genome.fa.s8527.2.7.7.80.10.50.1000.30.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  30  of  37  ( 4336 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)
7325380--7325414	18	1.9	18	94	0	61	20	20	34	25	1.96
7328819--7329078	126	2.1	125	90	0	403	30	14	15	40	1.87
7329412--7329935	200	2.6	199	84	4	666	40	13	14	31	1.86
7329943--7330096	64	2.4	64	85	3	211	32	11	9	46	1.73
7333762--7333814	2	28.0	2	85	11	76	50	1	0	47	1.12
7333816--7333853	19	2.0	20	85	10	53	57	2	0	39	1.12
7337559--7337656	48	2.1	47	82	5	117	42	12	17	27	1.85
7343870--7343907	11	3.5	11	85	7	51	2	13	0	84	0.73
7343870--7343907	17	2.3	17	90	4	60	2	13	0	84	0.73
7344354--7344423	35	2.0	35	88	5	106	51	0	1	47	1.09
7344541--7346398	76	24.4	76	95	0	3338	35	21	20	22	1.96
7347060--7347114	22	2.5	22	93	0	92	41	16	9	32	1.80
7352156--7352183	2	14.0	2	100	0	56	50	0	0	50	1.00
7368498--7368542	21	2.1	21	87	0	63	24	22	46	6	1.75
7373286--7373335	26	2.0	25	88	4	73	54	12	26	8	1.64
7379300--7379347	6	8.0	6	84	9	62	35	27	0	37	1.57
7379290--7379345	24	2.3	24	93	0	94	39	23	0	37	1.55
7381119--7381180	17	3.5	17	75	14	63	40	17	6	35	1.76
7382438--7382531	30	3.1	30	84	3	109	35	27	20	17	1.94
7382491--7382619	31	4.1	31	76	5	125	34	20	17	27	1.94
7382952--7382991	20	2.0	20	85	0	53	32	10	5	52	1.56
7383677--7383837	63	2.6	63	83	6	193	23	22	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7385222--7385262	18	2.3	18	100	0	82	29	17	4	48	1.67
7386935--7386972	2	19.0	2	100	0	76	50	0	0	50	1.00
7387339--7387462	63	2.0	62	84	4	160	32	19	18	29	1.96
7387338--7387465	31	4.1	31	75	9	116	33	19	17	28	1.95
7388489--7388538	18	2.7	18	84	6	55	28	30	18	24	1.97
7388550--7388711	63	2.6	63	81	8	179	22	23	21	32	1.98
7390661--7390776	51	2.3	51	87	0	160	17	32	30	19	1.95
7392505--7392591	35	2.5	34	80	12	97	55	10	8	26	1.61
7393180--7393232	18	2.9	18	94	0	88	28	20	20	30	1.98
7394738--7394959	111	2.0	111	94	0	390	45	10	8	36	1.68
7395202--7395356	50	3.1	47	83	7	132	21	30	32	15	1.94
7398110--7398137	2	14.0	2	100	0	56	50	0	0	50	1.00
7399025--7399083	19	3.3	18	73	19	61	40	3	5	50	1.41
7404412--7404453	21	2.1	20	82	8	50	23	9	0	66	1.21
7404707--7404764	28	2.1	27	81	15	66	36	6	3	53	1.45
7405310--7405360	20	2.5	21	78	6	61	60	0	0	39	0.97
7405302--7405395	30	3.1	30	74	15	86	56	0	1	42	1.06
7405302--7405420	32	3.9	30	71	15	86	57	0	1	41	1.09
7411091--7411188	21	4.8	20	73	10	72	37	20	19	22	1.94
7411156--7411349	20	9.6	20	76	8	76	35	25	19	19	1.95
7411156--7411349	40	4.8	39	82	3	199	35	25	19	19	1.95
7411156--7411348	60	3.2	60	83	0	251	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7411730--7411800	33	2.2	33	92	0	115	12	22	16	47	1.80
7411921--7411974	14	3.6	14	77	18	63	40	24	25	9	1.85
7411931--7411979	16	3.1	16	72	21	57	44	22	24	8	1.79
7411986--7412083	19	5.7	19	70	22	81	10	24	22	42	1.84
7412008--7412097	14	5.7	14	74	23	81	8	25	23	42	1.83
7411991--7412105	33	3.5	33	95	0	212	9	24	20	45	1.81
7413778--7414156	92	4.1	93	97	0	717	22	12	18	46	1.82
7414200--7414328	19	7.3	19	73	17	116	45	28	16	9	1.78
7414236--7414328	33	2.8	32	90	4	141	46	27	17	8	1.77
7414200--7414328	52	2.5	52	73	14	131	45	28	16	9	1.78
7414324--7414458	19	7.6	19	75	16	128	11	19	23	45	1.82
7414346--7414402	14	3.7	14	77	20	60	10	21	22	45	1.82
7414329--7414421	33	2.8	33	95	0	168	10	20	21	47	1.80
7416357--7416392	14	2.6	14	95	0	63	33	0	22	44	1.53
7416499--7416581	19	4.6	19	80	17	113	43	18	24	14	1.87
