genome.fa.s1547.2.7.7.80.10.50.1000.46.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  46  of  51  ( 6083 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)
8892712--8892790	41	1.9	41	82	5	97	21	21	24	32	1.98
8893067--8893132	17	3.8	18	84	9	75	45	0	1	53	1.09
8895571--8895621	22	2.3	22	93	0	84	45	5	1	47	1.38
8896791--8896825	17	2.1	17	89	10	54	42	0	2	54	1.15
8908681--8908719	2	20.0	2	94	5	71	48	0	0	51	1.00
8913345--8913374	2	15.0	2	92	0	51	46	0	0	53	1.00
8914485--8914527	22	2.0	22	95	0	77	39	2	4	53	1.34
8914704--8914729	2	13.0	2	100	0	52	50	0	0	50	1.00
8923295--8923344	26	1.9	26	84	8	66	46	0	4	50	1.20
8923432--8923477	19	2.4	19	85	3	56	52	6	0	41	1.27
8923450--8923485	19	2.0	19	89	10	58	55	5	0	38	1.23
8923462--8923513	16	3.2	17	81	8	63	63	7	0	28	1.22
8927977--8928067	31	2.9	31	76	12	89	23	3	3	70	1.17
8928121--8928160	2	21.5	2	80	14	50	52	2	0	45	1.14
8928128--8928159	16	2.0	16	100	0	64	50	0	0	50	1.00
8928344--8928398	16	3.4	16	84	0	74	60	20	9	10	1.57
8929491--8929522	14	2.3	14	94	0	55	50	25	15	9	1.74
8931573--8931616	19	2.3	19	80	0	52	52	4	0	43	1.22
8940312--8940357	21	2.2	21	100	0	92	13	13	41	32	1.82
8943857--8943996	59	2.3	60	89	3	221	41	7	22	29	1.80
8946781--8946859	28	2.8	28	77	9	88	25	16	8	49	1.74
8946919--8947038	25	4.7	26	74	5	102	35	37	1	25	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8946919--8947038	51	2.4	51	88	0	168	35	37	1	25	1.66
8947450--8947486	20	1.9	19	89	10	58	48	10	21	18	1.78
8947637--8947710	37	2.0	36	84	7	96	47	4	1	47	1.29
8963783--8963883	5	19.8	5	74	8	78	69	1	2	25	1.13
8963783--8963883	21	4.9	20	76	8	87	69	1	2	25	1.13
8967145--8967171	13	2.1	13	100	0	54	22	33	14	29	1.94
8974916--8974940	7	3.6	7	100	0	50	12	12	0	76	1.04
8980910--8980954	22	2.0	22	87	8	65	44	6	11	37	1.66
8982533--8982592	29	2.1	28	84	3	75	46	6	5	41	1.52
8983103--8983150	22	2.3	20	80	13	53	27	6	2	64	1.28
8999913--8999945	17	1.9	17	93	0	57	36	18	6	39	1.75
9000023--9000095	33	2.2	32	83	9	85	49	4	1	45	1.29
9000023--9000096	34	2.2	32	83	9	87	48	4	1	45	1.29
9007484--9007883	200	2.0	200	97	0	746	24	17	16	42	1.89
9011174--9011224	24	2.1	24	96	0	93	21	47	9	21	1.79
9011293--9011326	10	3.4	10	91	0	59	35	35	0	29	1.58
9011360--9011393	17	1.9	18	94	5	61	26	0	8	64	1.22
9013726--9013758	16	2.1	16	88	5	50	39	18	21	21	1.93
9018049--9018087	20	2.0	20	94	0	69	25	12	43	17	1.85
9018127--9018208	33	2.6	32	86	7	114	12	23	25	39	1.89
9018316--9018371	30	2.0	30	83	16	75	46	8	33	10	1.70
9018445--9018470	13	2.0	13	100	0	52	23	0	23	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9020568--9020755	14	14.9	14	67	22	103	47	4	5	41	1.48
9020568--9020656	37	2.4	37	92	0	151	48	5	5	40	1.50
9020615--9020702	23	3.6	23	85	14	131	48	4	4	42	1.44
9020666--9020759	37	2.5	37	92	0	161	48	4	5	41	1.45
9020579--9020744	88	1.9	88	96	0	305	48	4	5	42	1.45
9024268--9024353	32	2.7	32	88	0	136	34	30	25	9	1.87
9024338--9024418	40	2.0	40	97	0	153	33	27	18	20	1.96
9025564--9025625	31	2.0	30	84	3	79	40	3	11	45	1.56
9037818--9037910	39	2.4	39	100	0	186	27	11	12	47	1.77
9040422--9041980	198	7.9	198	98	0	3031	30	16	16	36	1.91
9042099--9042147	19	2.6	19	93	0	80	57	10	2	30	1.43
9043932--9043997	33	2.0	33	90	0	105	22	48	0	28	1.51
9044030--9044094	21	3.1	21	80	6	69	15	29	15	40	1.88
9046305--9046347	20	2.3	18	82	17	61	18	16	11	53	1.72
9046310--9046356	20	2.3	20	89	10	78	17	17	10	55	1.69
9046478--9046523	20	2.3	20	85	10	67	19	17	10	52	1.74
