genome.fa.s7923.2.7.7.80.10.50.1000.39.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  39  of  40  ( 4704 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)
8106857--8106916	19	2.9	20	76	20	61	25	1	3	70	1.12
8107153--8107196	20	2.2	20	83	4	52	27	20	27	25	1.99
8107374--8107413	18	2.4	17	88	12	57	60	0	0	40	0.97
8117843--8117891	21	2.4	21	80	12	59	57	10	18	14	1.65
8118115--8118179	31	2.1	31	85	5	87	30	9	9	50	1.65
8118119--8118191	31	2.4	31	80	0	83	28	10	12	47	1.75
8121150--8121194	22	2.0	22	83	8	56	68	2	0	28	1.01
8121214--8121302	27	3.3	27	98	0	169	34	20	10	34	1.86
8133045--8133122	21	3.8	21	80	9	72	23	34	25	16	1.95
8135419--8135470	13	3.7	13	72	18	50	40	13	3	42	1.62
8135410--8135470	30	2.0	30	96	0	113	37	11	3	47	1.56
8154161--8154226	33	2.0	33	90	0	105	18	4	21	56	1.59
8157890--8157945	22	2.5	22	85	5	78	30	3	1	64	1.21
8157934--8157958	13	1.9	13	100	0	50	48	4	0	48	1.20
8157974--8158000	13	2.1	13	100	0	54	48	0	14	37	1.45
8158100--8158135	12	3.0	12	87	0	54	38	0	0	61	0.96
8161745--8161776	13	2.5	13	94	0	55	34	21	12	31	1.91
8172343--8172446	34	3.1	33	84	2	129	25	27	15	30	1.96
8172852--8172914	21	3.0	21	90	0	99	15	26	38	19	1.92
8179791--8179833	22	2.0	22	85	0	59	23	16	30	30	1.96
8183221--8183546	162	2.0	163	99	0	645	36	18	19	25	1.94
8183728--8183878	74	2.0	76	92	2	252	56	7	19	17	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8186007--8186080	31	2.4	30	82	10	87	36	13	25	24	1.92
8186386--8186437	24	2.2	23	83	10	61	26	0	5	67	1.13
8194819--8194882	30	2.1	30	82	0	74	35	26	18	18	1.94
8195037--8195072	17	2.0	19	89	10	58	38	11	5	44	1.63
8195496--8195643	64	2.4	62	83	10	167	28	16	20	34	1.95
8201832--8202340	108	4.6	107	73	7	419	40	13	11	34	1.81
8202842--8202913	23	3.1	23	85	0	90	34	15	15	34	1.89
8202926--8202995	34	2.1	34	100	0	140	38	17	8	35	1.80
8209143--8209376	74	3.2	73	77	10	226	34	13	11	40	1.80
8209900--8209966	21	3.3	21	75	8	75	19	22	25	32	1.97
8209906--8209964	19	3.0	19	77	5	64	20	20	25	33	1.97
8210047--8210123	11	7.1	11	85	8	97	28	54	16	0	1.43
8210065--8210123	5	11.2	5	85	10	82	25	55	18	0	1.42
8210043--8210123	16	4.9	16	89	6	110	29	54	16	0	1.42
8210724--8210860	42	3.3	42	89	0	220	37	22	18	21	1.94
8210749--8210866	21	5.6	21	72	15	100	34	23	20	21	1.96
8211129--8211170	2	20.5	2	85	4	57	47	4	0	47	1.23
8216937--8216963	13	2.1	13	100	0	54	7	22	22	48	1.75
8225142--8225168	2	13.5	2	100	0	54	48	0	51	0	1.00
8228227--8228277	20	2.5	20	87	3	66	52	0	1	45	1.12
8228227--8228295	19	3.5	19	82	7	66	52	0	1	46	1.09
8228903--8228927	12	2.1	12	100	0	50	32	24	16	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8232030--8232080	20	2.5	19	77	20	50	49	1	0	49	1.12
8232011--8232089	21	3.2	26	73	24	80	51	2	0	45	1.14
8235751--8235776	2	13.0	2	100	0	52	50	0	0	50	1.00
8237068--8237099	6	5.3	6	100	0	64	31	53	15	0	1.43
8244458--8244507	19	2.6	19	93	0	82	26	28	14	32	1.94
8244582--8244630	18	2.7	18	100	0	98	28	26	18	26	1.98
8244683--8244735	20	2.5	21	84	6	63	35	20	18	24	1.95
8246795--8246855	29	2.1	30	84	3	79	37	4	21	36	1.75
8248369--8248411	17	2.5	17	96	0	77	27	0	18	53	1.45
8248580--8248628	24	2.0	24	96	0	89	34	12	12	40	1.80
8249689--8249736	20	2.4	20	89	0	69	35	16	22	25	1.95
8249902--8249940	20	1.9	20	84	5	51	41	35	10	12	1.77
8250491--8250531	14	3.1	14	89	6	59	26	19	31	21	1.97
8250493--8250532	12	3.1	13	85	10	55	30	20	30	20	1.97
8251332--8251459	31	4.1	31	79	6	141	31	21	17	29	1.96