7416610--7416883	19	15.4	19	81	15	354	13	21	17	46	1.83
7416588--7416855	52	5.0	52	93	4	455	14	22	16	46	1.83
7416588--7416855	109	2.5	105	91	6	459	14	22	16	46	1.83
7417168--7417203	14	2.6	14	95	0	63	33	0	22	44	1.53
7417310--7417392	19	4.6	19	80	17	113	43	18	24	14	1.87
7417421--7417675	19	14.4	19	81	16	325	13	21	18	47	1.82
7417399--7417608	52	3.9	52	84	9	255	14	21	17	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7417399--7417675	90	3.2	90	89	7	398	14	21	18	46	1.83
7417421--7417647	52	4.2	55	93	6	314	14	22	16	47	1.82
7417440--7417675	33	6.8	33	81	12	210	13	21	18	47	1.82
7420153--7420199	24	2.0	24	87	8	69	38	21	14	25	1.92
7420875--7421264	20	19.5	20	84	5	457	20	18	25	35	1.95
7425146--7425567	209	2.0	209	92	0	709	44	15	15	24	1.85
7430671--7430730	22	2.8	22	82	12	63	68	6	8	16	1.37
7431394--7431449	25	2.2	25	93	0	94	25	16	37	21	1.93
7437830--7437872	2	21.5	2	100	0	86	48	0	0	51	1.00
7438559--7438609	22	2.4	22	86	3	68	72	7	0	19	1.08
7440528--7440560	2	16.5	2	100	0	66	48	0	0	51	1.00
7458341--7458386	19	2.6	18	83	16	60	32	2	0	65	1.05
7458341--7458387	9	5.2	9	76	19	53	31	2	0	65	1.04
7471617--7471648	15	2.0	17	88	11	50	50	6	12	31	1.65
7474327--7474396	2	35.0	2	100	0	140	50	0	0	50	1.00
7481893--7481936	21	2.0	22	83	12	56	47	4	2	45	1.35
7487049--7487182	59	2.3	59	92	0	223	38	15	8	37	1.79
7489657--7489701	23	1.9	24	81	4	56	46	6	6	40	1.56
7491364--7491436	19	3.6	20	71	14	60	53	2	4	39	1.34
7491665--7491691	2	13.5	2	100	0	54	48	0	0	51	1.00
7493578--7493606	2	14.5	2	100	0	58	48	0	0	51	1.00
7494026--7494051	11	2.4	11	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7494102--7494154	2	27.5	2	92	7	92	52	0	0	47	1.00
7498087--7498111	2	12.5	2	100	0	50	0	52	0	48	1.00
7500725--7500773	16	3.0	16	76	5	62	48	0	2	48	1.12
7505153--7505233	14	5.4	14	73	16	72	23	38	28	9	1.87
7505145--7505228	24	3.5	24	72	18	84	22	36	29	10	1.88
7505232--7505296	33	2.0	33	90	6	105	27	24	38	9	1.86
7505358--7505382	12	2.1	12	100	0	50	16	36	8	40	1.77
7505400--7505456	29	2.0	29	100	0	114	19	31	35	14	1.91
7510088--7510139	25	2.1	26	82	7	63	48	1	1	48	1.24
7510166--7510212	22	2.1	23	88	4	69	42	2	2	53	1.25
7510160--7510229	32	2.2	33	82	10	83	44	2	1	51	1.25
7510329--7510397	19	3.6	18	71	21	52	49	1	2	46	1.25
7510392--7510436	23	2.0	23	86	0	63	53	2	2	42	1.25
7517123--7517167	18	2.4	19	77	3	56	42	17	22	17	1.89
7519457--7519511	25	2.2	25	93	6	94	27	12	10	49	1.74
7523371--7523420	21	2.4	21	80	6	57	20	12	38	30	1.88
7523741--7523860	21	5.7	21	86	3	161	20	35	20	23	1.96
7523745--7523875	63	2.1	63	88	2	192	19	37	19	23	1.94
7523745--7523875	21	6.2	21	83	3	129	19	37	19	23	1.94
7525139--7525172	14	2.4	14	100	0	68	32	0	20	47	1.51
7525202--7525252	27	1.9	27	88	4	77	31	0	19	49	1.49
7525150--7525301	64	2.4	64	92	0	241	29	1	17	51	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7525356--7525413	20	2.9	20	84	0	80	43	20	17	18	1.89
7527873--7527926	24	2.2	24	90	0	81	40	20	16	22	1.91
7528852--7528921	20	3.5	20	70	18	56	38	15	20	25	1.92
7528904--7528983	20	4.0	20	73	12	74	28	13	30	27	1.94
7530110--7530222	35	3.2	34	86	5	154	43	22	0	33	1.59
7531275--7531386	35	3.2	34	88	2	152	34	1	22	41	1.64
7538818--7538863	22	2.0	23	87	4	67	23	0	2	73	0.94
7542677--7542762	3	26.3	3	80	6	55	26	2	1	69	1.07
7542679--7542711	4	8.2	4	100	0	66	24	0	0	75	0.80
7542677--7542774	18	6.1	16	71	15	60	24	2	1	72	1.02

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