genome.fa.s9625.2.7.7.80.10.50.1000.24.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  24  of  25  ( 2922 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)
6642805--6642990	37	4.9	37	74	13	155	43	5	10	40	1.61
6643008--6643032	2	12.5	2	100	0	50	52	0	0	48	1.00
6643059--6643144	25	3.6	25	69	13	72	39	1	5	53	1.33
6643183--6643214	4	7.8	4	96	3	55	28	0	0	71	0.86
6645231--6645417	35	5.3	35	86	1	248	34	20	21	22	1.97
6646342--6646445	2	54.0	2	77	11	74	44	1	3	50	1.31
6649210--6649483	43	6.3	43	91	2	433	17	28	23	30	1.97
6649210--6649483	87	3.2	87	92	2	446	17	28	23	30	1.97
6650173--6650217	10	4.6	10	80	5	56	42	0	2	55	1.12
6650173--6650246	29	2.6	29	89	2	114	37	0	4	58	1.17
6650173--6650253	3	25.7	3	74	18	58	38	0	3	58	1.16
6650807--6650856	16	3.0	16	80	16	57	54	16	18	12	1.72
6651601--6651636	4	9.2	4	87	6	56	25	0	0	75	0.81
6654625--6654658	17	2.0	17	88	11	52	14	5	8	70	1.31
6660586--6660630	21	2.1	21	84	8	56	17	13	2	66	1.34
6675499--6675588	48	1.9	46	82	8	110	37	25	13	23	1.91
6684227--6684411	29	6.4	29	81	6	160	42	16	4	35	1.70
6684227--6684411	57	3.2	55	77	12	176	42	16	4	35	1.70
6686900--6687266	183	2.0	184	97	0	700	29	25	17	26	1.98
6691867--6692077	29	7.3	29	77	5	117	43	16	4	36	1.68
6692074--6692115	13	3.2	13	96	0	75	14	21	45	19	1.85
6692092--6692126	17	2.0	18	94	5	63	11	22	48	17	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6698726--6698766	19	2.2	19	86	8	57	36	7	14	41	1.74
6706893--6706998	44	2.4	44	91	0	167	45	12	18	23	1.83
6706981--6707014	16	2.1	16	100	0	68	50	11	11	26	1.73
6706937--6707058	60	2.0	60	88	0	181	43	11	17	27	1.83
6706997--6707402	44	9.2	44	88	0	560	40	12	22	24	1.89
6706891--6707102	104	2.0	104	89	0	325	43	12	18	25	1.85
6712334--6712711	54	7.0	53	72	9	241	31	10	17	40	1.83
6712454--6712674	103	2.1	102	81	11	245	30	9	17	42	1.82
6712560--6712772	58	3.7	57	81	6	205	31	10	16	41	1.82
6712560--6712772	115	1.9	115	83	7	281	31	10	16	41	1.82
6712776--6713352	241	2.4	243	89	2	876	31	16	17	35	1.92
6713260--6713442	83	2.2	83	92	0	294	26	19	21	32	1.97
6713264--6713424	42	3.9	42	77	6	166	26	19	21	32	1.97
6713019--6713707	325	2.1	324	86	2	936	29	16	18	35	1.93
6722232--6722284	15	3.4	15	81	5	61	54	24	5	15	1.62
6722407--6722462	18	3.1	19	75	12	55	55	0	5	39	1.23
6723189--6723356	4	40.8	4	70	17	60	70	2	8	18	1.25
6723278--6723385	53	2.0	54	80	5	121	72	3	6	17	1.21
6723374--6723434	21	2.7	23	75	14	65	70	3	9	16	1.27
6723406--6723451	18	2.6	18	77	16	51	69	2	4	23	1.17
6723430--6723486	30	1.9	30	89	7	89	61	0	3	35	1.13
6724011--6724079	30	2.2	33	82	12	83	5	10	23	60	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6724692--6724773	34	2.5	31	77	14	78	45	7	3	43	1.49
6724746--6724805	19	3.1	19	76	11	59	46	5	1	46	1.34
6724717--6725076	37	9.5	35	75	17	246	45	5	3	44	1.46
6725104--6725167	2	32.5	2	96	3	121	50	0	0	50	1.00
6725680--6726665	84	11.9	84	77	4	852	24	20	24	30	1.99
6725709--6726632	249	3.7	248	83	2	1095	24	20	25	29	1.99
6725680--6726665	165	6.0	165	80	4	779	24	20	24	30	1.99
6732196--6732231	3	11.7	3	94	5	63	63	0	2	33	1.08
6732185--6732242	22	2.6	23	78	18	68	58	0	3	37	1.15
6732758--6732826	30	2.2	33	82	12	83	5	10	23	60	1.50
6733438--6733783	32	9.4	34	70	22	96	44	6	3	44	1.47
6733457--6733529	34	2.1	34	80	14	89	42	5	2	49	1.40
6733492--6733554	18	3.0	21	75	17	60	46	4	1	47	1.33
6733498--6733614	47	2.6	45	84	9	150	47	5	3	42	1.44
6733663--6733783	32	3.5	34	84	10	138	43	5	3	47	1.43
