genome.fa.s8245.2.7.7.80.10.50.1000.32.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  32  of  33  ( 3922 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)
6225380--6225449	27	2.5	28	86	6	90	67	11	11	10	1.43
6226444--6226528	40	2.2	39	82	17	106	64	0	10	24	1.25
6226444--6226528	39	2.2	40	82	17	108	64	0	10	24	1.25
6227187--6227236	23	2.2	23	92	0	82	38	8	22	32	1.83
6227150--6227312	87	1.9	87	96	0	299	41	12	13	33	1.82
6227328--6227820	200	2.5	198	86	4	654	31	15	14	38	1.87
6227647--6227992	177	1.9	178	84	4	466	32	13	13	40	1.83
6231014--6231441	199	2.2	200	90	2	666	32	16	13	38	1.87
6231992--6232028	18	2.1	18	89	0	56	51	10	5	32	1.60
6233038--6233076	3	13.0	3	83	0	51	33	33	2	30	1.72
6234239--6234291	15	3.7	15	73	14	58	30	9	35	24	1.87
6234241--6234306	27	2.4	27	89	2	105	31	12	31	24	1.92
6234596--6235139	187	2.8	191	80	9	543	32	16	13	38	1.87
6235948--6236044	48	2.0	48	100	0	194	38	16	2	43	1.60
6236848--6236891	21	2.1	21	91	0	70	15	34	9	40	1.79
6237745--6237825	40	2.0	40	100	0	162	32	43	7	17	1.77
6238565--6238638	19	3.8	19	68	10	60	36	16	1	45	1.56
6239243--6239276	17	1.9	17	88	5	50	29	2	20	47	1.65
6239997--6240090	48	2.0	48	95	0	170	45	4	2	47	1.34
6240936--6240985	24	2.1	24	92	0	82	44	4	4	48	1.40
6243748--6243920	2	93.5	2	68	22	94	39	0	3	56	1.16
6243775--6243935	21	7.4	23	68	23	91	38	0	2	59	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6243719--6243929	23	9.1	23	69	16	89	37	0	3	58	1.16
6243747--6243935	5	38.0	5	71	20	105	39	0	3	57	1.15
6243778--6243935	40	3.9	39	73	21	121	38	0	2	58	1.11
6248631--6248699	27	2.5	28	83	2	86	68	11	11	8	1.40
6249687--6249837	49	3.0	48	80	11	155	67	1	8	22	1.25
6249724--6249908	100	1.8	99	80	6	221	65	2	7	24	1.32
6250304--6250370	31	2.2	31	86	5	91	20	28	13	37	1.91
6255440--6255480	21	2.0	21	85	0	55	39	17	14	29	1.89
6256210--6256263	21	2.5	22	82	11	67	25	20	16	37	1.93
6257782--6257825	17	2.6	17	85	7	63	56	29	0	13	1.38
6259796--6259858	20	2.9	20	81	13	56	17	25	36	20	1.94
6263802--6263841	20	2.0	21	85	9	57	27	12	5	55	1.58
6264953--6264997	22	2.0	22	100	0	90	37	13	17	31	1.89
6265741--6265789	2	24.5	2	100	0	98	48	0	0	51	1.00
6266042--6266071	15	2.0	15	93	0	51	36	26	23	13	1.92
6268901--6269050	60	2.5	60	80	8	146	46	1	17	35	1.57
6270310--6270343	17	2.1	16	88	5	50	17	11	5	64	1.45
6270649--6270763	21	5.6	21	72	4	117	20	19	25	34	1.96
6270645--6270786	41	3.5	41	99	0	275	19	19	23	36	1.95
6270673--6270783	20	5.4	20	74	4	114	17	20	24	37	1.93
6270775--6270824	22	2.3	22	92	0	91	16	18	28	38	1.91
6271497--6271709	20	10.8	20	71	8	177	38	23	21	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6271537--6271651	21	5.6	21	71	4	108	35	25	18	20	1.95
6271517--6271705	41	4.8	41	90	4	293	37	23	20	17	1.94
6271497--6271712	61	3.6	61	73	6	169	38	23	20	17	1.93
6271639--6271705	34	2.0	34	90	0	107	38	23	22	14	1.92
6271732--6271774	19	2.3	19	95	0	77	39	16	18	25	1.91
6271732--6271783	19	2.7	19	90	0	68	38	17	19	25	1.93
6278556--6278594	14	3.0	13	85	7	53	58	0	2	38	1.12
6278555--6278587	14	2.4	14	94	0	57	66	0	3	30	1.06
6287097--6287139	19	2.5	16	78	14	50	34	0	0	65	0.93
6287479--6287517	18	2.2	18	85	0	51	58	12	2	25	1.47
6288095--6288189	29	3.3	29	85	2	120	43	17	6	32	1.75
6292347--6292374	8	3.5	8	100	0	56	89	0	10	0	0.49
6294276--6294548	42	6.6	42	71	9	177	32	19	15	33	1.92
6294367--6294487	41	3.0	41	76	4	118	30	21	17	30	1.96
6294269--6294515	83	3.0	82	76	10	211	32	19	15	32	1.93
