genome.fa.s23.2.7.7.80.10.50.1000.118.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  118  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)
39495583--39495752	87	2.0	87	97	2	324	28	10	30	30	1.90
39496097--39496157	17	3.7	16	85	12	63	1	27	3	67	1.16
39499685--39499841	43	3.7	41	76	9	145	28	26	18	26	1.98
39499685--39499844	86	1.9	86	81	5	198	28	26	18	25	1.98
39500663--39500693	13	2.4	13	94	0	53	3	19	3	74	1.10
39528385--39528467	24	3.5	24	72	6	60	31	30	12	26	1.92
39528445--39528538	24	3.9	24	87	5	136	35	31	13	19	1.91
39528966--39528996	14	2.2	14	94	0	53	58	16	0	25	1.38
39532651--39532807	43	3.7	41	75	9	136	29	26	17	26	1.97
39532651--39532810	86	1.9	86	84	2	214	30	26	17	25	1.97
39532691--39532823	43	3.1	40	79	13	133	32	24	17	25	1.97
39534842--39534998	43	3.6	44	73	13	157	32	21	19	27	1.97
39537073--39537105	5	6.6	5	100	0	66	57	0	0	42	0.98
39539281--39539430	79	1.9	79	83	2	194	47	10	10	32	1.71
39544194--39544218	2	12.5	2	100	0	50	0	0	52	48	1.00
39546186--39546248	31	2.0	31	100	0	126	19	6	28	46	1.74
39551506--39551532	5	5.4	5	100	0	54	18	0	0	81	0.69
39555025--39555101	29	2.6	30	85	6	95	31	25	7	35	1.85
39555162--39555239	29	2.7	29	86	7	113	21	28	11	38	1.88
39555221--39555344	29	4.3	29	86	2	169	29	19	12	38	1.88
39556445--39556525	38	2.2	38	95	2	146	46	3	20	28	1.68
39558085--39558174	46	2.0	46	88	4	137	25	20	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39565499--39565622	47	2.7	46	79	10	135	27	20	29	21	1.98
39565497--39565713	46	4.7	44	72	14	143	28	19	29	22	1.98
39571507--39571571	21	3.1	21	97	0	121	24	32	6	36	1.80
39571790--39571843	28	1.9	28	92	0	90	22	20	24	33	1.97
39572875--39572930	28	2.0	29	89	10	89	19	46	19	14	1.84
39575951--39576231	47	5.9	48	78	10	258	24	31	18	25	1.98
39575954--39576224	96	2.9	92	82	8	298	24	31	18	25	1.98
39580236--39580260	13	1.9	13	100	0	50	16	44	32	8	1.76
39588254--39588411	68	2.3	68	77	11	160	20	28	15	34	1.94
39594101--39594437	40	8.5	40	95	2	574	25	27	23	23	2.00
39604475--39604651	40	4.5	40	89	4	245	24	27	23	24	2.00
39604475--39604651	79	2.2	80	87	5	245	24	27	23	24	2.00
39612505--39612725	99	2.3	92	82	11	245	25	29	19	25	1.98
39612463--39612821	46	7.6	49	76	12	256	24	29	19	26	1.98
39612502--39612770	138	1.9	144	83	6	354	25	29	19	25	1.98
39612555--39612822	94	2.9	91	79	13	280	24	30	19	26	1.98
39612547--39612818	140	1.9	140	81	8	329	23	30	19	26	1.98
39613825--39613856	14	2.4	13	90	10	55	62	12	6	18	1.50
39623976--39624116	60	2.6	50	74	19	147	24	29	18	28	1.98
39623991--39624106	60	1.9	60	91	0	187	25	27	18	28	1.98
39624092--39624252	46	3.5	46	86	4	211	23	29	18	27	1.98
39628258--39628369	46	2.5	45	89	7	165	25	31	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39629076--39629100	13	1.9	13	100	0	50	64	16	4	16	1.44
39644137--39644261	40	3.1	40	78	10	130	24	21	28	25	1.99
39656665--39656709	23	2.0	23	86	8	65	4	31	0	64	1.13
39656948--39656988	21	2.0	20	85	4	55	2	21	56	19	1.54
39657139--39657198	26	2.4	24	83	8	75	68	3	0	28	1.05
39659614--39659661	20	2.5	20	86	10	64	25	6	2	66	1.26
39661610--39661634	12	2.1	12	100	0	50	52	8	24	16	1.70
39674669--39674746	37	2.1	36	83	6	95	38	10	12	38	1.78
39674788--39674840	23	2.3	22	78	15	54	60	1	11	26	1.41
39677232--39677366	63	2.1	63	91	0	216	22	10	20	46	1.81
39678090--39678147	21	2.8	21	79	10	66	20	8	37	32	1.83
39678090--39678146	20	2.8	21	78	10	64	21	8	36	33	1.84
39678133--39678209	21	3.7	21	74	6	66	14	19	35	31	1.92
39678881--39679051	77	2.2	77	86	2	227	51	21	5	21	1.68
39681763--39681830	30	2.3	30	87	5	93	30	10	11	47	1.74
