genome.fa.s4.2.7.7.80.10.50.1000.34.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  34  of  235  ( 28198 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)
11020452--11020571	23	5.1	23	94	3	204	30	20	20	28	1.97
11020452--11020572	47	2.6	47	97	0	224	30	20	19	28	1.97
11020618--11020668	20	2.7	20	82	17	72	35	19	13	31	1.91
11020705--11020752	25	1.9	25	86	0	69	27	14	25	33	1.94
11028272--11028335	31	2.1	31	87	0	92	26	23	12	37	1.90
11028529--11028670	24	6.0	24	87	5	200	30	22	19	27	1.98
11028550--11028669	23	5.1	23	91	3	186	31	21	19	27	1.97
11028550--11028670	47	2.6	46	92	5	197	31	21	19	28	1.97
11028722--11028786	20	3.2	20	93	0	112	32	21	12	33	1.90
11028722--11028775	11	5.3	11	70	17	53	31	20	12	35	1.90
11034479--11034514	18	1.9	19	88	5	56	72	25	0	2	0.98
11035671--11035702	5	6.6	5	92	7	57	18	0	0	81	0.70
11035671--11035701	9	3.3	9	91	8	53	19	0	0	80	0.71
11040097--11040128	5	6.6	5	92	7	57	18	0	0	81	0.70
11040097--11040127	9	3.3	9	91	8	53	19	0	0	80	0.71
11043999--11044025	12	2.2	12	100	0	54	25	44	22	7	1.79
11046503--11046536	17	2.0	17	88	0	50	52	14	5	26	1.64
11047332--11047387	29	2.0	28	85	3	76	33	25	1	39	1.66
11053527--11053735	78	2.7	78	82	3	267	25	21	18	34	1.96
11059789--11059877	7	12.6	7	73	2	61	47	30	1	21	1.58
11059823--11059902	22	3.7	23	74	14	55	47	25	1	26	1.60
11060191--11060236	20	2.4	20	82	7	51	63	4	4	28	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11060243--11060353	41	2.7	41	97	0	204	31	27	22	18	1.97
11061460--11061502	18	2.4	18	84	7	52	51	4	16	27	1.64
11065251--11065303	17	3.1	16	75	20	54	56	1	7	33	1.38
11067144--11067200	3	18.3	3	78	7	60	29	7	3	59	1.40
11067673--11067711	17	2.3	17	82	13	53	25	10	7	56	1.59
11076326--11076360	18	1.9	18	88	11	54	20	0	5	74	1.02
11077494--11077549	17	3.5	15	77	18	51	30	0	3	66	1.09
11077735--11077766	15	2.1	15	100	0	64	31	6	6	56	1.49
11079113--11079163	22	2.3	22	86	6	68	37	15	19	27	1.92
11080877--11081051	42	4.2	42	78	4	138	33	25	10	30	1.90
11088768--11088805	6	6.3	6	96	0	67	15	2	0	81	0.80
11091140--11091283	45	3.2	45	73	4	130	34	19	20	26	1.96
11091339--11091726	180	2.1	181	86	2	539	30	17	23	28	1.97
11091594--11091867	148	1.9	147	91	2	451	31	16	24	27	1.97
11092892--11092930	13	2.8	13	88	7	51	79	0	5	15	0.90
11093002--11093056	3	17.7	3	77	7	56	58	3	7	30	1.43
11096188--11096216	14	2.0	15	93	6	51	17	13	13	55	1.70
11102989--11103023	17	2.0	18	94	5	63	42	17	5	34	1.73
11103177--11103374	70	2.8	71	81	7	183	28	18	20	32	1.96
11104624--11104660	17	2.2	17	90	0	56	18	5	2	72	1.15
11120899--11120930	14	2.3	14	100	0	64	31	46	15	6	1.71
11125855--11125940	42	2.0	42	100	0	172	36	16	2	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11133668--11133707	18	2.2	18	86	8	55	20	0	12	67	1.22
11153412--11153456	18	2.5	18	81	0	54	28	37	13	20	1.90
11153619--11153664	18	2.6	17	83	10	56	36	23	8	30	1.85
11153647--11153706	21	2.9	21	82	0	75	36	20	5	38	1.74
11158718--11158774	18	3.1	18	87	5	69	52	3	0	43	1.18
11172506--11172770	103	2.6	104	91	0	424	29	30	20	19	1.97
11173098--11173162	30	2.2	29	81	8	76	30	27	6	35	1.81
11173105--11173162	30	1.9	30	85	0	80	31	24	6	37	1.82
11180102--11180325	104	2.2	104	93	1	378	31	31	19	17	1.95
11180654--11180717	30	2.2	29	81	10	76	29	28	6	35	1.82
11180661--11180717	30	1.9	30	85	3	80	29	24	7	38	1.82
11182355--11182474	43	2.8	42	81	7	152	29	16	25	29	1.97
11185294--11185344	21	2.5	21	87	3	68	47	23	13	15	1.82
11189720--11189780	20	3.1	20	81	6	63	62	1	1	34	1.15
11190206--11190456	88	2.8	86	83	8	292	38	10	17	33	1.84
