genome.fa.s4.2.7.7.80.10.50.1000.16.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  16  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)
4630258--4630383	54	2.3	54	85	5	166	29	6	21	42	1.77
4630260--4630416	27	5.8	27	75	9	133	28	8	20	42	1.82
4630403--4630506	27	3.9	27	84	3	140	40	8	21	29	1.83
4633042--4633094	26	2.0	26	96	0	97	28	13	33	24	1.93
4633768--4633824	20	2.8	20	97	2	105	17	36	26	19	1.94
4639045--4639179	41	3.3	41	90	1	200	31	22	25	20	1.98
4639795--4639843	24	2.0	24	100	0	98	53	0	4	42	1.20
4643427--4643473	19	2.5	19	76	10	51	21	2	4	72	1.12
4643560--4643589	13	2.4	12	89	10	51	10	0	0	90	0.47
4643596--4643703	43	2.5	43	87	3	146	22	20	31	25	1.98
4643647--4643757	56	2.0	56	92	0	186	24	19	29	26	1.99
4645054--4645113	30	2.0	30	87	6	86	40	6	25	28	1.80
4652619--4652731	27	4.2	26	83	8	127	38	23	22	16	1.93
4652619--4652731	55	2.1	54	85	5	147	38	23	22	16	1.93
4652833--4652880	25	1.9	25	83	8	62	25	16	25	33	1.96
4654147--4654217	24	3.0	24	95	0	124	25	38	1	35	1.65
4670619--4670660	20	2.2	20	86	4	59	71	0	4	23	1.05
4675589--4675641	27	2.0	27	100	0	106	20	33	37	7	1.81
4694682--4694739	27	2.1	27	96	0	107	10	39	29	20	1.86
4697296--4697778	47	10.3	47	99	0	939	33	6	27	31	1.83
4697950--4698028	37	2.1	37	88	4	115	25	18	30	25	1.98
4700070--4700098	13	2.2	13	100	0	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4702943--4703079	40	3.5	40	87	6	165	25	26	24	24	2.00
4710926--4711270	40	8.6	40	97	0	638	26	27	22	22	1.99
4712821--4712927	54	2.0	54	96	0	196	23	10	16	49	1.76
4713676--4713838	34	4.7	34	89	0	218	33	22	16	28	1.95
4714156--4714188	16	1.9	18	88	11	52	33	24	0	42	1.55
4718220--4718323	38	2.7	39	73	7	104	30	27	20	21	1.98
4720909--4721078	3	56.7	3	100	0	340	33	0	0	66	0.92
4721472--4721510	19	2.1	19	100	0	78	43	0	5	51	1.24
4721476--4721520	19	2.4	19	88	7	65	44	0	2	53	1.13
4730929--4730998	28	2.5	28	80	2	95	31	30	14	24	1.94
4734802--4734892	29	3.2	29	80	6	89	28	27	14	29	1.95
4736235--4736359	46	2.7	46	94	0	214	20	23	28	28	1.99
4743655--4743717	7	9.0	7	79	17	69	30	1	1	66	1.10
4745270--4745311	20	2.1	20	86	8	59	52	7	7	33	1.56
4747205--4747361	43	3.7	43	82	3	192	21	17	29	31	1.96
4752276--4752301	13	2.0	13	100	0	52	15	23	38	23	1.92
4753076--4753233	48	3.1	52	80	10	171	38	11	22	27	1.88
4753498--4753594	28	3.4	28	78	5	97	32	16	21	28	1.95
4753584--4754038	111	4.1	111	96	0	777	28	17	25	28	1.98
4756996--4757081	40	2.2	39	83	6	111	36	34	13	15	1.87
4757006--4757081	40	1.9	40	88	0	116	35	34	14	15	1.88
4763220--4763259	20	2.0	20	90	5	62	40	17	10	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4764042--4764117	40	1.9	40	86	0	107	35	32	14	17	1.90
4769641--4769665	6	4.2	6	100	0	50	0	32	0	68	0.90
4772488--4772541	20	2.6	21	91	2	83	27	31	7	33	1.84
4776023--4776086	31	2.1	31	93	0	110	23	23	15	37	1.93
4776306--4776402	25	3.8	26	89	5	146	30	21	22	24	1.99
4776449--4776495	20	2.3	20	100	0	94	34	19	10	36	1.86
4788916--4789054	70	2.0	70	98	0	269	25	17	12	43	1.85
4789894--4789950	29	2.0	29	83	10	73	68	0	22	8	1.17
4791753--4791835	41	2.0	41	100	0	166	34	12	9	43	1.75
4791974--4792081	32	3.0	38	65	25	106	53	5	4	36	1.45
4791939--4792081	70	2.0	70	98	0	277	55	4	4	36	1.39
4799820--4799861	19	2.2	19	86	0	57	64	0	4	30	1.14
4806747--4807016	48	5.6	47	75	6	213	29	27	16	27	1.97
4806752--4807018	96	2.8	97	83	3	299	29	26	16	27	1.97
4806746--4807018	144	1.9	143	83	4	352	29	27	16	27	1.97
4808987--4809164	27	6.6	27	83	5	180	28	28	16	26	1.97
