genome.fa.s5168.2.7.7.80.10.50.1000.3.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: VEPZ01005168.1 Hibiscus syriacus cultivar Beakdansim tig00011662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  818383

Tables:   1   2   3   4   

This is table  3  of  4  ( 430 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)
459881--459934	26	2.1	25	89	3	81	31	24	18	25	1.97
483794--483867	30	2.5	30	82	6	80	20	31	17	31	1.96
484169--484203	17	2.1	16	89	5	52	17	0	22	60	1.37
488734--488788	21	2.6	21	85	0	74	20	25	16	38	1.92
489663--489716	24	2.2	24	90	0	81	22	18	18	40	1.91
492388--492520	20	6.9	20	70	19	113	46	18	22	12	1.82
492382--492520	40	3.6	41	80	13	154	47	17	22	12	1.81
492382--492486	20	5.1	21	76	11	119	48	17	21	12	1.80
492471--492527	14	3.7	14	72	20	51	43	19	24	12	1.85
492411--492544	33	3.8	33	82	12	135	46	19	21	12	1.83
492561--492616	14	3.7	14	76	17	58	10	23	23	42	1.85
492557--492622	32	2.1	32	97	0	123	10	22	21	45	1.82
492601--492664	21	3.1	21	84	6	87	10	20	17	51	1.75
492608--492679	20	3.6	19	83	5	81	13	16	18	51	1.77
493205--493338	20	6.7	20	92	0	187	23	19	20	37	1.94
493335--493380	21	2.2	21	88	0	65	36	17	28	17	1.92
495211--495511	67	4.5	67	86	4	410	30	18	12	38	1.88
498673--498703	9	3.4	9	90	0	53	51	0	0	48	1.00
499491--499515	2	12.5	2	100	0	50	52	0	0	48	1.00
500522--500570	19	2.8	19	80	20	63	40	0	0	59	0.98
500522--500607	33	2.7	32	79	18	90	45	0	0	54	0.99
500522--500607	30	2.7	33	78	15	90	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500544--500664	16	7.1	18	68	21	57	47	0	1	51	1.10
512208--512262	19	2.9	18	82	15	58	23	1	3	70	1.12
516692--516731	21	2.0	21	90	5	64	37	0	0	62	0.95
516817--516887	30	2.4	30	95	0	124	21	38	23	16	1.93
522865--522929	28	2.3	28	89	0	103	18	4	30	46	1.69
523842--523882	16	2.4	18	80	8	50	34	12	7	46	1.69
524313--524636	45	7.2	45	92	0	524	39	8	21	30	1.82
530768--530813	22	2.1	23	84	8	60	34	8	13	43	1.74
531196--531519	45	7.2	45	92	0	524	39	8	21	30	1.83
531290--531363	25	3.2	25	62	31	63	41	12	20	25	1.87
534202--534400	60	3.3	60	90	4	305	30	22	12	34	1.91
540088--540330	60	4.1	60	87	2	319	30	22	14	33	1.93
542372--542419	20	2.4	19	79	6	51	12	14	2	70	1.25
542768--543011	60	4.1	61	86	3	318	27	22	14	35	1.93
542766--543011	120	2.0	120	88	6	374	27	22	14	35	1.93
548293--548451	73	2.2	73	81	2	185	34	25	15	24	1.94
549152--549312	30	5.2	30	74	16	116	42	3	10	43	1.57
549186--549242	14	3.9	15	76	17	66	47	3	5	43	1.43
549137--549342	95	2.2	96	84	6	258	42	4	10	42	1.58
549479--549503	3	8.3	3	100	0	50	32	0	0	68	0.90
549659--549699	20	2.0	20	100	0	82	29	31	24	14	1.95
550527--550624	39	2.5	39	78	6	99	32	18	14	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550548--550629	20	4.2	20	72	18	66	31	17	14	36	1.90
551406--551439	12	2.8	12	90	0	50	55	29	0	14	1.40
551564--551617	24	2.2	24	93	0	90	24	14	16	44	1.85
553838--553878	12	3.4	12	86	0	55	56	24	2	17	1.53
553837--553871	6	5.8	6	86	0	52	60	20	2	17	1.49
554063--554116	19	2.7	19	91	5	81	38	20	20	20	1.93
554112--554177	20	3.3	20	84	0	87	21	22	18	37	1.94
554293--554329	14	2.6	14	95	0	65	45	21	2	29	1.65
555735--555804	21	3.4	20	78	9	70	21	22	35	20	1.96
555748--555856	41	2.6	41	83	1	137	22	16	37	22	1.93
555750--555852	21	5.0	21	83	2	127	23	16	35	24	1.95
556259--556308	21	2.4	21	82	0	64	32	32	14	22	1.93
557853--557953	19	5.3	19	89	1	148	52	18	15	12	1.74
