genome.fa.s8620.2.7.7.80.10.50.1000.45.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  45  of  64  ( 7674 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)
9027032--9027089	24	2.4	25	80	13	68	39	6	8	44	1.62
9027082--9027172	2	43.0	2	69	18	51	42	5	3	48	1.42
9027071--9027105	18	1.9	18	94	0	61	48	5	2	42	1.41
9027071--9027179	20	5.6	20	76	8	82	44	6	2	46	1.43
9027081--9027169	7	13.1	7	75	11	53	41	5	3	49	1.43
9027102--9027179	27	2.9	27	82	3	68	42	6	2	48	1.42
9027225--9027296	27	2.7	27	78	4	74	43	6	2	47	1.45
9027265--9027299	15	2.4	14	95	4	61	45	5	0	48	1.26
9027363--9027629	18	15.8	16	69	20	72	45	6	6	41	1.55
9027416--9027449	13	2.6	13	90	0	50	55	5	2	35	1.39
9027420--9027500	32	2.6	31	86	5	101	50	4	4	39	1.46
9027433--9027654	104	2.2	101	90	2	336	44	6	6	42	1.57
9027434--9027655	51	4.3	51	88	4	322	44	6	6	42	1.57
9027433--9027708	104	2.7	104	82	7	226	45	5	6	41	1.55
9027717--9027851	61	2.2	61	87	0	189	46	5	11	36	1.64
9028077--9028286	103	2.0	104	84	5	273	32	27	6	33	1.82
9028458--9028594	6	22.7	6	84	1	130	45	43	3	7	1.49
9030694--9030740	23	2.1	23	88	4	69	27	10	23	38	1.88
9031488--9031527	19	2.0	22	85	14	59	40	15	15	30	1.87
9032046--9032093	19	2.6	17	76	20	51	56	0	2	41	1.11
9033695--9033759	27	2.4	27	87	5	87	24	1	26	47	1.61
9033799--9033946	7	20.4	7	69	13	68	24	0	27	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9033856--9033946	15	6.2	14	75	7	74	21	0	28	49	1.50
9033856--9033932	22	3.5	21	77	7	73	20	0	29	49	1.49
9034361--9034433	36	2.0	37	81	7	87	23	4	23	49	1.67
9034418--9034469	15	3.5	14	75	12	50	15	1	34	48	1.56
9034396--9034469	23	3.4	22	78	7	71	18	1	31	48	1.57
9034396--9034469	7	10.3	7	73	11	51	18	1	31	48	1.57
9034589--9034664	29	2.7	27	80	8	73	22	0	21	56	1.42
9034618--9034745	15	8.7	15	70	17	74	19	1	22	56	1.51
9034609--9034664	15	4.0	14	82	13	62	21	0	21	57	1.41
9034719--9034902	7	25.6	7	69	16	74	20	1	22	54	1.53
9034697--9034895	44	4.6	43	73	9	138	20	1	22	55	1.51
9034755--9034894	28	4.9	28	78	14	133	20	0	22	56	1.47
9038534--9038576	22	2.0	22	95	0	77	30	23	9	37	1.86
9042057--9042105	23	2.1	23	85	7	64	26	2	14	57	1.48
9045080--9045135	21	2.8	20	78	21	57	58	12	0	28	1.34
9051399--9051553	65	2.4	64	83	3	195	30	14	22	31	1.94
9051894--9051971	22	3.5	23	76	10	72	19	2	23	55	1.55
9051933--9052025	27	3.3	27	84	4	105	21	0	25	52	1.47
9051933--9052111	14	12.6	14	71	8	85	20	0	28	50	1.53
9051988--9052049	22	2.9	21	76	7	61	20	0	25	53	1.46
9052195--9052239	22	2.1	21	91	4	72	17	0	31	51	1.46
9052669--9052727	28	2.2	28	84	6	77	44	18	0	37	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9052953--9053043	30	3.0	30	85	0	119	28	37	9	24	1.87
9053621--9053654	10	3.2	10	88	12	50	2	20	0	76	0.92
9053927--9053963	17	2.1	19	85	10	51	27	0	5	67	1.12
9054334--9054413	3	27.0	3	85	7	110	31	0	0	68	0.90
9056067--9056340	143	1.9	143	87	5	374	38	7	8	46	1.61
9056832--9056889	28	2.1	28	87	6	84	32	5	0	62	1.18
9058291--9058377	43	2.0	44	88	2	131	29	11	24	34	1.90
9060922--9061108	72	2.4	76	83	7	211	28	19	17	35	1.94
9065517--9065589	22	3.3	21	88	7	110	35	16	12	35	1.86
9066106--9066155	17	2.9	17	72	0	55	52	6	24	18	1.67
9065989--9066284	107	2.7	110	85	7	413	37	14	21	26	1.92
9066212--9066275	20	3.2	20	65	18	53	43	10	23	21	1.84
9066489--9066721	116	2.0	116	94	0	403	38	20	12	28	1.89
9067005--9067045	6	7.0	6	83	10	50	21	0	0	78	0.76
9067005--9067047	23	1.9	22	95	4	77	23	0	0	76	0.78