4809008--4809163	82	1.9	81	86	3	224	28	28	16	26	1.97
4811648--4811709	27	2.3	26	78	10	63	51	9	4	33	1.56
4811910--4811950	16	2.6	16	88	7	57	65	0	2	31	1.05
4811910--4811953	3	14.0	3	81	9	52	65	0	2	31	1.05
4811910--4811953	19	2.3	19	88	7	63	65	0	2	31	1.05
4825800--4825917	42	2.8	42	84	6	141	31	14	21	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4831680--4831715	18	2.0	18	94	0	63	41	5	13	38	1.68
4833352--4833450	43	2.3	42	86	3	144	29	15	26	29	1.96
4835091--4835156	28	2.4	28	92	0	105	18	45	18	18	1.86
4836151--4836282	49	2.7	49	83	5	151	19	28	25	27	1.99
4839982--4840067	45	1.9	45	100	0	172	41	18	13	25	1.88
4844183--4844307	48	2.7	46	85	5	144	22	25	20	31	1.98
4845940--4845997	30	1.9	30	85	0	80	41	5	24	29	1.76
4850564--4851697	47	24.1	47	96	1	2002	30	12	31	25	1.92
4851923--4852037	37	3.1	37	86	3	115	23	20	30	26	1.98
4851953--4852055	37	2.8	37	92	0	161	24	20	29	26	1.99
4853367--4853471	19	5.0	19	68	28	70	37	9	4	48	1.57
4853345--4853471	43	3.0	43	100	0	254	36	9	4	49	1.56
4853351--4853464	24	5.2	24	69	26	108	36	9	4	49	1.56
4853656--4853689	17	2.0	17	88	11	52	61	5	0	32	1.20
4854220--4854259	21	2.0	20	90	5	62	32	15	15	37	1.88
4856137--4856187	26	2.0	26	100	0	102	33	3	3	58	1.35
4861200--4861472	47	5.8	45	71	17	173	28	16	29	25	1.97
4868864--4869073	46	4.5	46	77	8	203	25	20	31	22	1.98
4871638--4871687	21	2.4	21	96	0	91	18	34	28	20	1.95
4875282--4875452	46	3.7	46	79	6	184	27	19	29	23	1.98
4877636--4877818	51	3.6	50	83	4	215	28	28	14	27	1.95
4877636--4877813	52	3.5	52	87	4	222	28	28	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4881244--4881381	44	3.2	42	82	7	109	31	24	18	24	1.98
4881220--4881381	43	3.8	41	78	8	146	32	25	18	24	1.97
4897451--4897492	15	2.8	15	92	0	66	11	19	14	54	1.70
4897450--4897498	15	3.3	15	83	8	55	10	20	14	55	1.68
4900145--4900321	46	3.9	44	73	11	149	23	19	26	31	1.98
4900142--4900313	93	1.8	93	86	0	245	22	19	27	30	1.98
4904791--4904816	6	4.3	6	100	0	52	84	0	0	15	0.62
4907269--4907306	17	2.2	17	86	9	51	57	0	10	31	1.32
4907580--4907606	14	1.9	14	100	0	54	0	25	0	74	0.83
4925472--4925505	17	1.9	17	88	5	50	14	32	41	11	1.82
4925840--4926009	27	6.3	27	79	6	141	37	22	10	29	1.88
4928130--4928206	12	6.4	12	75	8	50	35	1	33	29	1.66
4928143--4928212	36	1.9	37	86	13	101	40	1	32	25	1.65
4928131--4928206	24	3.2	24	70	10	66	35	1	34	28	1.66
4929520--4929650	27	4.9	27	85	0	145	39	21	9	29	1.84
4929522--4929676	54	2.9	54	79	4	143	40	20	9	29	1.84
4929603--4929691	27	3.3	27	85	3	108	42	17	10	29	1.82
4929505--4929676	81	2.1	81	77	4	186	39	21	9	29	1.85
4929933--4930022	27	3.4	26	79	8	101	22	20	18	38	1.93
4933175--4933346	27	6.4	27	81	7	181	37	21	10	30	1.87
4933174--4933319	54	2.7	54	87	2	204	37	21	10	30	1.87
4933176--4933346	81	2.1	81	84	2	227	38	21	9	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933271--4933359	27	3.3	27	82	3	99	40	19	11	29	1.86
4933592--4933676	27	3.2	26	70	6	71	22	20	17	40	1.92
4940290--4940594	40	7.6	39	75	6	245	30	14	31	23	1.94
4940310--4940580	80	3.4	80	88	1	400	30	12	32	24	1.93
4940316--4940581	120	2.2	120	77	9	281	30	13	32	23	1.93
4958584--4958751	40	4.2	40	83	4	106	25	27	23	23	2.00
4958607--4958751	40	3.6	40	85	4	193	23	26	24	25	2.00
4959940--4960053	38	3.0	38	98	0	219	30	24	13	31	1.93
4964355--4964751	48	8.4	48	91	1	613	37	6	24	31	1.81
4966140--4966234	40	2.4	40	98	0	181	25	22	27	25	2.00

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