genome.fa.s190.2.7.7.80.10.50.1000.39.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  39  of  62  ( 7381 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)
9245697--9245765	10	7.1	9	75	16	50	73	1	2	21	1.04
9247019--9247399	75	5.2	74	80	13	382	45	5	4	44	1.46
9247019--9247399	38	10.4	37	81	10	355	45	5	4	44	1.46
9247252--9247352	36	3.1	31	77	20	109	47	5	1	44	1.38
9247252--9247314	30	2.1	29	91	8	101	44	6	3	46	1.45
9247139--9247396	142	1.8	139	83	7	342	46	5	2	45	1.39
9248541--9248566	3	8.7	3	100	0	52	34	0	30	34	1.58
9248565--9248611	3	16.3	3	91	8	80	63	0	0	36	0.94
9248834--9249305	203	2.3	202	86	2	642	29	18	18	33	1.95
9249893--9249934	6	6.7	6	89	10	66	16	16	0	66	1.25
9252281--9252320	21	1.9	21	84	0	53	20	15	27	37	1.92
9255207--9255495	26	12.1	25	73	19	233	22	20	11	45	1.83
9255219--9255571	46	7.6	46	80	9	362	23	20	11	44	1.84
9255388--9255556	20	7.6	20	66	21	86	23	22	10	43	1.84
9255988--9256170	96	1.9	95	84	3	244	24	21	15	38	1.92
9258440--9258466	14	1.9	14	100	0	54	59	0	18	22	1.38
9259626--9259690	20	3.2	20	100	0	130	24	33	12	29	1.92
9267651--9267685	18	1.9	18	94	0	61	20	22	31	25	1.98
9267832--9267891	3	20.0	3	100	0	120	66	0	0	33	0.92
9270874--9270917	23	1.9	23	90	0	70	31	25	9	34	1.87
9274044--9274082	10	3.9	10	89	0	60	41	0	7	51	1.31
9274044--9274082	4	9.8	4	88	0	51	41	0	7	51	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9274044--9274082	6	6.5	6	87	0	51	41	0	7	51	1.31
9280642--9280692	18	2.8	18	84	0	75	13	17	35	33	1.89
9281777--9281828	24	2.2	25	89	6	81	59	15	11	13	1.61
9286452--9286515	27	2.4	27	89	5	94	34	9	28	28	1.88
9290208--9290415	103	2.0	103	94	0	362	37	22	12	27	1.91
9290538--9290590	24	2.2	24	83	9	65	45	22	3	28	1.70
9292563--9292780	103	2.1	103	94	0	382	25	12	23	37	1.91
9292797--9292862	23	2.9	23	86	0	78	21	24	27	27	1.99
9293129--9293153	2	12.5	2	100	0	50	48	0	0	52	1.00
9299257--9299335	24	3.4	24	75	10	83	26	25	2	45	1.66
9299253--9299390	21	6.4	21	71	18	77	27	24	2	44	1.68
9299238--9299354	45	2.6	45	85	4	139	23	23	5	47	1.72
9299592--9299693	53	1.9	53	93	0	177	44	12	16	26	1.84
9300693--9300733	14	2.9	14	88	0	55	29	14	19	36	1.92
9300856--9300943	19	4.6	19	70	16	65	46	2	2	48	1.27
9300858--9300913	18	2.9	18	72	17	51	46	3	0	50	1.19
9300937--9301053	28	4.2	28	70	17	93	47	2	1	47	1.25
9301095--9301151	14	3.7	16	68	23	50	47	0	1	50	1.11
9301079--9301164	24	3.3	24	73	17	82	48	1	1	48	1.16
9301369--9301464	42	2.3	42	83	3	122	57	13	7	21	1.61
9315549--9315638	44	2.0	44	91	0	144	21	6	27	44	1.77
9316414--9316460	18	2.6	18	96	0	85	19	25	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9317978--9318002	2	12.5	2	100	0	50	0	48	0	52	1.00
9320955--9321032	34	2.2	35	82	8	88	46	17	3	32	1.67
9322522--9322556	12	2.8	12	91	4	52	25	5	0	68	1.11
9322704--9322775	34	2.1	36	82	10	87	45	18	4	31	1.68
9322861--9322905	4	11.0	4	82	2	54	46	20	2	31	1.62
9322861--9322901	12	3.4	12	93	0	64	46	19	2	31	1.63
9323173--9323295	2	63.0	2	92	4	207	47	0	1	50	1.10
9323540--9323570	2	16.0	2	93	6	55	51	0	0	48	1.00
9323803--9323840	20	2.0	20	94	5	69	26	36	0	36	1.57
9323908--9324075	2	83.0	2	68	17	71	42	4	3	50	1.39
9323987--9324048	13	4.6	13	90	7	88	40	4	6	48	1.50
9323987--9324048	26	2.3	26	91	5	97	40	4	6	48	1.50
9323908--9324065	13	11.6	14	73	15	81	42	4	3	49	1.41
9325190--9325294	39	2.7	39	82	4	124	37	14	0	47	1.51
9325902--9326006	38	2.8	38	77	8	99	39	17	1	41	1.60
9327768--9327810	15	2.8	15	76	16	52	34	0	0	65	0.93
