	21	1.94
487780--487804	6	4.2	6	100	0	50	52	32	16	0	1.44
490181--490235	27	2.0	27	96	0	101	38	10	10	40	1.76
491388--491497	56	2.0	56	98	0	211	54	13	11	20	1.70
495421--495459	13	2.9	14	88	7	55	20	0	35	43	1.52
495582--495691	51	2.2	51	81	0	121	26	2	34	36	1.71
498645--498694	22	2.3	22	100	0	100	34	0	32	34	1.58
499634--499670	18	2.1	18	94	0	65	59	13	0	27	1.35
500096--500162	21	3.2	21	78	0	71	23	22	29	23	1.99
501987--502043	23	2.4	24	77	8	64	50	1	0	47	1.11
501980--502073	36	2.6	36	77	14	86	54	2	1	42	1.19
502798--502822	6	4.2	6	100	0	50	20	16	64	0	1.30
502886--502935	13	4.0	13	92	2	77	18	48	22	12	1.80
502886--502935	25	2.0	25	88	7	75	18	48	22	12	1.80
505590--505647	29	2.0	29	96	0	107	20	5	12	62	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506872--506909	20	1.9	20	94	0	67	13	2	10	73	1.19
509712--509800	38	2.4	37	88	7	144	37	39	11	12	1.79
509969--510045	33	2.3	32	93	4	127	40	38	10	10	1.74
514293--514563	43	6.3	44	73	11	197	51	5	17	25	1.66
514293--514563	86	3.2	86	76	7	241	51	5	17	25	1.66
514288--514563	128	2.1	127	80	5	304	51	5	17	25	1.67
517061--517105	21	2.1	21	87	0	63	31	28	24	15	1.96
517618--517664	23	2.0	24	91	4	78	44	0	21	34	1.52
517841--517984	31	4.6	31	92	0	234	21	20	20	37	1.94
520952--520980	12	2.3	13	94	5	51	55	6	13	24	1.63
520914--520987	37	2.1	35	82	5	85	66	4	9	20	1.37
523514--523588	29	2.7	29	79	8	84	62	2	0	34	1.09
523640--523691	26	2.0	26	84	0	68	55	5	9	28	1.55
527025--527055	16	1.9	16	93	0	53	74	3	12	9	1.19
528763--528787	9	2.8	9	100	0	50	20	8	12	60	1.57
529221--529260	21	2.0	21	85	5	55	55	0	5	40	1.22
537808--537846	2	20.0	2	94	5	71	48	0	0	51	1.00
537859--537925	27	2.5	26	85	7	89	44	1	2	50	1.26
537829--538096	64	4.1	63	80	11	209	49	1	2	45	1.26
537899--538288	36	10.9	36	77	10	338	48	3	4	44	1.37
537948--538004	11	5.0	11	74	16	53	47	0	1	50	1.11
537833--538167	135	2.5	135	83	8	430	50	2	2	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537994--538057	28	2.4	27	84	10	78	51	3	3	42	1.33
538032--538288	73	3.5	73	81	8	283	47	3	4	43	1.42
538024--538295	37	7.3	40	77	15	166	48	4	4	42	1.43
538259--538352	30	3.3	28	80	12	111	47	4	4	43	1.42
538260--538353	29	3.2	29	84	3	118	46	4	4	44	1.42
538338--538382	23	1.9	24	86	4	65	48	0	6	44	1.29
538413--538455	12	3.1	14	81	15	54	18	0	0	81	0.69
538413--538455	20	2.1	21	95	4	79	18	0	0	81	0.69
539390--539463	4	17.8	4	75	18	62	21	2	1	74	1.02
539390--539451	22	2.7	22	82	12	63	20	3	1	74	1.05
539390--539472	18	4.8	18	72	22	63	21	2	1	74	1.00
539390--539454	25	2.6	25	87	7	87	20	3	1	75	1.02
539390--539470	28	3.0	28	80	8	80	22	2	1	74	1.01
539394--539554	50	3.2	48	77	18	143	18	6	1	73	1.12
539519--539567	16	3.1	16	83	13	66	8	8	0	83	0.81
539516--539561	23	2.1	23	88	8	69	10	6	0	82	0.83
539446--539576	15	8.8	14	69	12	64	15	9	0	74	1.10
540355--540392	18	2.1	18	95	0	67	31	0	18	50	1.47
540593--540653	29	2.1	29	85	11	81	39	1	3	55	1.26
540918--540974	20	2.9	19	92	2	78	35	17	28	19	1.94
540925--540974	20	2.5	20	96	0	91	34	16	28	22	1.95
541367--541419	22	2.4	23	81	9	58	37	3	1	56	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542469--542500	2	16.0	2	100	0	64	50	0	0	50	1.00
542534--542734	102	2.0	102	85	2	269	38	10	5	45	1.63
551803--551853	23	2.2	23	89	0	75	29	15	11	43	1.82
551823--551970	70	2.1	70	91	0	233	27	14	16	41	1.87
557969--557995	10	2.7	10	100	0	54	7	11	18	62	1.50
560058--560267	74	2.8	73	89	1	330	44	19	16	19	1.87
560823--560852	2	15.0	2	100	0	60	50	0	0	50	1.00
561037--561082	5	9.4	5	86	13	69	63	0	2	34	1.07
563415--563464	18	2.8	16	80	19	55	22	2	0	76	0.89
563415--563467	26	2.1	25	89	10	81	22	1	0	75	0.90

Tables:   1   2   3   4   5   6