11191704--11191782	35	2.3	35	95	0	140	29	40	22	7	1.82
11191816--11191865	26	2.0	24	88	7	73	64	6	0	30	1.18
11191836--11191894	21	2.8	21	78	12	59	69	8	0	22	1.15
11198468--11198856	132	3.0	131	82	3	442	28	18	17	36	1.93
11198498--11198856	131	2.7	132	82	3	404	27	18	17	36	1.94
11201693--11201731	21	1.9	20	89	5	60	33	0	20	46	1.51
11202836--11202866	16	1.9	16	93	0	53	41	0	3	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11202946--11202976	12	2.6	12	94	0	53	74	0	25	0	0.82
11206828--11206853	6	4.3	6	100	0	52	30	0	0	69	0.89
11209560--11209719	26	6.2	26	96	0	284	36	25	6	31	1.82
11210710--11210823	10	12.0	10	70	15	82	63	2	1	32	1.19
11210710--11210828	18	6.4	16	76	19	76	63	3	1	31	1.20
11210710--11210817	38	2.9	37	77	16	114	62	2	1	32	1.20
11210761--11210819	9	6.6	9	73	21	52	66	5	1	27	1.22
11211220--11211264	16	2.8	16	84	15	58	37	2	0	60	1.09
11215297--11215375	25	3.2	25	77	13	90	24	25	22	27	2.00
11215275--11215384	50	2.2	50	88	0	157	24	20	22	31	1.98
11220453--11220554	40	2.5	40	90	0	150	28	24	21	25	1.99
11222797--11222870	26	2.8	25	76	13	71	37	6	18	36	1.78
11231772--11231851	42	1.9	42	82	5	99	35	16	13	35	1.88
11236193--11236221	15	1.9	15	100	0	58	48	34	10	6	1.64
11240066--11240105	9	4.4	9	100	0	80	67	10	0	22	1.20
11242306--11242883	287	2.0	289	90	0	917	36	15	14	33	1.88
11243597--11243667	35	2.0	35	88	0	106	26	25	9	38	1.87
11258198--11258230	14	2.2	16	89	10	52	36	0	0	63	0.95
11258662--11258704	18	2.4	18	84	0	59	76	4	9	9	1.14
11258846--11258894	3	17.7	3	76	16	52	65	0	34	0	0.93
11258850--11258889	16	2.5	16	100	0	80	62	0	37	0	0.95
11258850--11258890	8	5.1	8	78	21	50	63	0	36	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11259498--11260364	144	6.1	128	71	18	304	55	6	7	29	1.54
11260214--11260274	13	4.3	14	74	24	56	72	3	0	24	1.00
11267799--11267864	26	2.7	25	88	6	91	45	9	6	39	1.61
11267957--11267986	8	3.6	8	91	8	51	0	16	0	83	0.65
11267968--11268038	15	4.9	14	72	23	51	1	30	0	67	0.99
11267983--11268023	21	2.0	21	85	9	57	0	39	0	60	0.96
11268149--11268195	20	2.4	19	92	3	76	6	8	6	78	1.08
11279156--11279188	17	1.9	18	88	11	52	42	0	15	42	1.46
11279964--11280004	17	2.6	16	88	11	66	26	2	4	65	1.25
11280448--11280489	21	2.0	21	100	0	84	14	9	23	52	1.71
11284291--11284490	39	5.2	39	85	0	267	14	20	30	34	1.92
11312855--11312980	43	3.0	43	83	4	166	12	19	17	50	1.77
11317981--11318060	33	2.5	33	79	6	92	25	11	3	60	1.47
11319667--11319715	24	2.0	24	88	0	71	40	20	8	30	1.81
11319925--11319950	12	2.2	12	100	0	52	15	34	15	34	1.89
11320784--11320871	42	2.1	42	82	0	104	45	7	21	25	1.79
11327711--11327743	12	2.8	12	95	0	57	27	27	0	45	1.54
11328894--11328918	7	3.6	7	100	0	50	28	0	12	60	1.32
11329496--11329530	18	1.9	18	94	0	61	31	25	0	42	1.55
11333044--11333560	126	4.1	126	81	5	505	30	16	15	37	1.89
11333627--11333732	34	3.2	33	79	10	126	47	14	0	38	1.44
11333777--11333826	21	2.4	21	96	0	91	48	20	0	32	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11333817--11333854	15	2.6	15	91	4	60	55	34	0	10	1.34
11336111--11336179	21	3.3	21	84	12	88	47	0	0	52	1.00
11336128--11336152	13	1.9	13	100	0	50	40	0	0	60	0.97
11336108--11336180	20	3.7	19	79	17	78	46	0	0	53	1.00
11336130--11336185	18	2.9	19	80	15	55	50	0	0	50	1.00
11336202--11336256	16	3.2	16	80	12	56	38	0	0	61	0.96
11336202--11336256	17	3.2	16	77	12	56	38	0	0	61	0.96
11336202--11336283	19	4.7	17	72	11	51	40	0	0	59	0.97
11336237--11336275	19	2.1	19	85	4	53	33	0	0	66	0.92
11337145--11337181	18	2.1	18	90	5	58	70	0	0	29	0.88

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235