genome.fa.s8094.2.7.7.80.10.50.1000.33.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  33  of  43  ( 5090 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)
7011896--7012001	36	2.9	36	84	2	131	43	3	8	44	1.52
7012008--7012071	3	20.7	3	81	12	76	31	1	0	67	1.00
7018561--7018696	70	2.0	69	88	1	200	36	19	21	23	1.95
7018631--7018855	85	2.7	85	86	2	312	37	18	18	25	1.93
7018631--7018884	85	3.0	84	82	6	309	35	18	18	27	1.94
7019455--7019495	15	2.6	16	88	3	57	39	7	7	46	1.60
7019514--7019538	12	2.1	12	100	0	50	40	0	8	52	1.31
7019473--7019632	36	4.2	37	77	8	137	43	3	8	44	1.51
7019640--7019712	3	23.7	3	77	15	69	28	1	1	68	1.06
7019637--7019713	26	3.0	25	80	12	84	27	1	1	70	1.03
7021046--7021111	26	2.6	26	83	9	75	15	4	4	75	1.12
7026330--7026731	85	4.8	84	84	3	486	35	20	17	26	1.95
7026358--7026731	168	2.2	170	85	2	495	35	21	17	26	1.95
7027353--7027398	23	2.0	23	86	4	65	41	4	8	45	1.55
7027365--7027515	36	4.1	36	81	3	160	41	3	9	45	1.55
7027515--7027582	13	5.5	13	81	10	88	32	1	0	66	1.01
7027515--7027592	3	24.7	3	77	14	77	30	2	0	66	1.05
7027510--7027581	23	3.1	22	81	15	83	30	1	0	68	0.99
7027515--7027592	10	8.2	9	78	13	77	30	2	0	66	1.05
7028714--7028814	8	12.6	8	71	14	57	13	7	0	77	1.04
7028714--7028827	16	6.9	16	70	15	81	13	7	1	77	1.06
7028894--7028928	4	8.8	4	100	0	70	22	0	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7029899--7029927	6	4.8	6	100	0	58	48	0	0	51	1.00
7032307--7032385	35	2.3	35	86	2	115	41	25	0	32	1.56
7032325--7032401	35	2.2	35	83	4	93	41	25	1	31	1.64
7032885--7033181	148	2.0	147	92	2	497	48	9	5	36	1.59
7033347--7033426	35	2.3	35	89	4	117	36	0	20	43	1.52
7040418--7040574	64	2.5	64	81	4	165	33	18	18	29	1.95
7043151--7043244	29	3.1	30	70	23	81	41	5	18	35	1.73
7043123--7043276	60	2.6	58	84	4	200	44	3	18	33	1.68
7043558--7043657	48	2.1	48	88	7	150	42	24	12	22	1.87
7048488--7048516	14	2.0	15	93	6	51	48	0	27	24	1.51
7049291--7049377	43	2.0	43	95	0	156	44	9	10	35	1.70
7052610--7052676	34	1.9	34	82	14	84	20	13	19	46	1.83
7054816--7054856	21	1.9	22	90	5	66	31	12	14	41	1.83
7058194--7058267	38	1.9	38	86	10	107	39	10	18	31	1.86
7063581--7063805	64	3.5	64	81	6	233	33	19	19	27	1.96
7064604--7064666	23	2.7	23	90	0	90	19	26	26	26	1.99
7069176--7069227	19	2.7	19	96	0	95	30	17	25	26	1.97
7069112--7069274	83	2.0	83	86	4	231	33	17	20	28	1.95
7069193--7069355	64	2.5	65	82	7	208	34	20	19	25	1.96
7070145--7070207	23	2.7	23	92	0	99	19	28	26	25	1.98
7078377--7078402	9	2.9	9	100	0	52	11	23	34	30	1.90
7078429--7078463	13	2.7	13	86	0	52	17	45	20	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7078407--7078478	18	4.3	18	74	16	82	16	47	20	15	1.83
7078411--7078478	31	2.2	31	89	0	109	16	45	22	16	1.85
7078447--7078511	10	7.5	8	78	16	60	15	36	24	23	1.93
7078468--7078501	15	2.1	16	89	10	52	11	35	26	26	1.91
7080983--7081084	24	4.2	24	75	5	89	20	16	16	46	1.85
7083143--7083201	18	3.3	18	90	0	100	18	47	22	11	1.81
7083191--7083224	15	2.3	15	100	0	68	11	35	26	26	1.91
7083188--7083242	8	6.5	8	85	12	67	14	34	25	25	1.94
7085700--7085806	24	4.5	24	75	0	106	21	13	16	48	1.80
7086878--7086984	46	2.3	46	81	13	132	33	18	18	28	1.95
7092828--7092922	44	2.2	44	87	7	133	27	24	23	25	2.00
7092847--7092923	21	3.5	22	78	5	93	24	22	27	25	2.00
7092846--7092948	43	2.4	42	78	12	111	27	24	25	23	2.00
7093602--7093649	22	2.2	22	92	3	80	29	0	47	22	1.51
7094108--7094159	19	2.7	19	96	0	95	30	32	17	19	1.95