9047416--9047454	6	6.5	6	100	0	78	15	0	66	17	1.25
9051019--9051088	34	2.1	34	100	0	140	28	22	8	40	1.84
9053455--9053499	18	2.4	18	85	10	56	71	0	4	24	1.05
9059801--9060388	222	2.6	223	84	7	732	37	14	13	34	1.86
9062305--9062334	15	2.0	15	93	0	51	43	0	26	30	1.55
9062472--9062692	64	3.5	63	81	9	220	32	20	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9063012--9063047	18	2.0	18	88	0	54	30	8	16	44	1.77
9067486--9067515	15	2.0	15	93	0	51	43	0	26	30	1.55
9067653--9067873	64	3.5	63	80	9	211	33	20	18	28	1.96
9069372--9069415	22	2.0	22	90	0	70	31	22	25	20	1.98
9077658--9077688	16	1.9	16	93	0	53	29	3	0	67	1.06
9084313--9084371	31	1.9	31	92	0	100	40	6	10	42	1.65
9084398--9084446	22	2.2	22	85	3	62	55	12	0	32	1.37
9084498--9085077	32	19.4	32	72	19	332	52	11	0	35	1.38
9084553--9084599	22	2.1	22	88	7	69	57	6	0	36	1.24
9084562--9084604	22	2.0	22	95	0	77	53	11	0	34	1.37
9084564--9084612	22	2.2	22	85	3	62	57	12	0	30	1.36
9084607--9084659	14	3.5	14	72	18	52	56	5	0	37	1.23
9084648--9084690	22	2.0	22	100	0	86	51	13	0	34	1.42
9084650--9084698	22	2.2	22	88	3	71	55	14	0	30	1.40
9084387--9085159	252	3.1	251	93	3	1278	52	11	0	36	1.37
9084814--9084856	22	2.0	22	100	0	86	51	13	0	34	1.42
9084816--9084864	22	2.2	22	88	3	71	55	14	0	30	1.40
9084859--9084913	14	3.6	14	73	17	56	56	5	0	38	1.23
9084890--9084933	22	2.0	22	82	8	54	54	2	0	43	1.12
9085006--9085063	18	3.4	18	70	18	61	56	13	0	29	1.38
9084387--9085077	166	4.1	169	88	6	1018	52	12	0	35	1.38
9085057--9085174	15	7.5	15	81	13	139	51	2	0	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9085024--9085174	52	3.2	49	82	11	172	52	4	0	43	1.22
9089677--9089728	27	1.9	27	88	7	79	48	0	0	51	1.00
9089881--9089968	27	3.3	25	72	17	79	50	2	1	46	1.21
9089871--9089988	53	2.2	53	83	10	150	48	1	0	49	1.17
9089942--9090009	22	3.1	22	75	8	68	50	1	0	48	1.10
9090031--9090076	22	2.1	22	88	8	67	52	0	2	45	1.13
9090561--9090599	2	19.5	2	100	0	78	48	0	0	51	1.00
9094732--9094871	6	23.3	6	97	0	199	17	5	32	44	1.73
9097419--9097453	2	18.5	2	88	11	56	51	0	0	48	1.00
9097419--9097453	13	2.6	14	86	13	56	51	0	0	48	1.00
9099197--9099374	89	2.0	89	100	0	356	23	12	32	31	1.92
9099854--9099952	35	2.7	35	85	4	117	38	14	16	31	1.88
9099976--9100117	71	2.0	70	95	4	259	42	21	18	17	1.89
9100509--9100584	20	3.9	20	69	20	54	26	7	1	64	1.29
9100488--9100561	22	3.3	22	75	22	57	25	6	2	64	1.31
9103742--9103792	15	3.2	16	79	17	54	78	7	13	0	0.96
9103748--9103837	23	3.9	21	74	20	65	76	7	14	1	1.06
9104456--9104504	22	2.2	22	92	0	80	32	24	14	28	1.94
9104919--9104954	18	2.0	18	94	0	63	16	8	33	41	1.78
9105383--9105504	36	3.4	36	72	8	88	24	21	15	38	1.92
9105520--9105680	37	4.4	36	87	3	207	25	19	13	40	1.89
9106345--9107620	105	12.3	104	80	8	1199	32	25	20	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9106381--9107619	204	6.0	204	82	8	1227	32	25	20	21	1.97
9108489--9108524	2	19.5	2	83	16	51	47	0	0	52	1.00
9108490--9108524	13	2.8	13	91	4	54	48	0	0	51	1.00
9108615--9108676	26	2.4	26	81	7	65	22	8	1	67	1.25
9113469--9113614	73	2.0	73	100	0	292	32	20	21	24	1.97
9115869--9115914	13	3.4	13	77	11	56	52	2	13	32	1.52
9115858--9115918	28	2.2	28	97	2	115	50	4	9	34	1.57
9115858--9115903	15	3.2	15	75	12	60	52	4	8	34	1.52
9141268--9141324	6	9.5	6	100	0	114	0	17	33	49	1.47
9147653--9147687	15	2.3	15	90	9	54	37	5	8	48	1.58

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51