genome.fa.s9001.2.7.7.80.10.50.1000.2.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  2  of  24  ( 2777 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)
281539--281639	51	2.0	51	98	0	193	34	12	21	30	1.91
283397--283470	14	5.0	14	87	11	103	50	12	21	16	1.77
283397--283470	31	2.5	30	93	6	125	50	12	21	16	1.77
290746--290855	58	1.9	56	90	3	175	26	12	20	40	1.89
291165--291226	17	3.6	17	82	4	79	48	1	6	43	1.38
291166--291229	19	3.4	19	82	8	60	48	1	6	43	1.37
291206--291284	40	2.0	40	83	9	101	46	3	8	40	1.53
291285--291346	25	2.3	28	78	16	76	46	3	6	43	1.45
291345--291437	9	10.0	9	76	18	59	34	3	2	60	1.25
291343--291432	32	2.8	31	82	12	119	35	3	2	58	1.27
291903--291994	41	2.2	41	98	0	175	52	16	18	13	1.75
291918--291983	19	3.3	19	66	25	55	54	16	18	10	1.70
293487--293552	27	2.4	27	100	0	132	51	6	9	33	1.58
299490--299538	19	2.6	19	93	0	80	42	22	6	28	1.77
300198--300235	18	2.1	18	90	0	58	34	7	5	52	1.53
308184--308229	15	3.0	15	84	6	56	45	4	8	41	1.55
308339--308376	18	2.1	18	95	0	67	39	5	0	55	1.23
316100--316224	31	4.0	31	92	2	198	36	23	20	20	1.95
317154--317198	21	2.1	21	87	0	63	15	24	28	31	1.96
320348--320472	31	4.0	31	92	2	198	36	23	20	20	1.95
321398--321442	21	2.1	21	87	0	63	15	24	28	31	1.96
325418--325457	2	20.0	2	94	0	71	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333017--333044	13	2.2	13	100	0	56	21	39	7	32	1.80
340095--340158	2	32.0	2	93	0	74	40	0	9	50	1.35
340588--340650	22	2.9	22	92	4	101	25	22	26	25	2.00
341378--341420	21	2.0	21	90	0	68	30	20	25	23	1.99
345788--345835	19	2.5	19	96	0	87	29	35	16	18	1.93
346593--346655	22	2.9	22	88	4	83	28	20	25	25	1.99
347434--347473	12	3.3	12	89	0	53	20	22	17	40	1.92
353377--353427	15	3.5	14	78	7	57	49	0	1	49	1.12
353478--353619	75	1.9	75	94	0	248	14	16	35	33	1.89
357835--357865	12	2.6	12	94	0	53	29	0	32	38	1.57
358392--358456	31	2.1	32	85	2	87	29	23	7	40	1.82
360382--360537	64	2.5	63	78	11	167	34	20	17	26	1.95
367186--367242	21	2.7	21	100	0	114	28	19	21	31	1.97
367276--367432	64	2.5	64	78	10	169	35	19	18	27	1.95
370330--371404	246	4.4	242	86	5	1431	32	16	16	34	1.91
370330--371403	484	2.2	487	88	2	1592	32	16	16	34	1.91
371732--371986	135	1.9	135	85	0	348	33	21	14	30	1.93
372311--372344	3	11.3	3	100	0	68	32	0	0	67	0.91
372311--372382	6	13.0	5	89	7	56	25	1	2	70	1.08
374603--374944	131	2.6	131	88	2	526	33	10	16	39	1.83
377435--377479	13	3.4	13	80	17	56	44	8	0	46	1.34
377521--377563	20	2.1	20	83	12	52	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377574--377621	24	2.0	25	84	15	66	54	4	0	41	1.20
378076--378152	8	9.5	8	74	13	59	44	14	2	38	1.59
378192--378336	32	4.4	32	76	11	118	40	4	9	45	1.56
378365--378430	17	3.5	17	69	21	51	46	3	4	45	1.38
378359--378425	23	3.2	23	68	24	74	47	2	5	43	1.43
378448--378525	2	40.0	2	75	19	58	48	6	1	43	1.36
378452--378525	27	2.8	26	76	13	78	48	6	1	43	1.38
378449--378524	12	5.9	13	72	18	70	48	6	1	43	1.37
383969--384039	24	3.0	23	76	12	72	33	26	12	26	1.92
389414--389463	22	2.3	22	85	0	73	46	2	6	46	1.39
389436--389489	29	2.0	26	89	10	81	42	0	7	50	1.30
389497--389585	5	18.4	5	74	19	82	39	1	0	59	1.05
390673--390727	19	2.9	19	70	20	51	25	9	0	65	1.22
391686--391717	2	16.0	2	100	0	64	50	0	0	50	1.00
393567--393598	12	2.7	12	100	0	64	56	0	0	43	0.99
