genome.fa.s1279.2.7.7.80.10.50.1000.2.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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   

This is table  2  of  29  ( 3433 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)
230664--230688	12	2.1	12	100	0	50	36	24	16	24	1.94
234362--234574	104	2.0	105	96	0	392	43	5	11	38	1.65
234710--234768	32	1.9	31	89	6	93	42	0	10	47	1.37
234897--234933	14	2.6	15	83	8	51	62	0	0	37	0.96
241032--241073	21	2.0	21	86	9	59	40	9	7	42	1.65
248133--248165	16	2.1	16	100	0	66	57	24	12	6	1.57
248231--248305	10	7.7	10	69	21	61	57	21	12	9	1.62
248235--248299	16	4.1	16	95	0	121	56	23	12	7	1.61
249052--249107	14	4.3	14	76	17	57	55	23	10	10	1.65
249032--249120	24	3.7	24	77	5	99	56	19	11	13	1.67
252029--252073	23	2.0	23	81	0	54	42	4	0	53	1.21
252402--252539	74	1.9	73	84	4	188	30	5	9	55	1.54
252624--252657	13	2.6	13	90	0	50	11	11	0	76	1.02
253226--253262	19	2.0	19	85	15	51	21	13	0	64	1.27
258079--258210	65	2.0	65	81	8	153	35	12	18	32	1.89
258474--258580	37	2.9	38	80	6	112	36	8	20	34	1.83
258633--258699	34	2.0	34	85	5	91	49	8	13	28	1.72
260825--261075	108	2.3	108	87	0	358	39	16	10	34	1.83
260825--261168	108	3.2	108	82	2	316	39	17	10	32	1.84
260824--261168	36	9.6	36	74	0	269	39	17	10	32	1.84
262018--262236	19	11.3	19	70	8	136	37	17	14	30	1.90
262016--262120	39	2.7	40	85	5	144	36	20	12	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
262016--262235	20	11.2	20	71	5	130	38	17	14	30	1.89
262032--262140	57	1.9	58	86	1	157	36	21	11	30	1.89
263923--263954	15	2.1	15	94	0	55	18	25	0	56	1.42
265392--265441	25	2.0	25	100	0	100	40	8	8	44	1.63
269812--270023	55	3.9	55	92	0	309	34	18	12	33	1.89
271450--271532	40	2.1	40	95	0	148	20	18	15	45	1.85
273467--273493	2	13.5	2	100	0	54	48	0	0	51	1.00
275233--275320	45	1.9	46	84	6	117	23	20	14	40	1.90
275308--275421	49	2.3	49	84	1	149	30	23	14	30	1.95
275655--276467	55	14.9	55	87	2	1097	34	18	11	35	1.86
289735--289787	27	1.9	28	88	3	81	58	1	22	16	1.48
290504--290549	19	2.4	20	79	17	53	45	8	6	39	1.61
290508--290544	16	2.1	19	85	14	53	45	10	5	37	1.62
294023--294061	20	2.0	20	84	0	51	66	5	5	23	1.32
294934--294960	6	4.5	6	100	0	54	85	0	0	14	0.61
296344--296384	21	1.9	21	85	5	55	39	17	14	29	1.89
298517--298558	15	2.7	15	83	16	59	71	2	0	26	0.98
325331--325378	13	3.5	13	83	13	53	72	2	2	22	1.05
325345--325378	15	2.2	15	89	5	50	76	0	0	23	0.79
325331--325381	26	2.0	26	84	7	68	72	1	1	23	1.05
325344--325381	16	2.4	17	82	13	53	76	0	0	23	0.79
342230--342307	29	2.7	28	73	23	72	58	0	12	28	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344294--344344	22	2.3	22	93	3	84	31	13	21	33	1.92
345382--345445	32	2.0	32	84	0	83	15	14	31	39	1.87
345477--345545	32	2.2	30	84	5	84	13	11	24	50	1.74
346923--347118	79	2.4	82	80	8	224	45	6	4	43	1.49
348490--348630	57	2.5	57	85	5	169	36	8	12	41	1.74
354004--354078	32	2.3	32	95	0	132	29	9	20	41	1.83
354145--354170	6	4.3	6	100	0	52	53	0	46	0	1.00
354660--354892	40	5.8	41	78	11	234	41	23	14	21	1.89
354682--354871	20	9.6	20	74	17	155	42	23	14	19	1.88
354682--354871	60	3.2	60	78	14	239	42	23	14	19	1.88
354859--354918	19	3.1	19	90	4	84	36	20	11	31	1.88
354682--354907	60	3.8	60	75	18	213	41	23	14	21	1.89
355107--355144	16	2.5	15	84	12	51	28	5	0	65	1.14
355894--355940	24	2.0	24	95	0	85	27	21	17	34	1.95
358195--358241	6	7.8	6	90	0	76	61	19	2	17	1.44
