genome.fa.s20.2.7.7.80.10.50.1000.158.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   

This is table  158  of  186  ( 22216 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)
52615238--52615274	19	1.9	19	100	0	74	29	16	27	27	1.97
52615180--52615572	81	5.0	81	90	2	552	34	18	22	24	1.96
52615847--52615965	27	4.5	26	78	11	98	16	23	20	39	1.92
52615844--52615946	54	1.9	54	83	0	134	18	24	19	37	1.94
52616126--52616160	12	2.9	12	91	0	52	25	17	8	48	1.75
52625650--52625873	40	5.7	40	86	6	280	25	28	22	23	1.99
52625650--52625873	118	1.9	120	84	7	305	25	28	22	23	1.99
52632584--52632737	40	3.9	39	87	2	218	23	27	22	25	2.00
52632558--52632739	80	2.3	80	85	4	235	22	26	23	26	2.00
52640641--52640794	40	3.9	39	87	2	218	23	27	22	25	2.00
52640615--52640796	80	2.3	80	85	4	235	22	26	23	26	2.00
52654658--52654731	22	3.2	22	66	23	62	33	13	29	22	1.93
52654636--52654775	47	3.0	47	92	0	226	35	11	28	25	1.90
52654880--52654988	37	2.9	37	94	0	182	23	19	30	26	1.98
52657141--52657292	40	3.8	40	89	3	209	24	21	28	26	1.99
52665310--52665536	40	5.7	40	96	1	375	23	22	24	29	1.99
52665313--52665600	120	2.4	120	84	2	348	22	21	26	29	1.99
52665309--52665580	40	6.8	40	94	0	264	23	21	25	29	1.99
52665310--52665609	80	3.8	80	87	3	336	23	21	25	29	1.99
52667718--52667769	26	2.0	26	96	0	95	42	5	23	28	1.77
52667902--52668036	40	3.4	40	96	0	252	25	19	25	28	1.99
52667902--52668056	80	1.9	79	93	1	265	25	20	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52668065--52668197	57	2.3	57	96	0	239	22	19	31	26	1.98
52668096--52668283	86	2.2	86	90	0	286	23	17	31	27	1.97
52668182--52668367	57	3.3	57	86	0	273	23	17	30	29	1.97
52668074--52668340	143	1.9	143	93	0	462	23	17	30	28	1.97
52668096--52668308	86	2.5	86	85	3	261	23	18	30	28	1.98
52668065--52668367	29	10.6	29	71	12	191	23	18	30	28	1.97
52672094--52672167	22	3.2	22	66	23	62	33	13	29	22	1.93
52672072--52672206	47	2.9	47	93	0	225	34	11	28	24	1.91
52672316--52672424	37	2.9	37	95	0	191	22	19	31	26	1.98
52678652--52678680	15	1.9	15	100	0	58	27	0	17	55	1.42
52682319--52682446	48	2.8	45	76	8	148	27	16	28	27	1.97
52682319--52682491	94	1.8	94	83	0	229	27	17	27	27	1.98
52683372--52683440	30	2.3	30	100	0	138	14	28	39	17	1.89
52685443--52685495	19	2.9	18	76	13	54	50	11	20	16	1.76
52685615--52685666	27	2.0	26	88	3	77	36	21	25	17	1.94
52685939--52686266	27	12.1	27	85	3	410	24	19	20	35	1.96
52685929--52686266	81	4.2	81	88	1	455	23	19	21	35	1.96
52686293--52686472	27	6.7	27	91	0	261	38	6	22	32	1.80
52686464--52686538	27	2.8	27	84	8	82	29	10	20	40	1.86
52689102--52689319	56	3.9	56	82	5	255	28	14	23	33	1.94
52689102--52689319	111	2.0	112	85	6	300	28	14	23	33	1.94
52690722--52690802	39	2.1	39	97	0	153	30	9	20	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52695597--52696010	207	2.0	208	94	1	724	33	8	19	39	1.81
52701455--52701519	28	2.3	28	94	0	112	33	27	7	30	1.85
52701625--52701679	28	2.0	28	89	7	85	23	21	21	32	1.98
52702151--52702189	19	2.1	19	85	0	51	15	5	7	71	1.26
52702771--52702804	10	3.3	10	84	8	50	29	8	8	52	1.62
52704944--52705290	47	7.4	47	91	1	543	27	30	8	32	1.86
52713536--52713601	28	2.4	28	92	0	105	31	27	7	33	1.85
52713708--52713761	28	1.9	28	88	7	83	27	22	18	31	1.97
52714233--52714271	19	2.1	19	85	0	51	15	5	7	71	1.26
52715582--52715633	24	2.2	24	86	6	70	46	25	17	11	1.81
52715590--52715640	8	6.4	8	79	0	57	49	21	17	11	1.79
52715593--52715639	24	2.0	24	91	0	76	44	23	19	12	1.85
52715850--52715946	29	3.4	29	88	5	135	26	12	29	30	1.93
52717423--52717600	56	3.2	55	93	2	295	27	15	24	33	1.95
52722904--52723086	79	2.3	80	82	7	212	25	27	22	24	2.00
