genome.fa.s9634.2.7.7.80.10.50.1000.74.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  74  of  78  ( 9351 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)
15489077--15489110	16	2.1	17	88	5	52	26	14	0	58	1.36
15491320--15491360	21	2.1	18	86	13	55	17	26	0	56	1.41
15491794--15491830	16	2.3	16	90	0	56	18	18	0	62	1.34
15499251--15499298	19	2.5	20	89	3	71	35	12	6	45	1.67
15504289--15504327	14	2.8	14	80	0	51	35	12	12	38	1.82
15515004--15515033	15	2.0	15	93	0	51	76	6	16	0	0.99
15522176--15522205	15	2.0	15	93	0	51	76	6	16	0	0.99
15529112--15529141	15	2.1	15	93	6	53	76	3	20	0	0.92
15535208--15535355	35	4.2	35	87	0	197	26	37	4	31	1.75
15535259--15535316	19	3.2	19	66	14	59	29	34	6	29	1.83
15547597--15547623	9	3.0	9	100	0	54	33	22	11	33	1.89
15547685--15547835	35	4.3	35	88	4	196	28	36	2	32	1.71
15552160--15552237	35	2.2	35	93	0	129	25	38	5	30	1.78
15552602--15552638	18	2.1	17	90	5	56	72	0	27	0	0.84
15558092--15558297	35	5.9	35	91	0	313	29	36	2	31	1.72
15558092--15558297	70	2.9	70	94	0	349	29	36	2	31	1.72
15558163--15558262	22	4.3	23	70	20	50	30	37	3	30	1.72
15558714--15558771	23	2.5	23	94	5	100	39	27	24	8	1.84
15567110--15567139	13	2.4	13	94	5	53	26	30	0	43	1.55
15571785--15571818	17	2.1	17	88	5	52	5	5	11	76	1.14
15599992--15600032	15	2.7	15	88	0	64	46	0	34	19	1.50
15600167--15600221	24	2.3	25	81	15	71	34	12	21	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15603338--15603372	12	3.0	12	87	4	54	65	8	14	11	1.46
15614368--15614436	13	5.5	13	71	10	54	27	42	2	27	1.70
15615156--15615188	17	1.9	17	93	0	57	33	30	0	36	1.58
15636753--15636848	45	2.1	45	94	0	165	32	21	0	45	1.52
15643759--15643805	14	3.1	15	75	12	51	72	6	19	2	1.17
15650448--15650482	17	2.1	16	89	5	52	40	5	20	34	1.76
15659508--15659558	19	2.6	20	84	3	68	43	5	13	37	1.69
15662668--15662749	18	4.6	18	72	14	62	9	13	2	74	1.16
15662680--15662742	19	3.3	20	78	12	80	9	14	0	76	1.02
15662685--15662744	32	1.9	31	83	10	77	10	15	0	75	1.05
15663441--15663491	19	2.6	20	90	3	77	43	5	15	35	1.71
15667429--15667486	18	3.2	18	81	11	57	75	1	18	3	1.03
15667432--15667490	19	3.0	20	74	20	61	74	1	20	3	1.05
15668093--15668163	19	3.6	19	90	3	97	35	12	5	46	1.66
15680259--15680304	22	2.1	21	85	14	67	58	13	15	13	1.63
15680260--15680303	23	2.0	23	95	4	81	56	13	15	13	1.67
15690071--15690120	22	2.3	21	80	10	64	62	12	18	8	1.53
15698121--15698149	15	2.0	15	93	6	51	0	20	3	75	0.94
15698144--15698201	28	2.1	27	83	3	71	8	15	15	60	1.58
15701261--15701297	15	2.4	15	90	4	56	21	13	27	37	1.91
15705801--15705842	13	3.2	13	90	6	59	80	2	16	0	0.81
15705810--15705842	12	2.6	13	90	4	50	81	3	15	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15712649--15712700	21	2.6	21	90	6	81	32	13	7	46	1.72
15716476--15716527	21	2.6	21	90	6	81	32	13	7	46	1.72
15717423--15717462	13	3.0	13	88	3	62	35	10	25	30	1.88
15717648--15717749	51	2.0	51	100	0	204	27	25	15	31	1.96
15719472--15719514	17	2.5	17	88	0	59	65	0	20	13	1.27
15719931--15719986	20	2.8	20	86	10	87	44	5	12	37	1.65
15724053--15724101	19	2.4	21	86	6	66	44	8	12	34	1.71
15728137--15728188	19	2.6	21	87	6	72	44	7	13	34	1.72
15730141--15730190	24	2.0	24	84	3	64	22	20	18	40	1.92
15731503--15731540	13	2.9	13	88	0	58	2	18	0	78	0.86
15731830--15731869	19	2.0	20	86	13	57	67	0	10	22	1.20
15732284--15732333	19	2.5	21	87	6	68	46	8	12	34	1.70
15740213--15740263	20	2.6	20	87	3	68	45	5	15	33	1.71
15740927--15740960	13	2.6	13	85	0	50	32	0	35	32	1.58
15746570--15746609	17	2.4	17	100	0	80	25	27	10	37	1.88
15747116--15747145	15	2.1	15	93	6	53	0	20	3	76	0.92