358567--358622	20	2.8	20	91	0	85	19	19	23	37	1.94
358639--358691	20	2.6	20	84	3	70	26	16	16	39	1.91
358788--358960	65	2.6	65	87	10	235	52	17	2	26	1.59
360119--360165	22	2.1	22	84	0	58	29	17	31	21	1.96
360283--360476	20	9.6	20	75	6	142	22	14	21	41	1.89
360290--360438	81	1.8	81	82	0	190	23	14	20	41	1.89
360452--360513	20	3.0	20	71	2	61	29	17	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360462--360575	19	5.8	19	74	10	95	24	14	26	34	1.94
367574--367665	17	5.3	17	75	10	87	35	16	10	36	1.84
367575--367675	35	2.9	33	80	11	105	37	14	9	37	1.80
367574--367677	17	6.0	17	73	14	70	37	15	9	37	1.80
368090--368137	20	2.4	20	96	0	87	20	20	20	37	1.95
369363--369424	30	2.0	32	81	12	76	14	16	3	66	1.38
369462--369553	47	2.0	46	84	2	121	26	19	7	46	1.76
369578--369991	68	6.1	68	85	0	513	30	23	14	31	1.95
370262--370777	59	8.8	59	87	1	678	37	19	9	32	1.84
371206--371274	22	3.2	21	87	4	77	30	20	14	34	1.92
371221--371274	22	2.5	22	93	0	90	33	20	14	31	1.93
371225--371281	22	2.6	22	91	0	87	33	22	15	28	1.95
371123--371374	116	2.2	113	81	9	296	24	24	15	35	1.94
371343--371396	20	2.7	20	80	11	65	27	22	18	31	1.97
375354--375872	203	2.5	204	87	2	722	30	24	14	30	1.95
375354--375875	137	3.8	135	87	1	729	30	24	14	30	1.95
375354--375875	68	7.7	68	86	0	704	30	24	14	30	1.95
376025--376421	59	6.8	59	87	1	523	37	20	10	31	1.87
377752--377785	15	2.3	15	100	0	68	11	5	0	82	0.83
377759--377829	32	2.3	31	79	15	83	15	4	5	74	1.16
389424--389622	110	1.8	110	83	2	265	37	22	17	22	1.94
390384--390410	13	2.1	13	100	0	54	62	14	14	7	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391071--391160	44	2.1	41	78	17	96	32	6	0	61	1.22
391130--391167	16	2.3	17	86	4	51	39	5	0	55	1.23
391206--391238	16	2.1	16	94	0	57	12	9	0	78	0.95
391213--391287	35	2.2	32	79	9	87	16	5	5	73	1.20
391234--391308	32	2.4	31	78	20	77	20	2	6	70	1.22
403982--404086	35	3.0	34	71	12	95	43	2	2	50	1.31
416218--416242	12	2.1	12	100	0	50	28	24	24	24	2.00
422470--422530	26	2.2	28	77	13	65	60	18	4	16	1.52
426346--426421	26	2.9	26	98	0	143	21	15	28	34	1.94
427807--427840	15	2.3	15	100	0	68	35	8	0	55	1.31
433275--433348	21	3.5	22	80	10	82	18	27	31	22	1.98
433290--433350	20	2.9	21	87	7	79	18	26	34	21	1.96
465500--465552	23	2.3	23	81	12	63	49	5	9	35	1.59
475245--475316	16	4.6	16	84	8	85	1	13	0	84	0.68
475250--475321	24	3.1	24	80	6	85	0	15	0	84	0.62
475251--475321	31	2.3	31	87	4	108	0	15	0	84	0.62
475250--475321	7	10.4	7	79	5	67	0	15	0	84	0.62
475256--475321	10	6.6	10	78	13	64	0	15	0	84	0.61
476391--476424	17	2.0	17	88	0	50	47	17	8	26	1.77
478912--478939	2	14.0	2	100	0	56	50	0	0	50	1.00
478937--479242	149	2.0	146	78	12	318	49	7	6	37	1.57
479807--479837	8	3.9	8	91	0	53	16	0	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480686--480758	36	2.0	36	89	0	110	41	17	9	31	1.82
481210--481293	43	1.9	44	85	2	116	32	11	23	32	1.91
488291--488510	73	3.0	73	91	1	352	32	18	13	35	1.89
488294--488493	36	5.5	36	73	3	186	31	18	13	37	1.89
488335--488510	37	4.8	38	70	18	140	31	18	14	35	1.91
488532--488861	119	2.7	121	90	3	475	38	15	21	25	1.92
488774--489125	137	2.6	137	84	4	442	37	15	20	26	1.93
491221--491269	3	16.3	3	100	0	98	32	0	0	67	0.91
491616--491658	2	21.5	2	100	0	86	48	0	0	51	1.00
492464--492508	20	2.3	19	85	11	63	35	8	11	44	1.71

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