genome.fa.s8.2.7.7.80.10.50.1000.13.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   

This is table  13  of  279  ( 33431 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)
4180057--4180123	36	1.9	34	87	6	98	38	1	0	59	1.06
4180057--4180132	36	2.2	36	83	9	95	38	1	0	60	1.05
4183741--4183806	33	2.0	33	100	0	132	24	21	15	39	1.91
4188170--4188219	9	5.6	9	92	0	82	52	0	14	34	1.42
4188185--4188223	3	13.0	3	83	0	51	58	0	7	33	1.26
4189992--4190035	21	2.1	21	95	0	79	11	9	29	50	1.69
4192552--4192757	104	1.9	108	87	5	305	48	2	9	39	1.50
4195370--4195414	20	2.2	21	84	11	58	53	2	0	44	1.13
4195541--4195597	27	2.1	27	86	0	78	28	14	7	50	1.68
4195572--4195702	58	2.3	58	83	0	172	35	18	11	34	1.87
4199673--4199744	36	2.0	36	97	0	135	26	16	15	41	1.88
4200623--4200657	12	2.6	14	82	17	56	42	0	0	57	0.99
4208301--4208356	27	2.1	27	100	0	112	21	28	3	46	1.68
4211070--4211100	16	1.9	16	93	0	53	61	19	12	6	1.53
4215242--4215267	11	2.4	11	100	0	52	65	19	0	15	1.27
4215251--4215315	31	2.1	31	100	0	130	69	9	6	15	1.35
4217051--4217084	16	2.1	17	88	5	52	52	2	2	41	1.31
4221080--4221118	15	2.5	15	87	4	51	53	2	0	43	1.14
4222643--4222766	9	13.6	9	70	14	76	66	2	1	29	1.13
4222643--4222766	19	6.8	18	68	17	76	66	2	1	29	1.13
4222801--4222858	22	2.7	22	81	5	66	63	3	1	31	1.21
4223019--4223058	16	2.5	15	88	4	53	22	0	5	72	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4223757--4223794	17	2.2	18	85	4	51	42	0	2	55	1.14
4231563--4231591	12	2.5	12	94	5	51	27	6	6	58	1.50
4231670--4231708	19	2.0	20	95	5	71	15	0	12	71	1.14
4238060--4238154	47	2.0	47	97	0	181	38	17	16	26	1.91
4238404--4238476	36	2.0	36	97	0	137	41	17	8	32	1.79
4248190--4248301	31	3.8	30	74	8	88	28	8	8	54	1.60
4252818--4252856	18	2.0	20	90	9	64	53	0	0	46	1.00
4252829--4252893	34	1.9	34	83	0	85	52	1	3	43	1.26
4254331--4254507	98	1.8	98	80	7	216	32	14	10	42	1.80
4254640--4254665	13	2.0	13	100	0	52	0	7	0	92	0.39
4260964--4261009	14	3.2	15	75	6	51	67	8	2	21	1.29
4262400--4262460	27	2.3	27	82	2	79	52	14	8	24	1.69
4265830--4265865	15	2.4	15	85	0	54	58	2	0	38	1.13
4265830--4266063	11	21.5	11	66	32	68	55	4	5	35	1.42
4265829--4266113	66	4.3	66	99	0	563	55	4	5	34	1.44
4265896--4265931	15	2.4	15	85	0	54	58	2	0	38	1.13
4265962--4265997	15	2.4	15	85	0	54	58	2	0	38	1.13
4266028--4266063	15	2.4	15	85	0	54	58	2	0	38	1.13
4266118--4266171	21	2.5	21	80	11	65	61	0	9	29	1.27
4266562--4266604	23	1.9	22	90	4	68	48	4	9	37	1.56
4266652--4266690	18	2.0	20	85	9	55	61	2	2	33	1.23
4268885--4268928	20	2.1	21	87	4	63	68	4	0	27	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4268896--4268934	20	2.0	20	84	0	51	74	5	0	20	1.01
4272591--4272729	69	2.0	69	98	0	269	36	17	18	26	1.94
4280257--4280302	24	1.9	24	90	0	74	43	13	10	32	1.78
4280431--4280464	17	2.0	17	88	0	50	44	0	8	47	1.34
4282021--4282118	49	2.0	49	100	0	196	24	14	18	42	1.87
4283092--4283160	22	3.4	21	75	15	56	59	0	2	37	1.12
4283474--4283511	19	1.9	19	89	5	58	55	0	10	34	1.34
4283474--4283518	19	2.4	19	80	0	54	60	0	8	31	1.28
4283712--4283781	29	2.4	29	80	2	77	55	2	1	40	1.23
4284262--4284312	23	2.1	25	89	7	79	31	0	1	66	1.03
4284662--4284696	18	1.9	17	88	11	52	57	0	8	34	1.29
4284722--4284770	22	2.3	21	86	13	66	69	4	0	26	1.06
4284734--4284778	20	2.2	21	80	7	58	62	4	2	31	1.27
4288160--4288216	20	2.8	20	84	10	71	57	7	0	35	1.26
4288160--4288223	20	3.2	20	80	10	60	56	7	0	35	1.28
4289984--4290027	23	2.0	22	81	4	52	56	11	2	29	1.46