8251333--8251456	63	2.0	62	87	4	178	29	20	18	30	1.97
8251725--8251812	32	2.8	31	76	6	90	30	20	9	39	1.83
8256492--8256656	29	5.8	28	84	4	134	34	4	18	41	1.72
8256492--8256647	28	5.5	28	84	4	170	33	5	19	41	1.74
8256492--8256647	57	2.7	55	80	7	168	33	5	19	41	1.74
8263693--8263867	29	6.1	28	84	7	185	34	4	19	41	1.72
8263693--8263867	57	3.1	56	79	9	178	34	4	19	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8263716--8263867	28	5.3	29	85	6	134	34	4	19	41	1.72
8264563--8264683	48	2.5	48	97	0	233	23	19	16	41	1.90
8264591--8264664	24	3.1	24	76	0	94	25	16	17	40	1.90
8265155--8265179	2	12.5	2	100	0	50	52	0	0	48	1.00
8268607--8268634	6	4.7	6	100	0	56	35	0	50	14	1.43
8272317--8272358	20	2.1	20	90	0	66	33	28	19	19	1.96
8277690--8277746	3	20.0	3	78	10	66	64	1	0	33	1.04
8277675--8277746	29	2.6	28	84	4	83	63	1	0	34	1.03
8277701--8277755	14	4.0	14	81	9	60	70	0	0	29	0.87
8278106--8278165	17	3.2	17	70	20	57	20	23	8	48	1.76
8278343--8278615	36	7.5	36	70	8	185	38	12	17	31	1.86
8278319--8278615	73	4.1	73	87	2	382	38	11	17	32	1.86
8278319--8278615	146	2.0	146	88	3	438	38	11	17	32	1.86
8284039--8284076	8	4.8	8	100	0	76	0	21	0	78	0.74
8288315--8288371	28	2.1	27	86	3	78	59	0	7	33	1.24
8290780--8290840	27	2.3	27	85	5	79	65	1	0	32	1.02
8290795--8290843	3	17.0	3	83	8	66	67	2	0	30	1.02
8294985--8295020	18	2.0	18	94	0	63	27	11	36	25	1.90
8303160--8303219	21	3.0	20	71	7	50	48	1	1	48	1.21
8303087--8303229	31	4.5	30	77	12	119	48	2	3	44	1.34
8306645--8306905	142	1.8	142	95	0	477	26	14	16	41	1.87
8311160--8311209	13	4.0	13	82	10	59	36	18	18	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8316807--8316870	18	3.6	18	78	0	83	37	23	1	37	1.65
8317163--8317215	12	4.5	12	83	4	72	28	18	15	37	1.91
8317163--8317215	23	2.2	24	90	3	81	28	18	15	37	1.91
8317077--8317342	130	2.0	130	96	0	487	36	16	10	36	1.83
8317293--8317339	12	4.1	11	81	8	58	27	17	14	40	1.89
8317449--8317538	38	2.4	38	92	0	153	22	26	26	24	2.00
8317508--8317559	21	2.5	21	96	0	95	23	21	30	25	1.99
8317470--8317581	59	1.9	59	92	0	188	22	25	27	25	2.00
8318524--8318569	18	2.5	17	86	10	56	47	19	6	26	1.73
8326272--8326303	3	10.7	3	100	0	64	34	31	0	34	1.58
8338581--8338628	20	2.4	20	82	6	62	20	29	16	33	1.95
8346333--8346369	18	2.1	18	89	0	56	40	0	10	48	1.38
8353706--8353778	35	2.1	35	84	2	94	57	13	17	10	1.64
8357014--8357072	31	1.9	31	92	0	100	22	18	23	35	1.96
8357054--8357114	21	2.9	21	87	7	79	22	19	29	27	1.98
8357393--8357563	37	4.6	37	83	7	181	43	2	7	46	1.47
8357419--8357616	37	5.4	36	79	11	174	44	3	6	45	1.47
8357571--8357644	26	3.0	25	75	16	73	45	4	2	47	1.35
8357603--8357632	15	1.9	16	93	6	53	40	0	6	53	1.27
8357622--8357682	30	2.0	30	100	0	122	49	3	8	39	1.49
8357828--8357863	15	2.4	15	85	0	54	25	2	0	72	0.98
8364185--8365207	249	4.1	249	91	1	1496	30	23	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8364172--8365216	165	6.3	164	83	4	1150	30	23	20	25	1.98
8365821--8365991	37	4.6	37	83	7	181	43	2	7	46	1.47
8365847--8366047	37	5.4	37	79	9	189	44	3	6	45	1.46
8365999--8366098	26	3.7	27	72	16	82	47	4	5	44	1.43
8365918--8366175	126	2.0	126	96	3	482	45	4	6	43	1.49
8366034--8366063	15	1.9	16	93	6	53	40	0	6	53	1.27
8366006--8366082	25	3.0	25	72	7	73	45	2	5	46	1.39
8366049--8366191	40	3.8	37	81	10	166	45	4	6	44	1.48
8366054--8366155	38	2.8	35	83	7	116	48	3	5	42	1.46
8366133--8366231	47	2.1	47	81	3	110	48	3	2	46	1.29

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