15747138--15747199	26	2.2	29	81	16	78	12	17	9	59	1.59
15756217--15756308	11	7.9	11	69	17	53	4	15	1	79	0.95
15756217--15756308	8	11.2	8	71	21	57	4	15	1	79	0.95
15756266--15756307	22	1.9	22	85	9	59	0	16	2	80	0.81
15756217--15756302	14	6.1	14	73	16	54	4	15	1	79	0.96
15757550--15757582	13	2.5	13	90	0	57	39	27	15	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15759542--15759587	24	1.9	24	86	0	65	28	17	21	32	1.96
15759592--15759667	24	3.2	23	72	5	71	26	19	19	34	1.96
15765480--15765537	24	2.4	25	77	11	66	56	0	15	27	1.39
15765499--15765532	12	2.8	12	90	0	59	55	0	17	26	1.42
15765494--15765542	24	2.0	25	84	11	66	55	0	16	28	1.42
15780449--15781209	380	2.0	380	99	0	1504	39	14	20	25	1.90
15782290--15782358	34	2.1	33	83	8	86	31	1	36	30	1.67
15790670--15790706	8	4.5	8	93	3	56	0	2	18	78	0.87
15791032--15791077	11	4.0	12	77	8	51	71	4	10	13	1.27
15791032--15791074	23	1.9	22	90	4	68	69	4	11	13	1.33
15805995--15806063	34	2.1	33	83	8	86	31	1	36	30	1.67
15810034--15810063	12	2.4	13	94	5	53	0	23	0	76	0.78
15810419--15810487	34	2.1	33	83	8	86	31	1	36	30	1.67
15813822--15813873	21	2.6	21	90	6	81	32	13	7	46	1.72
15814580--15814626	16	2.9	16	77	20	53	80	4	10	4	0.98
15814581--15814628	25	1.9	25	87	8	71	81	4	10	4	0.97
15817841--15817892	21	2.6	21	90	6	81	32	13	7	46	1.72
15821551--15821630	11	6.8	11	73	23	65	27	2	38	31	1.70
15821551--15821597	24	2.0	24	84	15	64	25	2	36	36	1.68
15821551--15821630	36	2.2	36	91	2	126	27	2	38	31	1.70
15825205--15825246	6	6.8	6	81	13	50	2	16	0	80	0.81
15825203--15825239	19	2.1	19	90	10	60	5	13	0	81	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15825638--15825717	36	2.2	36	91	2	126	28	3	37	30	1.75
15828762--15828814	11	4.9	10	80	15	61	83	3	13	0	0.79
15828761--15828814	19	2.8	19	81	13	65	81	5	12	0	0.85
15828762--15828814	12	4.2	12	76	21	54	83	3	13	0	0.79
15828762--15828814	22	2.4	22	84	6	72	83	3	13	0	0.79
15835191--15835249	13	4.7	12	78	15	57	3	16	3	76	1.06
15835522--15835561	19	2.0	20	95	4	73	67	0	15	17	1.23
15835975--15836025	19	2.6	20	90	3	77	43	5	13	37	1.69
15836902--15836961	30	2.0	31	86	3	86	53	10	8	28	1.63
15848550--15848593	19	2.3	19	100	0	88	43	0	31	25	1.55
15848789--15848830	8	5.0	8	81	18	50	0	23	0	76	0.79
15853078--15853120	23	1.9	21	81	13	50	34	13	18	32	1.90
15860087--15860166	18	4.6	17	70	27	53	5	17	5	72	1.21
15860101--15860159	13	4.7	12	78	15	57	1	18	3	76	1.02
15860103--15860159	19	2.9	19	71	23	55	1	19	3	75	1.04
15860432--15860471	19	2.0	20	90	4	64	65	0	15	20	1.28
15860885--15860935	19	2.6	20	90	3	77	43	5	15	35	1.71
15861066--15861107	22	1.9	22	85	9	59	26	21	23	28	1.99
15861804--15861863	30	2.0	31	86	3	86	53	10	8	28	1.63
15863813--15863845	16	2.1	16	100	0	66	33	18	6	42	1.75
15866363--15866475	36	3.2	36	92	1	174	32	36	3	27	1.74
15866363--15866461	13	8.3	11	71	23	67	31	36	3	29	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15866375--15866514	36	4.1	33	83	9	97	30	36	2	30	1.72
15872066--15872178	36	3.2	36	92	1	174	32	36	3	27	1.74
15872066--15872164	13	8.3	11	71	23	67	31	36	3	29	1.73
15872078--15872217	36	4.1	33	83	9	97	30	36	2	30	1.72
15874193--15874225	16	2.1	16	100	0	66	33	18	6	42	1.75
15875732--15875785	19	2.8	20	78	18	60	24	11	0	64	1.25
15876024--15876048	12	2.1	12	100	0	50	24	8	16	52	1.70
15882300--15882369	35	1.9	37	85	5	99	35	32	4	27	1.76
15882340--15882408	33	2.1	33	83	5	86	30	36	1	31	1.67
15889965--15889993	15	2.0	15	93	6	51	0	20	3	75	0.94

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   66   67   68   69   70   71   72   73   74   75   76   77   78