6733582--6733803	37	6.1	34	78	14	196	46	6	2	44	1.44
6733619--6733803	38	5.1	33	76	16	147	44	6	3	45	1.45
6733712--6733812	32	2.9	32	75	16	85	45	6	2	44	1.45
6737219--6737300	22	3.7	22	66	6	58	35	19	20	24	1.96
6739894--6739926	14	2.4	14	94	0	57	39	12	12	36	1.80
6744159--6744399	71	3.3	69	82	6	259	32	19	10	36	1.86
6744288--6744397	36	3.1	36	71	5	100	34	18	9	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6744867--6744917	12	4.2	12	71	14	50	27	15	1	54	1.52
6745154--6745203	16	3.1	16	83	11	66	26	0	2	72	0.96
6745152--6745200	24	2.1	23	81	11	55	24	0	2	73	0.94
6748800--6748903	29	3.6	30	78	11	110	33	6	17	42	1.75
6749825--6750116	117	2.5	117	90	2	444	17	17	33	31	1.94
6749825--6750153	117	2.8	116	83	4	268	21	16	31	30	1.95
6756535--6756644	56	2.0	56	87	0	157	26	19	24	30	1.98
6756507--6756689	59	3.2	59	78	4	201	28	19	22	29	1.98
6758609--6758651	6	6.7	6	87	12	59	32	0	0	67	0.91
6758594--6758651	25	2.3	26	84	3	73	32	0	5	62	1.18
6758609--6758651	12	3.3	13	90	9	70	32	0	0	67	0.91
6762066--6763660	211	7.6	211	98	0	3003	33	24	18	23	1.97
6763995--6764293	84	3.6	84	87	0	393	31	24	20	24	1.98
6763925--6764293	168	2.2	161	82	5	427	30	24	20	24	1.98
6765995--6766037	6	6.7	6	87	12	59	32	0	0	67	0.91
6765980--6766037	25	2.3	26	84	3	73	32	0	5	62	1.18
6765995--6766037	12	3.3	13	90	9	70	32	0	0	67	0.91
6769450--6771044	211	7.6	211	98	0	3003	33	24	18	23	1.97
6771379--6771677	84	3.6	84	87	0	393	31	24	20	24	1.98
6771309--6771677	168	2.2	161	82	5	427	30	24	20	24	1.98
6773378--6773420	6	6.7	6	87	12	59	32	0	0	67	0.91
6773363--6773420	25	2.3	26	84	3	73	32	0	5	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6773378--6773420	12	3.3	13	90	9	70	32	0	0	67	0.91
6777200--6777249	19	2.6	19	87	6	75	58	8	14	20	1.61
6780052--6780188	59	2.3	59	87	2	195	28	18	24	28	1.98
6782315--6782383	18	4.1	18	76	17	85	17	47	20	14	1.82
6782337--6782373	13	2.8	13	91	0	65	16	48	21	13	1.80
6782319--6782399	31	2.6	31	90	0	126	17	45	20	16	1.85
6782315--6782405	18	5.2	18	75	16	66	17	46	19	16	1.85
6795268--6795326	29	2.0	29	83	6	75	55	5	10	28	1.54
6795397--6795426	14	2.1	14	93	0	51	66	3	0	30	1.07
6799142--6799170	12	2.3	13	94	5	51	68	3	0	27	1.05
6800572--6800619	19	2.5	21	83	16	68	75	2	0	22	0.91
6800661--6800938	36	7.6	36	87	5	307	43	7	3	44	1.49
6800661--6800938	39	7.6	37	86	6	317	43	7	3	44	1.49
6802208--6802298	36	2.5	36	85	0	128	29	10	16	42	1.82
6802383--6802471	26	3.2	26	63	25	63	35	5	23	34	1.79
6802352--6802471	59	2.0	59	100	0	240	36	5	23	35	1.77
6811664--6811819	65	2.4	64	81	5	163	31	20	21	26	1.98
6813920--6813953	13	2.6	13	95	0	59	41	5	17	35	1.74
6814422--6814537	44	2.7	43	79	2	124	31	21	18	28	1.97
6821947--6822102	65	2.4	65	83	7	185	29	17	24	28	1.97
6830629--6831388	111	7.0	110	75	12	624	36	11	16	34	1.86
6830631--6830962	56	6.0	55	93	1	565	37	12	15	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6830924--6831003	39	2.1	39	97	0	151	37	11	16	35	1.84
6830963--6831388	56	7.7	56	90	1	669	36	11	16	35	1.85
6830631--6831382	261	2.8	266	88	7	1052	36	11	16	34	1.85
6831679--6831766	46	1.9	46	90	0	140	48	9	18	23	1.76
6833072--6833112	13	3.2	13	80	13	50	80	0	0	19	0.71
6833068--6833118	18	2.8	17	82	11	66	80	0	0	19	0.71
6833076--6833118	12	3.6	11	81	12	50	81	0	0	18	0.69
6836728--6836765	16	2.3	17	86	4	51	18	7	0	73	1.06
6838153--6838190	13	2.9	13	88	0	58	21	34	34	10	1.87
6838250--6838323	37	2.0	37	92	5	123	21	27	22	28	1.99

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