4291302--4291592	146	2.0	145	89	4	442	26	7	25	41	1.81
4294882--4294933	23	2.2	24	86	3	70	36	3	5	53	1.43
4299908--4300648	66	11.2	67	84	2	833	26	5	43	24	1.76
4299912--4300771	132	6.6	133	80	4	891	27	5	42	25	1.75
4299908--4300790	198	4.5	198	81	3	943	27	5	42	24	1.76
4300651--4300814	66	2.5	66	82	0	202	31	4	37	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4306215--4306274	17	3.5	17	74	21	63	65	0	1	33	1.03
4306762--4306887	17	6.9	18	86	5	166	36	15	10	38	1.81
4306762--4306879	35	3.3	35	93	3	191	36	14	11	38	1.81
4307984--4308015	6	5.3	6	92	0	55	68	0	28	3	1.04
4309308--4309583	90	3.1	90	91	0	462	28	4	41	25	1.75
4309520--4310348	66	12.7	66	84	5	1078	25	5	45	23	1.74
4309520--4310348	270	3.2	264	85	6	1079	25	5	45	23	1.74
4309950--4310329	120	3.1	120	83	5	429	25	6	44	24	1.76
4313858--4313896	14	2.8	14	81	14	53	43	7	12	35	1.72
4314367--4314403	19	1.9	19	88	0	56	45	0	5	48	1.25
4314438--4314474	16	2.3	16	86	13	58	40	0	0	59	0.97
4314469--4314537	33	2.2	30	89	7	102	55	0	4	40	1.20
4326254--4326431	27	6.6	27	84	3	205	29	28	15	26	1.96
4326275--4326430	82	1.9	81	88	3	233	29	28	15	26	1.96
4328163--4328209	20	2.3	20	92	0	76	21	40	25	12	1.89
4328773--4328807	16	2.1	17	89	5	54	42	11	0	45	1.40
4332821--4332856	3	12.0	3	87	0	54	36	0	61	2	1.11
4332855--4332892	3	12.7	3	88	0	58	5	0	63	31	1.17
4333910--4334071	54	3.0	54	90	0	261	40	5	35	17	1.73
4334150--4334253	54	1.9	53	92	1	172	38	4	37	19	1.73
4334360--4335061	54	13.0	54	99	0	1368	41	5	36	16	1.72
4334082--4334467	210	1.8	210	92	1	657	35	6	36	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4334954--4335637	210	3.3	210	91	2	1113	39	6	34	19	1.77
4335164--4335271	54	2.0	54	88	0	162	43	6	33	16	1.74
4335374--4335481	54	2.0	54	90	0	171	41	4	35	18	1.71
4335640--4335836	6	32.8	6	75	4	119	45	14	21	18	1.84
4335632--4335913	12	23.5	12	74	8	146	45	14	23	15	1.84
4335632--4335883	42	6.0	42	82	3	238	45	13	23	17	1.84
4335640--4335923	18	15.8	18	73	8	157	46	14	23	15	1.83
4335638--4335923	42	6.8	43	83	3	235	45	14	23	15	1.83
4335640--4335881	30	8.3	31	71	12	86	45	14	23	16	1.84
4335868--4335919	24	2.2	24	82	6	61	51	19	23	5	1.67
4335965--4336090	6	21.0	6	75	6	94	40	19	30	9	1.84
4335973--4336090	18	6.6	18	79	7	105	41	19	29	9	1.83
4335967--4336148	36	5.2	36	74	11	128	43	21	28	6	1.77
4336021--4336148	24	5.3	24	84	5	143	45	23	27	3	1.70
4336033--4336148	12	9.7	12	80	3	126	45	23	27	3	1.69
4339053--4339125	3	24.3	3	97	0	137	65	0	1	32	1.01
4339150--4339186	13	2.8	13	87	0	56	83	2	0	13	0.74
4339150--4339196	18	2.6	18	83	9	60	82	4	0	12	0.80
4339152--4339203	18	2.9	17	78	18	52	80	3	1	13	0.93
4343947--4343993	21	2.2	22	92	3	78	21	38	19	21	1.94
4347155--4347184	15	2.0	15	100	0	60	33	20	26	20	1.97
4348252--4348276	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4352491--4352550	30	2.0	30	90	0	93	30	25	8	36	1.85
4352621--4352646	12	2.2	12	100	0	52	50	26	0	23	1.50
4356427--4356474	24	2.0	24	95	0	87	43	20	10	25	1.83
4361095--4361172	19	4.4	19	73	18	62	42	11	6	39	1.67
4361072--4361204	51	2.6	51	84	0	185	42	12	6	39	1.67
4366294--4366371	19	4.4	19	73	18	62	42	11	6	39	1.67
4366271--4366403	51	2.6	51	84	0	185	42	12	6	39	1.67
4366942--4367039	50	2.0	50	97	0	187	35	8	20	35	1.82
4369930--4370123	30	6.5	30	69	9	135	30	46	9	13	1.74
4369856--4370178	120	2.7	120	90	0	511	30	45	8	16	1.77

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279