genome.fa.s7984.2.7.7.80.10.50.1000.53.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   
          65   

This is table  53  of  65  ( 7696 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)
10448584--10448635	14	3.4	14	77	15	50	25	5	0	69	1.10
10448680--10448715	18	1.9	19	88	5	56	25	0	8	66	1.19
10448831--10448903	9	8.1	9	77	11	78	17	4	4	73	1.14
10448837--10448879	4	10.0	4	82	12	50	20	2	0	76	0.89
10450056--10450084	2	14.5	2	100	0	58	48	0	0	51	1.00
10450450--10450592	20	7.1	20	87	1	205	41	23	16	18	1.89
10450439--10450592	61	2.5	60	85	4	211	41	24	15	18	1.89
10451137--10451190	20	2.7	19	83	8	72	14	16	22	46	1.84
10452849--10452889	21	2.0	21	95	0	73	12	19	34	34	1.89
10453303--10453421	21	5.7	21	77	7	91	23	32	18	25	1.97
10454680--10454855	66	2.6	65	87	8	248	27	2	16	53	1.55
10455336--10455371	18	2.0	18	94	0	63	16	2	25	55	1.55
10457526--10457551	12	2.2	12	100	0	52	38	34	0	26	1.57
10457821--10457854	12	2.8	12	95	0	59	14	0	26	58	1.36
10458448--10458485	16	2.5	15	84	12	51	65	0	5	28	1.14
10458658--10458709	20	2.7	20	87	3	70	32	11	21	34	1.89
10458697--10458904	20	10.4	20	75	8	138	19	14	24	41	1.89
10458697--10458883	80	2.3	80	83	7	238	19	14	24	41	1.88
10458775--10458904	20	6.5	21	79	11	139	18	15	25	40	1.90
10458757--10458904	60	2.5	60	83	8	210	18	16	25	39	1.91
10458891--10458946	20	2.9	19	74	10	60	25	14	30	30	1.95
10461310--10461377	35	1.9	35	87	0	100	44	22	0	33	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10461310--10461395	35	2.5	34	81	10	95	44	19	1	34	1.59
10461392--10461423	15	2.1	15	94	0	55	21	0	28	50	1.49
10461742--10461855	58	1.9	59	89	1	176	50	3	7	38	1.49
10461821--10461880	27	2.2	27	90	0	93	50	6	3	40	1.45
10466849--10466929	26	3.6	23	71	20	64	66	0	6	27	1.15
10466968--10467006	2	19.5	2	100	0	78	51	0	0	48	1.00
10467415--10467519	37	2.8	37	84	5	140	30	14	14	40	1.85
10468250--10469737	106	14.0	106	92	0	2339	23	17	24	35	1.96
10470315--10470372	24	2.4	24	94	0	98	41	3	17	37	1.66
10470563--10470618	22	2.5	22	91	0	94	26	12	23	37	1.90
10471245--10471284	16	2.7	15	85	11	55	0	15	7	77	0.98
10476518--10476614	37	2.6	37	82	6	124	34	10	13	42	1.78
10476964--10477020	25	2.3	25	96	0	105	12	50	29	7	1.66
10479145--10479212	29	2.3	29	85	5	84	26	29	19	25	1.98
10496932--10497018	35	2.5	34	80	12	97	54	10	8	27	1.62
10507075--10507305	58	4.0	58	74	12	199	34	8	12	44	1.73
10507266--10507348	43	1.9	43	87	0	121	39	3	10	45	1.57
10507478--10507579	40	2.5	40	87	0	141	36	6	9	47	1.64
10511617--10511752	64	2.1	64	82	4	159	35	18	22	23	1.96
10511649--10511771	64	1.9	64	81	3	149	34	18	22	23	1.96
10512633--10512861	4	57.2	4	99	0	449	25	0	24	49	1.50
10513036--10513131	31	3.1	29	73	10	84	28	19	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10513114--10513183	30	2.3	30	90	0	113	25	21	22	30	1.99
10516604--10516706	45	2.3	43	80	11	118	35	19	18	26	1.95
10517883--10518039	30	5.2	30	96	0	287	23	19	24	32	1.98
10519959--10520053	49	2.0	48	82	2	118	66	7	3	23	1.32
10520548--10520595	21	2.3	21	81	0	60	20	16	35	27	1.94
10523811--10523858	23	2.1	23	84	0	60	37	12	16	33	1.86
10524333--10524405	23	3.2	23	88	0	101	39	19	5	35	1.75
10524771--10524843	23	3.2	23	88	0	110	36	21	6	34	1.81
10524227--10525540	436	3.0	437	97	0	2477	39	11	7	41	1.69
10525207--10525279	23	3.2	23	92	0	119	38	21	5	34	1.77
10528073--10529016	183	5.2	183	98	0	1780	32	17	15	34	1.90
10530222--10530312	3	30.3	3	79	0	83	23	32	8	35	1.85
10530250--10530325	36	2.1	36	95	0	134	21	32	7	38	1.82
10530250--10530325	12	6.3	12	85	0	98	21	32	7	38	1.82
10530250--10530325	6	12.7	6	80	0	71	21	32	7	38	1.82