6294300--6294544	82	3.0	82	73	12	223	31	20	15	33	1.93
6297069--6297114	21	2.2	21	88	0	65	52	19	10	17	1.74
6300406--6300453	22	2.2	22	92	0	78	41	10	16	31	1.82
6301982--6302029	18	2.7	17	81	9	51	72	2	4	20	1.11
6303576--6303909	44	7.6	44	68	5	163	27	17	22	32	1.97
6303576--6303922	132	2.6	131	91	1	543	28	17	22	31	1.96
6303932--6304196	118	2.3	115	88	3	388	27	21	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6304629--6304941	39	8.0	39	84	4	382	35	15	19	29	1.93
6304625--6304936	78	4.0	78	86	4	432	35	15	19	29	1.92
6304654--6304938	117	2.4	117	89	3	423	36	16	19	28	1.93
6304943--6305151	40	5.5	39	67	12	121	39	13	15	31	1.86
6304894--6305199	150	2.1	148	84	7	399	38	14	15	31	1.87
6304944--6305197	76	3.4	76	86	6	340	40	12	15	31	1.86
6304894--6305231	76	4.6	75	80	12	319	38	14	16	30	1.88
6323546--6323576	16	1.9	16	93	0	53	38	3	12	45	1.59
6325574--6325695	51	2.5	48	78	15	124	62	7	10	19	1.51
6327679--6327815	41	3.3	41	69	15	127	29	16	20	34	1.94
6345964--6346106	71	2.0	71	100	0	286	34	9	22	32	1.87
6346413--6346451	12	3.2	12	79	13	53	28	12	23	35	1.91
6346397--6346512	24	4.8	24	88	4	162	26	14	18	39	1.90
6351487--6351602	24	4.8	24	89	4	162	25	15	18	40	1.90
6356916--6357031	24	4.8	24	90	4	162	25	14	19	40	1.90
6358353--6358477	45	2.8	45	86	3	162	30	22	7	40	1.81
6362623--6362796	91	1.9	91	85	4	244	47	13	11	27	1.77
6362883--6362907	3	8.3	3	100	0	50	68	32	0	0	0.90
6374274--6374340	11	5.9	11	77	11	64	17	4	0	77	0.93
6374300--6374372	16	4.7	15	79	14	69	12	9	0	78	0.98
6374313--6374372	7	7.6	8	92	7	81	11	11	0	76	1.02
6374324--6374373	7	6.9	7	95	4	82	12	14	0	74	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6374314--6374373	30	2.0	30	90	9	95	11	13	0	75	1.06
6377590--6377658	24	2.9	24	80	4	77	18	11	15	53	1.72
6382092--6382183	48	1.9	48	82	4	114	19	13	16	51	1.77
6382088--6382168	24	3.4	24	82	3	92	20	14	16	48	1.81
6382116--6382183	24	2.8	24	84	0	82	17	11	16	54	1.71
6382343--6382409	2	33.5	2	100	0	134	49	0	0	50	1.00
6389966--6390003	19	2.0	20	89	5	60	60	7	13	18	1.56
6402101--6402132	15	2.1	15	94	0	55	50	0	6	43	1.27
6406337--6406378	21	2.0	21	81	9	50	54	4	2	38	1.34
6409936--6409966	14	2.2	14	94	0	53	61	0	3	35	1.12
6410189--6410290	42	2.5	41	80	12	111	27	19	20	32	1.97
6410553--6410612	17	3.3	17	71	24	59	18	25	10	46	1.79
6410551--6410647	38	2.5	39	93	1	160	21	24	11	42	1.86
6411808--6411855	15	3.1	15	79	11	53	6	12	2	79	1.01
6420273--6420358	31	2.8	30	85	3	109	24	19	18	37	1.94
6420782--6420835	18	2.9	18	91	5	81	33	1	24	40	1.66
6428144--6428178	3	11.7	3	100	0	70	65	0	0	34	0.93
6428323--6428364	18	2.3	18	91	4	66	21	4	0	73	1.01
6432431--6432471	3	13.7	3	90	10	66	36	0	0	63	0.95
6438271--6438572	151	2.0	152	93	5	524	38	23	16	22	1.93
6446587--6446709	36	3.4	36	85	5	151	34	17	9	38	1.82
6446587--6446725	36	3.8	35	81	11	145	35	17	8	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6446997--6447103	36	3.1	35	67	17	89	25	19	14	41	1.89
6446854--6447143	64	4.4	64	76	8	235	26	19	12	42	1.86
6447146--6447399	131	1.9	131	87	1	375	27	33	16	22	1.96
6449212--6449265	2	27.0	2	100	0	108	50	0	0	50	1.00
6450364--6450420	18	3.2	18	69	20	57	52	7	3	36	1.46
6450370--6450421	17	2.9	19	72	21	58	55	5	3	34	1.42
6451450--6451493	20	2.2	20	100	0	88	40	22	9	27	1.84
6456603--6456665	28	2.2	28	86	8	83	39	0	4	55	1.21
6470518--6470560	8	5.2	8	91	2	68	83	0	2	13	0.74
6470507--6470570	24	2.6	26	73	11	64	76	0	9	14	1.01

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