9331125--9331846	38	19.5	38	73	11	384	36	13	17	32	1.89
9331166--9331363	73	2.7	73	87	3	265	35	14	17	32	1.90
9331006--9331849	185	4.6	184	80	8	806	36	13	17	32	1.88
9331006--9331842	147	5.7	143	79	9	715	36	13	17	32	1.89
9331001--9331842	74	11.4	74	83	5	807	36	13	17	32	1.89
9334072--9334140	20	3.5	20	97	0	129	44	17	17	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9338533--9338588	24	2.3	24	78	9	60	57	5	1	35	1.32
9338730--9338803	2	37.0	2	100	0	148	50	0	0	50	1.00
9338951--9339007	3	20.0	3	89	10	93	31	0	0	68	0.90
9340096--9340126	16	1.9	16	93	0	53	35	0	0	64	0.94
9346228--9346272	20	2.2	20	84	7	56	13	22	0	64	1.28
9349516--9349564	23	2.1	23	85	7	64	26	2	14	57	1.48
9358834--9359059	103	2.2	103	95	0	407	37	24	12	25	1.91
9365664--9365717	23	2.3	23	90	6	83	33	25	20	20	1.97
9366338--9366375	20	1.9	20	94	0	67	13	31	31	23	1.93
9366403--9366445	21	2.0	21	81	0	50	16	25	30	27	1.97
9367252--9367302	7	6.7	7	79	16	57	37	3	13	45	1.63
9367255--9367301	16	2.9	16	90	0	76	36	4	12	46	1.62
9367430--9367496	22	3.0	22	93	0	107	31	25	20	22	1.98
9374096--9374157	22	2.8	22	85	0	88	33	20	24	20	1.97
9375575--9375722	60	2.5	58	81	9	176	41	3	18	36	1.67
9379127--9379167	19	2.1	20	86	13	59	65	0	0	34	0.93
9379309--9379375	31	2.2	31	91	0	107	37	13	28	20	1.91
9381436--9381502	27	2.5	27	95	0	125	49	10	0	40	1.37
9382802--9382874	31	2.4	31	90	0	110	31	20	9	38	1.85
9383246--9383287	18	2.4	18	81	18	61	45	0	4	50	1.23
9383286--9383338	21	2.5	21	81	3	61	24	1	3	69	1.15
9383782--9383838	26	2.1	27	83	3	71	26	1	8	63	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9383782--9383850	26	2.6	25	80	13	66	24	1	10	63	1.34
9387688--9387725	12	3.2	12	82	14	51	13	0	2	84	0.73
9387682--9387721	18	2.2	19	86	4	55	12	2	2	82	0.87
9387682--9387737	19	3.1	17	82	10	58	14	3	3	78	1.02
9387759--9387815	27	2.2	25	84	6	69	15	7	1	75	1.10
9387851--9387880	2	15.0	2	100	0	60	50	0	0	50	1.00
9393783--9394073	85	3.4	85	85	0	411	36	20	18	23	1.95
9394025--9394128	55	1.9	55	84	4	138	42	17	17	23	1.89
9396063--9396107	14	3.1	14	78	12	54	17	4	0	77	0.92
9396069--9396103	8	4.4	8	88	0	52	14	2	0	82	0.77
9396224--9396282	27	2.2	27	82	11	68	15	6	1	76	1.07
9396224--9396282	28	2.2	26	82	11	66	15	6	1	76	1.07
9405513--9405552	21	1.9	21	90	10	64	30	7	7	55	1.56
9407182--9407338	65	2.4	64	78	5	156	28	16	22	31	1.96
9407858--9407923	2	33.0	2	100	0	132	50	0	0	50	1.00
9408691--9409182	182	2.7	182	90	0	761	42	13	16	27	1.86
9412849--9412897	19	2.6	19	96	0	89	32	2	10	55	1.45
9413250--9413966	200	3.6	199	89	1	1026	36	13	16	33	1.88
9417263--9418437	201	5.9	198	83	3	1388	37	14	16	31	1.88
9417265--9418437	401	2.9	395	86	4	1534	38	14	16	31	1.88
9417263--9418437	602	2.0	602	85	4	1602	37	14	16	31	1.88
9420231--9420543	156	2.0	157	99	0	619	31	21	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9428595--9428678	22	3.8	22	82	3	96	21	32	26	20	1.98
9428606--9428666	23	2.7	22	87	5	86	19	32	27	19	1.96
9430258--9430295	18	2.1	18	90	9	60	44	23	31	0	1.54
9432100--9432619	199	2.6	198	82	6	597	39	13	15	31	1.86
9432620--9432781	86	1.9	87	96	1	299	32	14	12	41	1.83
9433850--9433882	13	2.4	14	85	5	50	33	6	0	60	1.21
9438106--9438130	2	12.5	2	100	0	50	48	0	0	52	1.00
9438135--9438344	37	5.9	38	77	16	193	45	3	7	43	1.50
9438152--9438219	27	2.5	27	97	0	127	42	4	10	42	1.58
9438179--9438344	39	4.5	37	88	5	214	44	3	7	43	1.50

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   52   53   54   55   56   57   58   59   60   61   62