genome.fa.s23.2.7.7.80.10.50.1000.15.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   

This is table  15  of  167  ( 19959 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)
4695657--4695740	42	2.0	42	97	0	159	52	2	25	20	1.58
4695845--4696004	80	2.0	80	98	0	311	41	1	15	41	1.54
4698574--4698606	17	2.0	17	94	5	59	36	15	0	48	1.45
4698888--4699020	46	2.9	46	89	1	187	18	23	14	43	1.87
4698996--4699047	23	2.4	22	87	6	70	25	19	9	46	1.80
4699028--4699132	46	2.3	46	86	3	140	23	22	13	40	1.90
4699392--4699445	26	2.1	26	89	6	83	42	16	1	38	1.59
4703964--4703996	17	2.0	17	94	5	59	36	15	0	48	1.45
4704292--4704585	76	3.8	77	94	1	495	18	25	13	42	1.86
4710911--4710995	43	2.0	42	84	6	109	25	11	22	40	1.88
4711634--4711673	15	2.6	16	80	11	57	40	5	0	55	1.22
4715751--4715869	60	2.0	60	81	6	143	6	29	26	37	1.82
4721047--4721170	38	3.2	38	87	4	160	28	26	22	22	1.99
4726638--4726682	11	4.1	11	80	11	56	15	2	2	80	0.92
4726638--4726685	16	2.9	16	79	14	62	16	2	2	79	0.93
4731778--4731820	11	4.0	11	84	3	61	30	2	46	20	1.63
4731778--4731820	21	2.0	21	90	4	68	30	2	46	20	1.63
4734283--4734429	18	8.2	18	88	3	215	31	15	24	28	1.96
4734962--4735004	11	4.0	11	78	3	52	32	2	44	20	1.65
4736653--4736699	16	3.0	16	93	3	78	51	0	0	48	1.00
4736718--4736755	17	2.2	17	86	9	51	52	10	2	34	1.50
4738508--4738568	24	2.5	24	81	5	70	39	18	31	11	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4749325--4749375	17	3.1	16	81	10	57	27	13	5	52	1.63
4751923--4751976	27	2.0	27	96	0	99	40	31	7	20	1.80
4763459--4763825	46	8.0	47	92	3	516	22	24	15	38	1.92
4765479--4765530	11	4.7	11	76	9	52	63	3	0	32	1.12
4772836--4772878	20	2.0	22	86	8	63	62	6	0	30	1.21
4773384--4773424	15	2.7	15	84	0	55	34	21	39	4	1.75
4774216--4774577	180	2.0	182	98	1	701	35	12	16	35	1.86
4776428--4776470	21	2.0	21	95	0	77	23	13	37	25	1.92
4777755--4777806	11	4.9	11	83	9	72	28	25	0	46	1.53
4777754--4777806	20	2.5	21	84	9	72	30	24	0	45	1.54
4777754--4777812	11	5.5	11	76	8	50	28	27	0	44	1.55
4779481--4779546	30	2.2	30	78	5	71	30	45	18	6	1.73
4779600--4779637	18	2.1	18	95	0	67	18	26	13	42	1.87
4780025--4780524	116	4.3	116	97	0	910	40	3	8	47	1.51
4783528--4783937	126	3.3	125	91	1	649	27	20	18	33	1.96
4783947--4784008	30	2.1	30	100	0	124	41	3	6	48	1.45
4784054--4784083	15	2.0	15	93	0	51	46	36	0	16	1.47
4784081--4784256	96	1.8	97	86	4	257	40	14	1	43	1.55
4784253--4784294	16	2.6	17	81	11	52	54	28	0	16	1.42
4786392--4786438	14	3.2	14	75	18	51	8	6	2	82	0.90
4786392--4786467	31	2.5	30	87	8	109	10	6	1	81	0.92
4786394--4786453	26	2.3	26	82	5	68	10	6	1	81	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786415--4786466	22	2.3	23	81	15	65	9	5	1	82	0.90
4786382--4786462	37	2.2	37	82	10	94	8	7	2	81	0.96
4786488--4786559	10	6.8	10	72	17	56	12	4	4	79	1.02
4786505--4786550	24	1.9	24	82	8	58	10	4	6	78	1.08
4786721--4786747	14	1.9	14	100	0	54	44	0	0	55	0.99
4786605--4786747	37	4.0	35	75	8	137	39	1	2	56	1.22
4786706--4786747	21	1.9	23	85	9	61	45	0	0	54	0.99
4786799--4786846	20	2.3	21	86	10	64	22	6	0	70	1.09
4786953--4786990	18	2.1	19	85	5	51	10	7	5	76	1.15
4786987--4787039	18	2.9	18	77	5	54	24	1	1	71	1.06
4786926--4787034	37	2.9	36	80	11	105	19	5	2	72	1.17
4787078--4787186	34	3.1	34	78	10	114	34	1	3	59	1.26
4787078--4787186	36	3.1	36	79	7	127	34	1	3	59	1.26
4787069--4787192	36	3.6	34	77	6	117	35	2	4	58	1.30
4787249--4787282	13	2.6	13	86	13	52	26	2	0	70	1.01