52722902--52723086	40	4.7	40	79	10	200	25	28	22	24	1.99
52731695--52731917	40	5.6	39	85	3	232	26	27	20	25	1.99
52739605--52739867	40	6.6	40	87	3	300	26	28	20	24	1.99
52746688--52746767	39	2.0	40	82	2	99	23	22	28	25	1.99
52751415--52751934	47	11.1	47	91	0	817	32	10	29	26	1.91
52751415--52751934	94	5.5	94	96	0	916	32	10	29	26	1.91
52751816--52751891	22	3.3	22	66	28	59	34	11	28	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52751908--52751998	46	2.0	46	82	0	110	35	7	29	27	1.85
52755716--52755767	27	2.0	26	84	3	68	38	19	0	42	1.51
52755740--52755905	52	3.2	52	71	19	155	41	13	1	42	1.55
52755714--52755902	104	1.8	105	89	1	299	41	15	1	41	1.56
52757707--52757773	35	1.9	35	96	0	125	4	62	0	32	1.15
52763328--52763382	13	4.6	12	75	24	53	72	3	14	9	1.23
52763353--52763385	14	2.5	14	90	9	52	75	0	12	12	1.04
52764576--52764622	22	2.1	22	100	0	94	23	8	36	31	1.85
52768834--52768927	6	15.7	6	100	0	188	67	15	0	17	1.24
52770089--52770136	18	2.7	17	74	6	51	10	18	47	22	1.79
52779917--52779987	30	2.4	30	95	0	124	18	28	39	14	1.89
52782509--52782538	15	2.0	15	93	0	51	43	26	3	26	1.70
52791199--52791262	33	1.9	33	93	0	110	23	29	18	28	1.98
52797086--52797250	47	3.5	46	76	10	156	23	31	18	26	1.97
52797075--52797253	94	1.9	94	85	4	245	24	31	18	25	1.98
52806827--52807011	79	2.3	82	84	7	238	25	27	22	24	2.00
52806808--52807011	40	5.1	40	82	8	238	25	27	22	25	2.00
52809372--52809411	21	2.0	19	85	9	53	22	5	7	65	1.38
52812150--52812216	33	2.0	33	94	0	116	37	4	26	31	1.77
52821160--52821209	14	3.4	14	78	10	55	38	2	6	54	1.37
52830650--52830702	26	2.0	27	85	7	74	24	15	22	37	1.92
52833427--52833469	20	2.2	20	95	0	77	23	37	4	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52835954--52836124	93	1.8	93	94	0	306	28	29	21	21	1.98
52835946--52836121	46	3.8	46	80	10	214	28	28	20	21	1.98
52839619--52839660	22	1.9	22	95	0	75	26	23	23	26	2.00
52840678--52840855	27	6.6	27	84	3	205	29	28	15	26	1.96
52840699--52840854	82	1.9	81	88	3	233	29	28	15	26	1.96
52842686--52842765	27	2.9	27	81	7	99	31	22	26	20	1.98
52842871--52842935	28	2.3	28	91	0	103	30	9	27	32	1.88
52848696--52848735	21	1.9	21	85	10	55	45	12	15	27	1.82
52849813--52849902	27	3.2	27	79	7	92	32	23	24	20	1.98
52850008--52850072	28	2.3	28	89	0	94	32	9	26	32	1.88
52851130--52851162	12	2.6	13	85	9	50	45	0	45	9	1.35
52855131--52855204	27	2.8	26	88	8	105	35	21	24	18	1.96
52855597--52855626	8	3.8	8	90	0	51	3	26	26	43	1.70
52856806--52856887	26	3.2	26	96	0	146	36	24	7	31	1.83
52857014--52857054	18	2.3	18	100	0	82	24	19	9	46	1.80
52861370--52861443	29	2.6	29	79	12	80	25	16	32	25	1.96
52866067--52866153	43	2.0	43	85	12	117	32	31	13	22	1.93
52874672--52874704	17	1.9	17	93	0	57	51	12	0	36	1.39
52877333--52877367	6	5.8	6	86	0	52	62	0	20	17	1.32
52877478--52877551	26	2.8	26	87	4	96	41	6	16	35	1.74
52879393--52879485	48	1.9	48	86	0	132	27	18	21	32	1.97
52882171--52882298	64	2.0	63	88	7	188	35	24	20	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52882933--52882978	22	2.1	22	100	0	92	32	13	8	45	1.73
52885249--52885347	22	4.4	23	81	8	98	26	22	18	33	1.96
52885241--52885346	45	2.4	45	79	9	110	26	21	18	33	1.97
52889040--52889129	36	2.5	36	87	1	128	37	37	11	13	1.80
52889040--52889142	36	2.9	36	85	1	127	37	35	11	14	1.83
52902590--52902807	40	5.5	40	88	5	286	25	28	23	22	1.99
52905235--52905409	46	3.8	45	77	10	183	21	20	28	29	1.98
52905231--52905402	93	1.8	93	91	0	281	21	20	29	28	1.98
52907858--52907911	15	3.6	15	76	0	63	11	18	12	57	1.64
52907854--52907922	30	2.3	30	85	2	95	8	17	17	56	1.65

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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186