genome.fa.s10.2.7.7.80.10.50.1000.13.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  13  of  172  ( 20562 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)
4125396--4125441	22	2.1	22	83	0	56	19	10	13	56	1.66
4127173--4127211	19	2.1	19	85	4	53	25	10	17	46	1.80
4130526--4130584	23	2.6	22	82	10	75	44	20	3	32	1.68
4141674--4141707	16	2.1	16	88	5	50	55	2	14	26	1.53
4145237--4145271	13	2.7	13	86	0	52	28	8	25	37	1.85
4145505--4145565	19	3.1	19	81	9	70	50	0	1	47	1.10
4146390--4146422	17	1.9	17	100	0	66	57	12	6	24	1.57
4147130--4147261	42	3.1	42	73	6	106	24	25	24	25	2.00
4148538--4148570	17	2.1	16	88	11	50	30	0	0	69	0.88
4148630--4148675	22	2.2	22	84	7	60	26	0	4	69	1.07
4148646--4148693	26	1.9	24	87	8	69	31	0	4	64	1.12
4150834--4150945	52	2.2	52	90	3	172	50	10	20	18	1.77
4152332--4152449	61	1.9	61	89	3	184	16	17	24	41	1.89
4157061--4157130	31	2.3	31	76	0	77	28	24	20	27	1.99
4157138--4157421	50	5.5	50	88	6	433	27	22	14	35	1.93
4157300--4157330	7	4.6	7	92	8	55	25	29	0	45	1.54
4157300--4157330	13	2.3	14	94	5	55	25	29	0	45	1.54
4157138--4157421	107	2.7	104	92	4	459	27	22	14	35	1.93
4174340--4174402	31	2.0	31	90	6	99	28	26	0	44	1.55
4174341--4174408	20	3.3	20	86	8	100	26	29	1	42	1.64
4174340--4174402	11	5.9	11	88	7	103	28	26	0	44	1.55
4179834--4180367	127	4.2	126	87	1	737	29	19	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4180476--4180649	96	1.8	96	91	0	285	40	13	1	44	1.52
4183661--4183772	51	2.2	51	90	0	170	39	10	22	27	1.87
4184491--4184516	11	2.4	11	100	0	52	34	7	26	30	1.85
4185208--4185237	16	1.9	15	93	6	51	60	16	0	23	1.36
4197114--4197288	46	3.8	45	77	10	174	29	29	20	21	1.98
4197122--4197293	93	1.8	93	89	0	272	28	30	20	20	1.98
4197165--4197308	46	3.1	46	74	7	139	29	29	19	21	1.98
4198915--4199035	42	2.9	41	77	4	125	33	25	10	30	1.90
4201133--4201166	17	2.0	17	88	0	50	47	11	5	35	1.65
4213751--4213906	83	1.9	81	83	8	201	40	16	17	25	1.90
4216835--4216870	16	2.2	17	90	5	56	69	0	16	13	1.19
4220491--4220727	125	1.9	125	98	0	456	34	10	20	35	1.86
4220931--4220973	5	8.6	5	100	0	86	39	0	0	60	0.97
4220988--4221310	158	2.0	158	98	0	619	47	8	21	22	1.78
4231011--4231123	20	5.7	20	79	8	113	41	18	26	13	1.87
4231011--4231123	40	2.8	40	83	0	145	41	18	26	13	1.87
4232957--4233001	20	2.3	20	85	7	58	46	17	2	33	1.61
4233170--4233217	19	2.5	19	77	9	53	47	16	2	33	1.58
4240381--4240421	5	8.2	5	94	0	73	78	0	19	2	0.87
4243317--4243369	14	3.8	14	82	5	54	26	0	24	49	1.51
4243331--4243376	14	3.3	14	84	0	56	26	0	26	47	1.52
4243395--4243424	14	2.1	14	93	0	51	6	16	46	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4243436--4243530	7	14.0	7	75	10	63	24	1	32	42	1.62
4243436--4243529	13	7.0	13	73	11	73	24	1	31	42	1.62
4248613--4248651	6	6.5	6	87	0	60	2	30	15	51	1.57
4258037--4258111	38	2.0	38	94	0	132	38	22	9	29	1.85
4260194--4260711	259	2.0	259	97	0	973	30	28	26	14	1.95
4261579--4262441	42	20.2	42	82	7	428	20	33	28	17	1.96
4261895--4261960	19	3.3	19	64	15	51	15	25	36	22	1.93
4261772--4262567	84	9.3	85	84	9	661	19	30	30	19	1.96
4261717--4262567	126	6.6	125	78	10	708	19	31	30	18	1.96
4262430--4262541	23	5.2	23	58	16	60	17	25	32	25	1.97
4262415--4262576	42	3.9	42	98	0	306	16	27	32	23	1.96
4262408--4262639	84	2.9	77	84	8	232	17	28	32	21	1.96
4262842--4262889	24	2.0	24	91	0	78	16	35	39	8	1.79
4263288--4263408	58	2.1	59	90	1	190	24	22	22	30	1.99
4267904--4268382	240	2.0	240	98	0	933	27	25	23	22	2.00
4270159--4272038	85	22.2	85	83	4	2038	17	32	33	16	1.92
