genome.fa.s23.2.7.7.80.10.50.1000.128.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  128  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)
42964808--42965017	25	8.4	25	69	15	98	21	24	19	34	1.96
42965020--42965059	19	2.2	19	86	8	57	45	2	12	40	1.56
42969881--42969913	11	3.1	11	95	4	59	66	9	9	15	1.43
42987792--42988151	180	2.0	180	99	0	711	31	12	16	39	1.86
42991193--42991364	40	4.3	40	83	6	181	25	20	26	28	1.99
42991193--42991364	80	2.2	79	83	7	206	25	20	26	28	1.99
42999213--42999259	24	2.0	24	84	16	62	51	14	0	34	1.43
43003148--43003202	27	2.0	27	96	0	101	54	21	10	12	1.68
43007572--43007851	40	7.1	40	87	4	408	23	23	28	24	2.00
43007571--43007851	78	3.6	78	93	1	465	24	23	28	24	2.00
43007568--43007851	118	2.4	118	86	4	412	24	23	27	24	2.00
43016855--43017142	40	7.2	40	95	0	488	23	22	28	25	2.00
43022243--43022386	48	3.0	48	83	3	184	28	22	20	28	1.99
43046095--43046170	38	2.0	38	94	0	134	31	14	22	31	1.94
43047359--43047503	40	3.6	40	85	4	193	25	24	26	23	2.00
43062811--43062930	50	2.4	50	80	5	136	28	21	22	27	1.99
43062811--43062905	25	3.8	25	91	0	136	27	22	22	28	1.99
43063842--43063870	12	2.3	13	94	5	51	24	3	0	72	1.00
43071574--43071718	76	1.9	73	91	4	236	26	24	25	22	2.00
43077234--43077270	15	2.5	15	100	0	74	32	29	27	10	1.90
43079587--43079617	6	5.2	6	92	0	53	19	0	48	32	1.49
43079730--43080124	126	3.1	126	87	1	583	37	17	16	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43082000--43082104	42	2.5	41	84	6	140	39	14	21	24	1.91
43084324--43084409	29	2.8	30	72	15	77	51	3	5	39	1.43
43086438--43086563	43	3.0	43	89	1	182	23	15	26	34	1.94
43090677--43090751	9	8.4	9	71	8	55	64	1	1	33	1.11
43090686--43090751	25	2.5	28	80	7	75	63	1	1	33	1.13
43091280--43091353	20	3.7	21	71	18	68	29	2	5	62	1.31
43091270--43091353	29	2.9	29	71	15	75	29	3	4	61	1.33
43102747--43102834	23	3.9	23	80	4	99	26	22	18	32	1.97
43109539--43109600	30	2.1	30	93	0	106	29	17	14	38	1.89
43111951--43111977	14	1.9	14	100	0	54	29	3	22	44	1.70
43118570--43119243	40	16.9	40	100	0	1348	22	22	27	27	1.99
43119665--43119708	22	2.0	21	83	16	54	31	18	13	36	1.90
43122146--43122195	20	2.5	20	86	3	64	36	12	2	50	1.51
43123947--43124268	39	8.2	39	93	1	502	27	28	21	22	1.99
43124411--43124440	14	2.1	14	100	0	60	33	23	6	36	1.81
43125262--43125662	200	2.0	200	97	0	748	38	26	11	22	1.89
43132378--43132461	39	2.2	38	80	6	96	27	28	20	23	1.99
43140943--43140981	20	1.9	21	85	15	55	51	15	5	28	1.64
43145354--43145389	18	2.0	18	100	0	72	22	33	22	22	1.97
43152557--43152753	55	3.6	54	84	4	254	21	24	18	36	1.95
43152943--43153073	44	3.0	44	88	2	183	22	26	12	38	1.90
43163978--43164014	16	2.3	16	100	0	74	56	21	5	16	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43165717--43165746	8	3.8	8	95	0	51	6	23	16	53	1.66
43166509--43166563	18	3.2	17	76	19	60	60	0	34	5	1.20
43166513--43166569	18	3.2	18	74	13	55	63	0	31	5	1.17
43168507--43168548	18	2.2	20	87	12	61	76	0	7	16	1.00
43172920--43173127	99	2.1	100	89	5	314	36	7	18	38	1.78
43173738--43173806	25	2.8	25	76	12	70	18	24	23	33	1.97
43189264--43189306	18	2.4	17	82	17	52	30	4	0	65	1.13
43195913--43196066	47	3.3	47	88	0	245	27	30	7	33	1.85
43213045--43213178	10	13.4	10	63	13	53	61	0	3	33	1.19
43213106--43213161	20	2.8	19	81	7	67	60	0	5	33	1.19
43213106--43213149	21	2.1	21	87	8	63	63	0	6	29	1.20
43213097--43213179	29	2.8	29	83	3	94	60	1	4	33	1.26
43213331--43213526	9	20.9	9	67	21	73	31	4	1	63	1.19
43213331--43213408	21	3.8	20	73	10	68	29	3	1	65	1.18
43213335--43213428	41	2.3	41	85	8	122	25	5	1	68	1.18