395105--395181	24	3.2	24	96	0	145	36	22	29	11	1.89
396268--396323	16	3.4	16	78	9	60	76	3	5	14	1.09
396278--396353	40	2.1	35	81	18	86	78	1	6	13	0.99
396279--396331	16	3.3	15	77	12	61	81	1	3	13	0.92
396266--396330	27	2.4	27	77	10	69	76	3	4	15	1.07
396279--396353	38	1.9	39	89	7	118	80	1	5	13	0.95
396501--396590	22	3.9	23	75	10	67	68	2	2	26	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396524--396567	3	14.3	3	81	13	54	68	0	2	29	1.02
396493--396574	25	3.4	24	75	9	78	69	1	1	28	1.03
396527--396590	25	2.4	28	80	15	73	68	1	3	26	1.13
398355--398546	34	5.8	34	81	8	200	29	10	16	43	1.81
398566--398636	21	3.6	21	67	23	64	39	14	19	26	1.90
398555--398977	36	12.1	36	72	16	318	41	13	17	27	1.86
398533--398977	174	2.5	172	87	3	588	42	13	17	27	1.86
398898--398968	34	2.0	36	91	5	119	40	12	18	28	1.87
400355--400552	95	2.1	95	93	0	333	31	18	16	32	1.94
404611--404671	23	2.5	24	82	10	70	75	4	1	18	1.06
404658--404699	3	14.0	3	100	0	84	66	0	0	33	0.92
404873--404920	10	4.6	10	77	10	51	66	4	0	29	1.10
404876--404921	18	2.6	18	78	0	56	67	4	0	28	1.10
404956--404998	19	2.2	20	83	8	52	76	0	4	18	0.95
419356--419425	30	2.3	29	77	17	72	57	15	0	27	1.39
419354--419431	32	2.5	31	84	10	90	56	15	0	28	1.40
419389--419436	6	8.0	6	85	0	51	56	16	0	27	1.41
420707--420731	3	8.3	3	100	0	50	64	0	0	36	0.94
425686--425741	18	3.1	18	72	12	51	55	12	0	32	1.37
425686--425734	12	4.1	13	75	17	52	57	14	0	28	1.38
426632--426817	76	2.5	75	87	1	255	23	29	23	23	1.99
432599--432671	21	3.4	22	79	9	78	20	39	21	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435210--435418	76	2.8	76	85	2	260	23	30	23	22	1.99
439356--439398	12	3.5	12	77	3	50	58	16	0	25	1.38
440680--440706	14	1.9	14	100	0	54	62	0	0	37	0.95
441914--441975	31	2.1	29	82	11	72	51	3	6	38	1.44
442973--443303	3	112.7	3	72	10	202	58	1	38	1	1.18
442931--442977	23	2.0	23	100	0	94	48	17	17	17	1.81
444014--444092	3	25.7	3	78	10	79	37	2	0	59	1.11
444017--444086	19	3.8	19	79	5	81	38	2	0	58	1.13
446098--446149	7	6.9	7	79	16	59	26	0	0	73	0.84
446096--446151	16	3.2	16	79	20	60	25	0	0	75	0.81
446102--446154	13	4.1	14	85	9	69	26	0	0	73	0.83
446094--446154	20	3.2	20	76	21	67	26	0	0	73	0.83
446094--446149	23	2.5	23	80	13	80	26	0	0	73	0.84
450341--450475	72	1.9	72	93	0	234	25	20	20	34	1.97
452582--452898	114	2.8	114	90	1	467	32	13	19	34	1.91
455030--455109	40	2.0	40	95	0	142	33	16	21	28	1.95
455497--455551	22	2.5	22	82	5	67	32	12	16	38	1.86
455968--457248	113	11.4	113	97	0	2313	37	12	20	29	1.90
456565--456609	24	1.9	23	82	13	56	53	6	24	15	1.66
457160--457321	73	2.2	73	92	2	263	32	13	18	35	1.90
455951--457248	677	1.9	675	94	2	1910	37	12	20	29	1.90
457611--457707	3	31.7	3	82	8	115	37	2	0	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464193--464865	225	3.0	225	87	3	905	47	9	12	30	1.73
466612--466641	11	2.7	11	89	0	51	46	0	3	50	1.18
466989--467076	2	44.0	2	100	0	176	50	0	0	50	1.00
469149--469230	23	3.7	22	80	7	78	20	25	28	25	1.99
469149--469218	22	3.1	22	81	4	86	20	24	31	24	1.98
473011--473050	21	1.9	21	85	10	55	35	7	2	55	1.42
475106--475135	11	2.7	11	100	0	60	50	0	0	50	1.00
475483--475539	2	29.0	2	96	3	107	49	0	0	50	1.00
476634--476663	11	2.7	11	89	0	51	46	0	3	50	1.18
478249--478279	15	2.1	15	93	0	53	54	12	12	19	1.70

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