genome.fa.s8051.2.7.7.80.10.50.1000.3.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: VEPZ01008051.1 Hibiscus syriacus cultivar Beakdansim tig00110546_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  579609

Tables:   1   2   3   

This is table  3  of  3  ( 337 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)
478953--479003	14	3.6	14	94	0	93	31	0	23	45	1.53
479108--479217	19	5.8	19	100	0	220	46	21	20	10	1.81
479222--479338	19	6.7	19	65	24	69	13	23	20	42	1.87
479226--479318	32	2.8	33	93	6	163	12	23	19	44	1.85
481771--482096	164	2.0	161	94	5	570	34	22	13	30	1.92
482590--482637	21	2.3	21	85	3	62	41	14	22	20	1.89
482622--482713	20	4.6	20	73	2	76	39	21	18	20	1.93
482911--482948	20	1.9	20	88	0	58	39	23	18	18	1.92
482967--483034	19	3.8	19	85	12	92	13	20	17	48	1.80
484886--485018	20	7.5	18	73	19	93	44	22	19	13	1.86
484945--485000	14	3.6	14	74	21	58	50	23	16	10	1.76
484928--485019	33	2.8	32	96	1	166	45	22	18	13	1.84
485032--485095	19	3.7	18	74	21	73	14	21	20	43	1.87
485080--485123	20	2.2	20	88	4	63	18	25	20	36	1.95
485089--485134	20	2.3	20	84	0	56	17	21	23	36	1.94
486944--487017	20	3.8	20	81	1	69	43	22	17	16	1.88
487229--487272	22	2.0	22	95	0	79	18	15	45	20	1.85
487437--487571	20	6.7	20	78	7	94	24	17	23	34	1.96
487437--487592	61	2.6	61	82	2	188	23	18	23	35	1.96
487560--487611	21	2.5	21	84	3	70	17	23	19	40	1.91
487642--487682	21	2.0	21	85	0	55	34	29	17	19	1.94
488596--488738	70	2.0	71	98	1	279	24	15	30	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490241--490318	29	2.7	29	91	0	129	41	11	15	32	1.83
494972--495052	29	2.8	28	85	5	108	41	9	13	34	1.78
496155--496184	16	1.9	16	93	6	53	33	13	20	33	1.91
503921--503973	22	2.4	22	100	0	106	30	26	5	37	1.79
508293--508700	3	136.3	3	85	10	561	63	0	36	0	0.94
508704--508744	15	2.7	15	100	0	82	39	7	41	12	1.70
508757--509018	113	2.3	114	95	1	467	35	6	29	28	1.83
508870--508894	3	8.3	3	100	0	50	64	0	36	0	0.94
508870--509370	179	2.9	175	87	8	754	37	6	31	23	1.82
509163--509187	3	8.3	3	100	0	50	64	0	36	0	0.94
509163--509268	54	1.9	55	90	1	169	42	8	43	5	1.58
509025--509381	168	2.1	165	93	3	617	35	7	33	22	1.83
509222--509468	113	2.2	114	97	0	460	36	6	27	29	1.82
509444--509474	3	10.3	3	100	0	62	64	0	35	0	0.94
509382--509566	97	1.9	97	93	1	318	40	4	17	37	1.70
509581--509786	6	35.3	6	84	5	172	50	0	45	3	1.18
509650--509802	6	25.5	6	85	2	137	58	0	40	0	1.03
509650--509802	15	10.2	15	80	2	137	58	0	40	0	1.03
509850--509884	3	11.7	3	87	0	52	71	0	25	2	1.00
509850--509888	12	3.2	12	92	0	60	71	0	25	2	0.98
513426--513521	31	3.1	31	75	3	102	20	12	30	36	1.90
513429--513520	32	2.9	30	75	9	85	21	13	30	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514239--514354	49	2.4	48	81	5	117	15	11	28	44	1.81
514293--514348	16	3.5	16	77	0	58	7	14	30	48	1.70