7094042--7094195	84	1.8	83	83	6	204	30	23	18	27	1.98
7094974--7094998	12	2.1	12	100	0	50	48	8	36	8	1.62
7105712--7105755	22	2.0	23	86	4	63	31	13	27	27	1.94
7106124--7106489	165	2.2	165	87	1	511	31	20	17	30	1.95
7106118--7106489	55	6.8	55	86	2	455	31	20	17	30	1.95
7106450--7106530	40	2.0	40	100	0	162	32	17	17	33	1.93
7115544--7115596	24	2.2	24	89	0	79	9	9	15	66	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7117463--7117536	22	3.7	20	79	12	80	28	16	29	25	1.97
7117411--7117594	94	1.9	95	91	1	298	31	16	23	27	1.96
7117411--7117629	95	2.3	94	85	2	260	31	15	24	28	1.96
7144580--7144632	21	2.5	21	93	0	88	26	20	20	32	1.98
7146367--7146422	20	2.7	21	77	2	60	25	25	23	26	2.00
7146651--7146681	13	2.4	13	94	0	53	16	25	9	48	1.76
7151169--7151221	26	2.1	25	86	6	72	62	13	15	9	1.54
7151214--7151244	14	2.2	14	94	0	53	80	0	19	0	0.71
7159334--7159375	21	2.0	22	90	4	68	28	21	23	26	1.99
7159332--7159416	24	3.7	24	75	10	70	32	22	18	25	1.97
7160370--7160414	21	2.2	21	88	4	65	46	22	6	24	1.75
7163577--7163629	27	2.0	27	85	3	72	43	11	7	37	1.69
7170258--7170310	26	2.1	25	86	6	72	62	13	15	9	1.54
7176366--7176409	23	1.9	23	85	0	61	34	6	6	52	1.55
7177473--7177514	21	2.0	22	90	4	68	28	21	23	26	1.99
7177472--7177555	24	3.7	22	79	4	80	32	21	20	26	1.98
7178510--7178562	21	2.6	20	82	5	70	43	24	7	24	1.80
7184761--7184806	20	2.2	20	84	3	56	23	26	21	28	1.99
7189891--7189921	14	2.2	14	94	0	53	80	0	19	0	0.71
7195935--7195978	23	1.9	23	85	0	61	34	6	6	52	1.55
7198024--7198065	21	2.0	22	90	4	68	28	21	23	26	1.99
7198022--7198106	24	3.7	24	75	10	70	31	22	18	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7199061--7199113	21	2.6	20	82	5	70	43	24	7	24	1.80
7205705--7205766	18	3.4	18	71	28	51	69	1	6	22	1.20
7207394--7207443	21	2.5	20	83	6	64	28	16	30	26	1.96
7212988--7213042	26	2.2	25	78	12	60	41	10	7	40	1.68
7220267--7220308	8	5.7	7	91	8	50	52	0	0	47	1.00
7220272--7220306	2	18.0	2	94	5	63	51	0	0	48	1.00
7220293--7220343	20	2.5	20	78	15	59	43	1	11	43	1.52
7220950--7221015	2	34.0	2	72	17	50	54	1	3	40	1.25
7220950--7221039	24	3.8	23	78	11	92	52	4	2	41	1.34
7220950--7221214	14	19.8	14	68	20	67	50	3	7	38	1.48
7221143--7221225	20	4.9	16	72	20	55	50	2	7	39	1.43
7221138--7221365	37	6.2	37	67	19	111	49	3	7	39	1.47
7221088--7221361	91	3.0	88	77	14	243	48	3	6	40	1.47
7221152--7221276	2	61.0	2	69	21	64	48	4	3	44	1.40
7221306--7221501	8	25.9	8	71	21	83	51	0	9	38	1.38
7221152--7221361	99	2.1	95	79	12	228	49	3	5	40	1.45
7221410--7221470	12	4.6	14	79	18	51	54	0	11	34	1.37
7221427--7221509	6	13.2	6	77	9	58	54	0	6	39	1.25
7221397--7221457	28	2.1	30	84	6	81	54	0	11	34	1.37
7221466--7221494	2	15.0	2	92	7	51	48	0	0	51	1.00
7222739--7222858	25	5.2	23	77	16	97	55	2	8	34	1.44
7222739--7222888	43	3.3	45	80	13	150	54	2	8	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7222739--7222877	21	6.2	22	78	14	142	54	2	7	34	1.44
7222785--7222882	35	2.8	36	77	11	105	53	2	9	35	1.45
7222739--7222854	50	2.5	47	86	10	152	55	2	7	34	1.43
7222817--7222892	26	2.8	26	78	20	68	52	1	7	38	1.39
7222776--7222951	22	8.2	21	73	16	105	52	2	7	37	1.44
7222653--7222894	28	8.9	27	69	18	105	53	3	7	35	1.45
7222993--7223079	22	4.0	21	79	8	84	34	10	2	52	1.48
7222969--7223276	73	4.1	74	72	21	254	38	8	1	50	1.44
7223144--7223213	31	2.3	30	83	9	81	42	8	0	48	1.33
7223146--7223367	28	8.0	27	70	16	127	39	5	3	51	1.44

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