4787565--4787629	26	2.5	26	87	5	87	50	4	1	43	1.32
4787688--4787731	21	2.1	21	84	16	56	36	2	0	61	1.09
4788920--4788954	16	2.3	15	90	5	52	62	2	2	31	1.24
4789069--4789128	23	2.9	20	70	15	59	56	5	6	31	1.47
4789106--4789176	25	3.0	23	78	9	81	57	5	5	30	1.45
4789192--4789255	30	2.1	30	97	0	119	15	6	50	28	1.68
4789190--4789245	18	3.5	17	68	27	50	19	7	46	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4789930--4790474	92	6.0	91	80	8	460	37	17	17	28	1.92
4790277--4790309	14	2.4	14	94	0	57	63	6	12	18	1.48
4790053--4790474	183	2.3	180	80	8	464	36	17	17	28	1.92
4790387--4790821	73	5.9	74	88	4	607	32	20	16	30	1.95
4790381--4790835	148	3.1	146	90	2	691	33	20	16	29	1.95
4795506--4795584	41	1.9	42	94	2	142	25	24	17	32	1.97
4796941--4796979	21	1.9	20	89	5	60	64	10	2	23	1.37
4797023--4797070	24	1.9	26	84	16	66	58	6	0	35	1.23
4797513--4797560	3	16.0	3	100	0	96	66	0	0	33	0.92
4802123--4802178	24	2.3	24	82	11	71	62	1	3	32	1.23
4802123--4802174	8	6.5	8	78	8	52	61	1	3	32	1.25
4802326--4802392	22	2.9	23	78	10	73	56	5	5	31	1.47
4802321--4802539	25	8.9	25	66	18	84	55	4	6	33	1.47
4808204--4808250	21	2.3	21	88	3	69	59	0	0	40	0.97
4808242--4808287	22	2.1	22	84	15	60	60	4	0	34	1.16
4808230--4808265	13	2.5	15	91	8	58	61	2	0	36	1.11
4808209--4808346	36	4.0	36	86	6	171	58	2	0	38	1.13
4808278--4808319	22	2.0	20	86	9	57	57	7	0	35	1.26
4808394--4808462	30	2.3	31	77	10	79	76	2	2	17	1.03
4808541--4808649	34	3.1	35	76	10	109	59	4	1	33	1.28
4808617--4808669	21	2.4	22	84	12	65	58	1	1	37	1.20
4808891--4808936	20	2.4	19	82	13	58	69	0	8	21	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4808988--4809014	14	1.9	14	100	0	54	55	0	0	44	0.99
4809175--4809239	10	6.9	9	73	15	51	80	3	3	13	0.96
4809267--4809345	11	7.4	10	73	17	52	77	2	10	10	1.09
4809273--4809333	17	3.8	17	82	12	92	77	1	9	11	1.07
4809267--4809345	5	14.8	5	73	16	52	77	2	10	10	1.09
4809266--4809345	17	4.9	16	76	13	83	77	2	10	10	1.08
4824461--4824506	21	2.1	22	84	4	58	71	8	13	6	1.29
4825479--4825557	27	2.9	27	90	0	122	17	3	27	50	1.63
4825530--4825575	23	2.0	23	91	0	74	8	6	32	52	1.58
4831542--4831594	24	2.4	22	81	12	63	37	0	5	56	1.23
4831955--4831995	12	3.4	12	83	16	50	65	0	34	0	0.93
4832748--4832787	18	2.4	16	84	15	55	40	0	20	40	1.52
4832930--4832981	27	1.9	27	92	0	86	11	3	32	51	1.56
4832954--4832999	23	2.0	23	100	0	92	8	4	34	52	1.52
4838287--4838324	19	2.0	19	85	10	51	55	2	2	39	1.28
4839249--4839336	45	2.0	44	93	2	149	39	7	3	48	1.49
4840800--4840907	26	4.2	26	89	0	162	34	6	22	37	1.80
4840800--4840907	52	2.1	52	94	0	189	34	6	22	37	1.80
4855275--4857851	845	3.0	846	93	3	4228	46	10	12	30	1.75
4857031--4857079	17	2.9	16	80	17	55	61	4	0	34	1.15
4856257--4858040	891	2.0	888	97	1	3378	48	9	11	31	1.70
4857714--4857770	21	2.8	20	73	7	51	56	5	8	29	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4857990--4858067	27	2.9	25	79	9	84	51	7	7	33	1.59
4858056--4858086	15	2.1	15	93	0	53	58	0	9	32	1.31
4858470--4858533	15	3.6	18	66	21	53	59	4	3	32	1.34
4858586--4858646	11	5.2	11	75	16	52	55	6	3	34	1.42
4859290--4859330	15	2.6	16	84	11	57	7	43	7	41	1.60
4860007--4860066	26	2.3	27	82	5	70	10	1	40	48	1.47
4860477--4860618	71	2.0	71	100	0	284	22	23	14	39	1.91
4860692--4860908	91	2.4	92	83	6	266	29	21	17	31	1.96
4860847--4860993	73	2.0	72	90	1	231	31	21	17	29	1.96
4861280--4861322	21	2.0	21	100	0	86	18	23	13	44	1.86

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167