10531827--10532990	200	5.8	200	96	0	2078	30	18	14	36	1.91
10533091--10533151	19	3.3	18	88	2	59	52	11	1	34	1.47
10533103--10533151	19	2.6	19	96	0	89	55	10	2	32	1.45
10534941--10535006	33	2.0	33	90	0	105	22	48	0	28	1.51
10535040--10535104	21	3.1	21	90	0	94	16	29	12	41	1.85
10537327--10537369	20	2.3	18	85	14	61	20	16	11	51	1.75
10537332--10537378	20	2.4	19	82	10	67	19	17	10	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10537512--10537558	20	2.3	20	89	10	78	17	17	10	55	1.69
10537434--10537746	159	1.9	159	87	3	457	26	17	13	42	1.86
10543706--10543813	43	2.6	42	78	8	123	40	8	13	37	1.75
10544835--10544870	2	18.0	2	100	0	72	50	0	0	50	1.00
10544894--10544942	20	2.5	20	80	9	57	57	6	0	36	1.24
10546183--10546320	68	2.0	68	97	0	258	29	12	17	40	1.86
10548308--10548358	19	2.6	20	84	3	68	43	21	17	17	1.88
10548345--10548401	20	2.8	20	94	0	96	49	19	19	12	1.79
10548398--10548472	6	12.5	6	100	0	150	0	16	50	33	1.45
10548563--10548795	20	11.6	20	81	9	170	18	26	17	37	1.93
10548563--10548791	40	5.7	40	81	9	252	19	26	17	37	1.93
10548631--10548661	15	2.1	15	100	0	62	12	35	19	32	1.90
10548578--10548681	35	2.8	35	89	7	145	14	30	20	34	1.92
10548563--10548791	63	3.8	61	77	14	183	19	26	17	37	1.93
10548826--10548879	20	2.7	20	94	0	90	11	18	18	51	1.74
10548866--10548916	19	2.6	20	90	3	77	15	17	23	43	1.88
10549046--10549075	14	2.1	14	100	0	60	33	23	23	20	1.97
10552366--10552392	14	1.9	14	100	0	54	29	7	3	59	1.42
10558936--10559011	22	3.5	21	76	16	66	75	6	11	6	1.19
10571747--10571798	21	2.5	21	87	0	68	23	1	5	69	1.20
10571765--10571799	12	2.9	12	87	12	54	22	0	2	74	0.95
10572073--10572112	21	2.0	21	85	14	57	70	7	0	22	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10574110--10574152	17	2.4	18	85	14	54	60	0	9	30	1.28
10575592--10575801	44	4.8	44	74	0	177	27	19	21	31	1.97
10576413--10576883	39	12.9	36	74	11	214	37	14	19	28	1.91
10576480--10576677	66	3.0	65	85	7	263	36	12	19	31	1.89
10576619--10576888	39	7.0	39	87	2	316	37	16	19	27	1.93
10576891--10577053	76	2.1	76	84	8	208	42	14	12	30	1.83
10576822--10577067	36	6.6	37	69	13	130	42	13	13	30	1.83
10582483--10582525	17	2.4	18	85	14	54	62	0	6	30	1.21
10585150--10585231	38	2.2	38	90	0	128	41	3	19	35	1.69
10585188--10585300	45	2.5	45	94	1	190	39	5	23	31	1.77
10586991--10587031	21	1.9	22	90	5	66	31	9	0	58	1.31
10587410--10587452	19	2.3	19	84	4	52	20	4	2	72	1.14
10588631--10588664	18	1.9	17	88	5	50	26	2	5	64	1.30
10592116--10592184	31	2.2	31	85	12	88	49	4	2	43	1.37
10592148--10592201	18	2.9	18	83	10	65	46	5	1	46	1.37
10592154--10592212	18	3.2	18	80	9	57	47	6	1	44	1.39
10592137--10592269	13	10.2	13	68	15	78	48	7	3	40	1.49
10592242--10592295	24	2.2	24	90	3	81	53	5	5	35	1.48
10592247--10592381	40	3.2	41	68	20	116	47	4	7	40	1.52
10592238--10592414	87	2.0	87	93	2	302	45	3	7	42	1.49
10592283--10592414	47	3.0	43	68	22	121	43	3	7	45	1.47
10592596--10592627	16	2.0	16	93	0	55	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10592675--10592830	57	2.7	58	80	11	178	41	8	9	40	1.69
10592744--10592777	13	2.5	13	90	4	50	44	8	5	41	1.60
10592757--10592815	22	2.7	22	78	17	68	42	8	5	44	1.57
10592825--10592912	21	4.2	21	71	11	81	39	5	6	47	1.54
10592899--10593013	31	3.5	31	69	21	88	40	7	4	46	1.52
10592888--10592951	15	4.3	15	69	13	51	40	6	3	50	1.43
10592867--10593047	21	8.1	21	67	18	80	42	7	3	46	1.49
10592979--10593089	31	3.5	30	73	18	91	44	3	1	50	1.30
10592979--10593118	31	4.4	30	71	22	81	45	5	1	47	1.33
10592867--10593111	134	1.8	135	80	8	302	43	7	2	46	1.46

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   
          65