4270159--4272063	42	44.9	43	81	4	2022	17	33	33	16	1.92
4270250--4272063	127	14.3	127	80	7	1891	17	32	33	15	1.92
4270159--4272063	212	9.0	211	81	5	1946	17	33	33	16	1.92
4272227--4272300	24	3.1	24	94	0	121	13	33	41	10	1.79
4272697--4272818	58	2.1	59	89	1	183	23	21	23	31	1.98
4272851--4272901	24	2.1	24	85	0	66	17	33	35	13	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4273280--4273646	187	2.0	186	96	0	680	24	26	26	21	1.99
4279168--4279836	334	2.0	334	98	0	1286	21	29	22	26	1.99
4280368--4280839	234	2.0	234	95	0	854	29	25	29	15	1.96
4281557--4282163	86	7.1	86	92	3	884	20	37	26	15	1.93
4281553--4282453	43	21.2	42	72	10	395	20	36	27	15	1.93
4281589--4283090	85	17.7	84	85	5	1077	19	33	30	15	1.93
4281612--4283140	170	9.0	168	86	5	1220	19	33	30	15	1.93
4281933--4283140	42	28.5	43	81	3	1152	19	32	31	15	1.93
4282090--4283141	85	12.4	86	83	4	1199	18	32	33	16	1.93
4283362--4283486	63	2.0	62	90	1	196	17	28	40	13	1.87
4283813--4283933	58	2.1	59	87	1	172	23	20	23	32	1.98
4284593--4284626	10	3.4	10	91	0	50	20	29	41	8	1.82
4284665--4284740	38	2.0	38	89	0	116	15	51	21	11	1.75
4284982--4285124	72	2.0	72	91	0	232	16	35	29	18	1.93
4286173--4286306	46	3.0	44	81	4	142	35	14	23	26	1.93
4286173--4286287	44	2.5	46	84	2	135	36	13	21	27	1.92
4291340--4291411	5	14.8	5	74	21	64	38	1	4	55	1.28
4291369--4291411	19	2.3	19	92	8	70	41	2	0	55	1.12
4291421--4291454	17	2.0	17	94	0	59	79	0	17	2	0.86
4291421--4291454	9	3.9	9	84	7	52	79	0	17	2	0.86
4292416--4292530	44	2.6	44	85	2	149	35	13	22	27	1.92
4292416--4292549	46	3.0	45	82	4	153	35	14	23	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4302626--4302653	6	4.7	6	100	0	56	67	14	17	0	1.22
4303908--4303945	20	1.9	20	89	10	60	21	0	15	63	1.31
4304359--4304437	39	2.0	39	97	0	149	34	24	15	26	1.94
4306650--4306691	17	2.5	17	88	0	66	45	2	2	50	1.27
4312015--4312054	16	2.6	16	84	4	55	40	5	12	42	1.64
4314643--4314736	35	2.7	35	83	4	111	37	22	22	18	1.94
4314715--4314888	74	2.3	75	82	1	208	33	17	22	25	1.96
4319638--4319861	116	1.9	115	96	0	412	39	15	8	37	1.77
4320167--4320217	15	3.5	15	73	21	54	64	0	1	33	1.05
4320260--4320294	18	1.9	18	88	0	52	51	5	5	37	1.50
4323129--4323165	18	2.1	18	100	0	74	48	0	35	16	1.46
4324231--4324257	13	2.1	13	100	0	54	48	7	29	14	1.71
4333435--4333460	12	2.2	12	100	0	52	30	11	50	7	1.67
4336072--4336137	32	2.1	32	97	0	123	36	6	13	43	1.69
4341605--4341745	66	2.1	66	88	2	212	17	9	29	43	1.81
4344135--4344178	18	2.4	18	88	3	61	50	13	2	34	1.55
4346612--4346671	23	2.8	22	76	16	63	35	8	16	40	1.79
4356220--4356276	18	3.4	17	75	4	53	71	1	7	19	1.17
4356297--4356371	3	25.0	3	75	0	60	56	2	6	34	1.40
4356297--4356371	21	3.6	21	78	3	80	56	2	6	34	1.40
4360223--4360299	40	1.9	40	83	0	100	15	15	33	35	1.89
4378502--4378655	56	2.8	56	85	3	177	24	20	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4391559--4391736	27	6.6	27	84	3	205	29	28	15	26	1.96
4391580--4391735	82	1.9	81	88	3	233	29	28	15	26	1.96
4397487--4397571	42	2.0	42	100	0	170	28	16	17	37	1.92
4401002--4401061	10	6.0	10	81	11	70	68	1	10	20	1.27
4403130--4403317	96	1.9	98	91	2	308	30	25	14	29	1.95
4404064--4404143	10	7.3	10	74	21	63	75	5	1	18	1.06
4404062--4404145	15	5.1	15	77	20	64	76	4	1	17	1.03
4407082--4407115	18	1.9	18	94	5	61	55	5	11	26	1.58
4407837--4407896	20	3.0	20	83	9	86	66	1	10	21	1.30
4407837--4407896	10	6.0	10	82	9	70	66	1	10	21	1.30

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