514329--514373	22	2.0	22	91	0	72	8	13	33	44	1.75
517811--517861	2	25.5	2	100	0	102	49	0	0	50	1.00
534138--534180	20	2.2	20	86	0	59	34	20	13	30	1.92
534632--534684	17	3.1	16	78	8	52	35	13	13	37	1.83
534642--534683	18	2.4	17	88	4	57	40	16	11	30	1.85
534659--534747	46	1.9	46	81	4	108	43	11	13	31	1.79
535468--535623	64	2.5	63	83	8	192	31	16	20	32	1.94
544134--544239	45	2.4	45	88	6	153	31	17	19	31	1.96
550375--550426	20	2.6	20	96	0	95	38	26	13	21	1.90
550417--550514	21	4.8	20	71	6	70	35	21	20	22	1.96
550482--550675	20	9.6	20	76	8	76	35	25	19	19	1.95
550478--550675	40	5.0	39	81	4	200	35	26	19	19	1.95
550482--550674	60	3.2	60	83	0	251	35	25	19	19	1.95
551055--551125	33	2.2	33	92	0	115	11	22	18	47	1.80
551246--551300	14	3.6	14	73	21	56	41	23	25	9	1.83
551246--551316	33	2.2	33	94	0	124	43	25	22	8	1.81
551312--551409	19	5.7	19	70	22	81	10	24	22	42	1.84
551334--551423	14	5.7	14	74	23	81	8	25	23	42	1.83
551317--551431	33	3.5	33	95	0	212	9	24	20	45	1.81
553129--553693	185	3.0	186	98	0	1107	22	12	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553129--553693	93	6.1	93	99	0	1107	22	12	18	46	1.83
553737--553865	19	7.3	19	75	17	125	45	28	17	8	1.77
553773--553865	33	2.8	32	91	4	150	46	27	18	7	1.76
553737--553865	52	2.5	52	74	14	140	45	28	17	8	1.77
553861--553995	19	7.6	19	74	16	119	11	18	23	45	1.82
553883--553939	14	3.7	14	77	20	60	10	21	22	45	1.82
553866--553958	33	2.8	33	93	0	159	11	19	21	47	1.81
555919--555954	14	2.6	14	95	0	63	33	0	22	44	1.53
556061--556181	19	6.6	19	87	11	189	44	17	23	14	1.86
556061--556181	33	3.3	36	85	12	167	44	17	23	14	1.86
556210--556516	19	17.4	19	80	16	376	14	20	18	46	1.83
556210--556449	71	3.4	71	86	11	373	14	20	17	47	1.83
556172--556516	142	2.5	137	90	5	516	14	20	18	46	1.84
556210--556488	52	5.2	52	93	4	388	14	21	17	46	1.83
558799--558823	12	2.1	12	100	0	50	0	28	0	72	0.86
558997--559043	24	2.0	24	87	8	69	38	21	14	25	1.92
559725--560074	20	17.5	20	87	4	456	20	18	26	34	1.96
560042--560093	20	2.6	20	84	6	61	13	19	25	42	1.87
560812--560845	2	17.5	2	93	6	61	50	0	0	50	1.00
560938--561249	37	8.2	38	82	12	347	41	1	7	49	1.39
560902--561276	114	3.3	113	80	10	387	42	1	7	49	1.38
560894--561265	37	9.9	37	80	11	323	42	1	7	49	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561276--561356	4	20.0	4	73	14	60	18	7	0	74	1.05
561289--561346	14	4.5	13	81	14	75	15	6	0	77	0.97
561277--561357	26	3.1	26	87	7	103	17	7	0	75	1.02
561314--561357	14	3.1	14	80	0	61	13	9	0	77	0.99
562621--562674	4	13.0	4	79	11	56	25	3	1	68	1.16
565499--565531	16	2.1	16	100	0	66	33	12	18	36	1.88
567321--567505	95	2.0	91	86	7	259	46	10	8	34	1.70
574946--575147	27	7.2	29	84	8	258	49	15	4	30	1.64
579294--579498	29	7.1	29	86	3	279	48	15	5	30	1.68

Tables:   1   2   3

The End!