39681945--39681970	6	4.3	6	100	0	52	84	0	15	0	0.62
39682629--39682668	18	2.3	18	86	4	55	42	10	7	40	1.67
39687849--39687901	22	2.4	22	78	12	56	45	22	9	22	1.81
39689323--39689358	17	2.0	20	84	15	51	66	0	11	22	1.22
39692678--39692952	134	2.0	135	90	3	439	46	6	28	18	1.74
39693713--39693742	14	2.1	14	93	0	51	36	10	0	53	1.35
39694854--39694887	17	2.0	17	88	0	50	32	26	0	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39696995--39697155	25	6.4	25	79	11	159	36	24	16	23	1.94
39696995--39697155	50	3.2	50	83	1	198	36	24	16	23	1.94
39706386--39706436	23	2.2	23	100	0	102	33	15	7	43	1.76
39707124--39707246	47	2.7	45	85	8	151	30	27	16	26	1.97
39707263--39707442	31	5.8	31	91	2	290	25	28	20	26	1.99
39707418--39707594	50	3.5	50	91	0	273	24	22	16	36	1.94
39709649--39709718	33	2.1	33	94	0	122	35	15	18	30	1.92
39713517--39713561	22	2.1	21	84	8	56	62	13	11	13	1.55
39718865--39718942	40	2.0	40	86	0	111	33	30	14	21	1.93
39719378--39719498	61	2.0	61	81	3	145	24	34	17	23	1.96
39722073--39722101	14	2.1	14	100	0	58	34	0	6	58	1.25
39723335--39723387	4	12.8	4	78	4	52	47	1	1	49	1.23
39723357--39723389	17	2.0	17	88	5	50	42	3	0	54	1.15
39726230--39726299	27	2.6	26	95	2	95	31	28	12	27	1.93
39726230--39726327	28	3.5	28	90	2	135	31	28	13	26	1.94
39738154--39738459	153	2.0	153	100	0	612	43	8	18	29	1.80
39740748--39740803	22	2.5	22	85	5	69	17	26	32	23	1.97
39741761--39741798	6	6.3	6	93	0	67	50	15	15	18	1.79
39742629--39742673	23	2.0	23	82	8	56	6	24	0	68	1.13
39742632--39742679	17	2.9	17	80	17	57	4	25	0	70	1.04
39743378--39743406	7	4.3	7	91	8	51	44	0	0	55	0.99
39743378--39743406	13	2.1	14	93	6	51	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)
39751699--39751744	21	2.1	22	88	4	67	30	26	23	19	1.98
39754252--39754292	21	1.9	21	90	5	64	21	0	2	75	0.92
39754341--39754397	25	2.3	25	93	3	98	33	17	19	29	1.95
39757639--39757828	75	2.6	73	84	7	224	52	12	5	28	1.62
39757996--39758092	46	2.1	46	87	11	137	25	11	46	16	1.80
39760143--39760708	104	5.5	104	80	9	604	55	13	0	30	1.45
39760173--39760710	207	2.6	211	86	6	735	55	14	0	29	1.45
39764250--39764286	12	3.1	12	88	11	58	56	27	0	16	1.40
39771270--39771311	20	2.1	20	86	0	57	28	9	9	52	1.65
39778249--39778289	22	2.0	20	85	9	55	78	0	14	7	0.96
39779593--39779624	13	2.5	13	94	0	55	81	0	18	0	0.70
39781154--39781199	19	2.3	20	82	14	51	8	13	8	69	1.36
39786939--39787000	31	2.0	31	100	0	124	12	19	29	38	1.89
39788801--39788856	27	2.1	27	96	0	103	50	21	0	28	1.49
39789366--39789521	43	3.6	43	85	1	206	32	18	20	28	1.96
39790278--39790332	29	1.9	29	85	10	78	21	41	20	16	1.90
39796277--39796762	244	2.0	244	93	0	837	27	22	22	27	1.99
39807788--39807946	33	4.8	33	75	9	137	17	16	18	47	1.83
39807785--39807946	66	2.5	66	81	1	182	17	17	17	47	1.83
39810015--39810093	40	2.0	40	87	0	113	15	15	31	37	1.88
39813939--39814114	88	2.0	88	100	0	352	34	10	17	38	1.83
39814974--39815013	21	1.9	21	90	10	64	60	0	5	35	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39821820--39822355	43	12.4	43	79	1	532	21	17	21	39	1.92
39821821--39822355	87	6.2	87	88	0	626	21	17	21	39	1.92
39823055--39823107	19	2.8	19	85	0	70	45	15	20	18	1.85
39823074--39823142	31	2.2	32	94	2	122	50	14	15	18	1.78
39823620--39823654	16	2.2	16	90	10	54	74	2	5	17	1.14
39825355--39825410	27	2.1	27	100	0	112	30	10	14	44	1.79
39831682--39831789	26	4.2	26	93	0	189	36	24	7	32	1.83
39836090--39836122	17	1.9	17	100	0	66	81	0	6	12	0.85
39840329--39840368	5	8.4	5	86	10	57	82	0	2	15	0.77
39840329--39840368	9	4.2	10	81	12	57	82	0	2	15	0.77

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