43213401--43213428	10	2.8	10	100	0	56	21	7	0	71	1.09
43213414--43213492	35	2.2	37	84	11	101	35	1	1	62	1.12
43217900--43217925	3	8.7	3	100	0	52	69	0	30	0	0.89
43219130--43219182	19	2.9	17	78	13	52	35	0	5	58	1.22
43222626--43222678	23	2.3	24	87	6	74	50	11	16	20	1.76
43222763--43222799	15	2.5	15	95	0	65	37	21	13	27	1.91
43226674--43226760	27	3.0	30	65	19	85	39	12	8	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43226653--43226760	56	1.9	55	92	1	180	38	12	8	40	1.72
43227020--43227259	80	3.0	80	100	0	480	25	20	21	33	1.97
43227345--43227378	3	11.3	3	100	0	68	0	32	0	67	0.91
43233007--43233082	39	1.9	39	94	0	134	35	7	32	23	1.84
43233460--43233492	16	2.1	16	100	0	66	30	12	0	57	1.35
43235250--43235320	35	2.0	35	100	0	142	46	2	5	45	1.41
43243962--43243986	13	1.9	13	100	0	50	40	8	12	40	1.72
43244201--43244281	33	2.7	30	76	16	78	50	1	1	46	1.17
43246570--43246595	13	2.0	13	100	0	52	61	7	7	23	1.49
43249107--43249268	26	6.2	26	95	0	261	33	5	24	36	1.79
43250708--43250782	26	2.8	26	83	4	78	34	20	12	33	1.89
43250884--43250998	27	4.3	26	81	11	133	15	25	23	35	1.94
43250884--43250998	54	2.1	54	85	3	151	15	25	23	35	1.94
43252877--43252943	3	23.0	3	71	17	52	28	0	5	65	1.16
43252877--43252943	12	5.8	12	74	13	68	28	0	5	65	1.16
43252873--43252957	18	4.8	18	69	13	61	31	0	5	62	1.19
43253508--43253548	23	1.9	21	85	14	57	53	0	21	24	1.46
43254845--43254870	7	3.7	7	100	0	52	15	0	0	84	0.62
43254946--43254983	19	2.0	19	100	0	76	31	10	26	31	1.90
43255855--43255894	19	2.0	20	86	13	57	77	2	5	15	1.04
43256480--43257588	44	25.4	44	96	1	1991	19	35	17	27	1.94
43257388--43257466	37	2.2	37	81	2	88	26	30	12	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43257344--43257588	80	3.0	81	83	5	249	23	33	15	27	1.95
43257550--43257773	88	2.6	88	89	0	324	27	25	17	28	1.98
43259620--43259649	6	5.0	6	91	0	51	3	33	13	50	1.58
43261747--43261795	19	2.6	19	93	0	80	44	12	18	24	1.84
43263752--43263777	7	3.7	7	100	0	52	15	0	0	84	0.62
43263853--43263890	19	2.0	19	100	0	76	31	10	26	31	1.90
43264120--43264282	78	2.1	77	96	2	299	55	7	9	28	1.58
43264843--43264882	19	2.0	20	86	13	57	77	2	5	15	1.04
43265465--43266269	44	18.4	44	89	1	1204	21	32	17	27	1.96
43266231--43266454	88	2.6	87	90	3	342	27	25	17	29	1.98
43268304--43268333	6	5.0	6	91	0	51	3	33	13	50	1.58
43270423--43270470	19	2.5	19	93	0	87	41	16	20	20	1.90
43272165--43272736	286	2.0	286	97	0	1090	39	16	13	30	1.87
43272773--43272798	7	3.7	7	100	0	52	15	0	0	84	0.62
43273774--43273812	19	2.1	19	85	9	53	76	2	5	15	1.06
43274232--43274281	15	3.3	15	82	0	73	36	2	12	50	1.51
43274925--43274965	19	2.2	19	87	12	59	46	0	24	29	1.53
43279836--43279892	21	2.6	22	73	15	64	28	0	5	66	1.13
43280467--43280507	23	1.9	21	85	14	57	53	0	21	24	1.46
43280937--43280985	15	3.3	15	85	0	71	34	2	12	51	1.51
43281629--43281669	19	2.2	19	87	12	59	46	0	24	29	1.53
43296039--43296091	27	2.0	27	96	0	97	11	1	7	79	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43296044--43296093	13	3.8	13	76	7	57	10	2	8	80	0.99
43298569--43298633	21	3.1	21	78	8	62	75	1	16	6	1.08
43307138--43307162	5	5.0	5	100	0	50	80	0	0	20	0.72
43308295--43308334	19	2.1	19	95	0	71	0	45	7	47	1.31
43309999--43310037	18	2.2	18	100	0	78	43	0	10	46	1.37
43310004--43310043	18	2.2	18	90	0	62	50	0	10	40	1.36
43310520--43310572	18	2.8	19	75	16	56	60	1	5	32	1.31
43310662--43310701	20	2.0	20	90	0	62	50	12	10	27	1.72
43310650--43310716	34	1.9	35	90	3	109	46	13	8	31	1.74
43317414--43317451	19	2.0	20	89	5	60	44	0	2	52	1.14

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