558472--558520	20	2.5	20	89	0	71	18	14	20	46	1.83
561429--561463	17	2.0	18	88	5	54	51	0	5	42	1.25
563205--563233	2	14.5	2	100	0	58	48	0	0	51	1.00
563320--563392	3	24.7	3	97	2	139	32	0	0	67	0.91
563571--563629	26	2.1	29	84	9	79	40	10	0	49	1.37
563593--563708	29	3.9	30	76	6	121	37	6	0	55	1.31
563791--563826	12	3.0	12	100	0	72	16	33	8	41	1.78
565231--565761	278	1.9	277	94	0	936	28	19	25	26	1.99
568217--568319	42	2.5	42	78	7	104	30	14	20	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568127--568416	148	2.0	147	86	0	409	32	14	16	36	1.89
568267--568662	187	2.1	188	85	3	521	34	14	18	32	1.91
575635--575875	130	1.9	128	98	1	464	39	15	20	24	1.92
576924--577021	43	2.3	41	82	5	115	36	23	11	28	1.89
576996--577261	43	6.2	42	76	6	176	35	23	15	25	1.94
576996--577140	43	3.4	43	82	3	177	37	24	17	20	1.93
577010--577141	42	3.1	42	84	1	174	40	24	16	18	1.91
577009--577216	85	2.4	85	79	1	202	37	24	14	23	1.92
577181--577349	43	3.9	44	85	1	207	32	21	13	31	1.92
577186--577349	87	1.9	87	84	2	222	31	22	13	32	1.93
579696--579774	21	3.9	21	77	14	76	43	5	5	46	1.47
579719--579759	17	2.4	17	91	0	64	39	7	7	46	1.60
579701--579781	39	2.1	38	88	2	117	41	6	4	46	1.50
579757--579808	20	2.7	20	82	11	63	48	1	3	46	1.31
585443--585482	16	2.5	17	80	12	57	30	22	17	30	1.97
586309--586385	32	2.5	31	77	8	84	12	20	32	33	1.91
591511--591572	22	2.9	21	81	13	81	43	4	3	48	1.40
591649--591749	25	4.1	25	98	1	195	31	11	7	48	1.69
593974--594077	50	2.1	50	96	3	194	26	25	16	31	1.96
601481--601507	13	2.1	13	100	0	54	66	0	7	25	1.17
601661--601709	21	2.4	21	82	3	55	38	2	12	46	1.53
602853--602917	31	2.1	32	94	2	114	32	12	26	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604940--605006	28	2.3	29	84	5	82	46	0	19	34	1.50
604940--605006	14	4.6	14	81	5	71	46	0	19	34	1.50
606484--606515	14	2.4	13	90	10	55	68	0	0	31	0.90
606490--606523	14	2.4	14	90	0	50	70	0	0	29	0.87
607514--607549	18	2.0	18	100	0	72	33	16	22	27	1.95
608566--608741	89	2.0	88	94	2	307	44	6	11	37	1.67
610530--610718	20	10.5	18	70	20	87	44	1	3	50	1.26
610530--610660	2	67.0	2	76	15	96	45	1	2	50	1.23
621947--621993	23	2.0	23	100	0	94	8	12	38	40	1.74
623300--623336	14	2.8	13	88	11	58	21	10	29	37	1.88
623632--623675	16	2.8	16	80	16	56	18	11	2	68	1.30
626096--626174	21	3.8	20	83	6	86	36	21	17	24	1.94
627063--627143	26	3.1	26	98	0	153	27	14	20	37	1.92
631704--631750	20	2.3	20	100	0	94	48	10	21	19	1.78
640822--640849	2	14.0	2	100	0	56	50	0	0	50	1.00
648143--648229	29	2.9	29	77	15	97	31	12	6	49	1.67
664811--664840	7	4.3	7	100	0	60	43	0	43	13	1.43
674919--674975	29	2.0	28	83	6	71	56	5	7	31	1.49
675006--675035	2	15.0	2	100	0	60	50	0	0	50	1.00
681251--681553	82	3.8	82	72	10	275	35	16	20	27	1.94
681201--681519	159	2.0	159	89	0	485	34	14	21	29	1.93
684297--684327	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684567--684609	9	4.6	9	83	16	52	74	0	0	25	0.82
684680--684723	9	4.6	9	78	15	52	84	2	4	9	0.85
686169--686217	3	17.0	3	76	16	50	61	0	0	38	0.96
686368--686554	94	2.0	94	91	0	302	28	14	28	28	1.95
692028--692061	16	2.1	16	88	0	50	73	0	17	8	1.08
692862--692892	2	15.5	2	100	0	62	48	0	0	51	1.00
693135--693160	10	2.6	10	100	0	52	80	0	0	19	0.71
693209--693257	20	2.4	21	83	6	57	75	4	8	12	1.16
702128--702192	25	2.5	27	82	9	82	46	3	0	50	1.17
702177--702231	24	2.2	24	78	9	58	41	1	3	52	1.29

Tables:   1   2   3   4