9067006--9067079	9	8.3	9	77	8	80	31	0	0	68	0.89
9067006--9067079	12	6.2	12	84	9	80	31	0	0	68	0.89
9068341--9068365	13	1.9	13	100	0	50	32	4	8	56	1.47
9080581--9080657	31	2.5	31	95	0	145	35	18	15	31	1.92
9085510--9085622	24	4.7	24	80	4	95	43	18	13	24	1.86
9085527--9085618	48	1.9	48	82	4	114	40	18	16	25	1.91
9090006--9090099	24	3.9	24	77	0	80	44	17	11	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9093643--9093702	3	20.0	3	100	0	120	33	0	0	66	0.92
9094953--9094998	20	2.2	22	88	7	69	52	0	2	45	1.13
9094954--9094995	11	3.9	11	78	15	52	50	0	2	47	1.14
9095028--9095054	14	1.9	14	100	0	54	51	0	7	40	1.30
9096659--9097023	183	2.0	184	87	2	536	20	22	16	40	1.91
9096885--9097054	50	3.5	50	67	18	131	20	25	15	39	1.91
9096650--9097048	96	4.2	96	85	6	539	19	22	16	40	1.91
9097192--9097276	20	4.3	20	90	3	136	41	23	15	20	1.90
9097192--9097276	39	2.2	40	93	2	145	41	23	15	20	1.90
9111523--9111597	21	3.4	21	80	12	80	53	2	0	44	1.14
9111544--9111593	20	2.4	22	86	10	77	54	0	0	46	1.00
9111618--9111657	15	2.7	15	88	3	55	55	2	2	40	1.27
9111619--9111657	7	5.4	7	84	6	51	53	2	2	41	1.28
9115859--9115919	27	2.3	27	83	8	72	40	3	0	55	1.16
9129174--9129221	21	2.3	21	82	7	53	33	6	16	43	1.73
9135918--9135957	21	2.0	21	85	5	55	52	10	12	25	1.70
9136265--9136343	38	2.1	38	95	0	140	46	8	25	18	1.78
9141571--9141645	2	37.5	2	100	0	150	49	0	0	50	1.00
9143761--9143874	35	3.3	35	91	4	187	30	5	18	45	1.71
9148226--9148289	21	3.4	20	66	29	59	31	4	18	45	1.70
9148220--9148320	35	2.9	35	92	4	168	31	5	17	44	1.73
9152040--9152094	7	8.0	7	79	16	62	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9152027--9152092	29	2.4	28	80	9	82	71	1	1	25	1.04
9157304--9157357	24	2.3	23	83	3	63	44	22	12	20	1.85
9161149--9161198	9	5.6	9	75	17	50	36	14	14	36	1.86
9161145--9161198	18	3.0	18	91	0	90	37	14	14	33	1.88
9167690--9167743	23	2.3	23	83	0	72	22	12	20	44	1.85
9168345--9168384	20	2.0	20	90	0	62	55	0	0	45	0.99
9168840--9168901	32	1.9	32	86	0	88	35	37	3	24	1.72
9169886--9169939	27	2.0	27	100	0	108	37	14	11	37	1.82
9171721--9171773	21	2.5	22	84	9	74	30	28	11	30	1.91
9177553--9177790	81	2.9	81	84	9	308	32	15	20	31	1.93
9177560--9177788	41	5.6	41	72	17	163	31	15	21	31	1.95
9177598--9177746	40	3.7	41	70	19	118	31	14	22	32	1.93
9182455--9182523	21	3.2	21	67	15	59	31	20	17	30	1.95
9182408--9182523	44	2.7	44	81	7	132	31	20	19	28	1.97
9188287--9188442	65	2.4	63	83	7	179	31	17	21	28	1.97
9190503--9190647	20	7.1	20	80	7	175	21	35	28	14	1.93
9190503--9190647	21	7.0	21	80	5	163	21	35	28	14	1.93
9190508--9190647	41	3.4	40	82	11	167	21	35	28	15	1.93
9193986--9194115	22	6.0	22	80	6	142	19	40	24	16	1.91
9199515--9199573	21	2.8	21	94	0	100	20	5	25	49	1.69
9200637--9200679	2	21.5	2	100	0	86	48	0	0	51	1.00
9202780--9202823	22	2.0	22	86	0	61	63	9	0	27	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9203538--9203578	22	1.9	21	95	5	73	65	0	12	21	1.25
9203538--9203599	22	2.9	21	85	4	70	69	0	12	17	1.19
9204489--9204727	38	6.5	39	79	15	249	42	7	4	45	1.54
9204555--9204607	12	4.0	12	73	21	52	41	9	5	43	1.61
9204553--9204616	29	2.2	29	97	2	119	40	9	4	45	1.57
9204489--9204690	106	1.9	106	87	4	300	43	7	4	45	1.52
9204620--9204672	27	2.0	27	85	7	72	45	7	0	47	1.31
9204733--9204768	16	2.2	16	100	0	72	66	0	22	11	1.22
9205604--9205644	15	2.7	15	88	0	55	9	39	31	19	1.84
9205774--9205840	23	2.8	24	81	6	82	71	0	0	28	0.86

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   63   64