genome.fa.s20.2.7.7.80.10.50.1000.142.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  142  of  186  ( 22216 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)
46937578--46937753	93	1.9	93	90	3	282	23	31	17	27	1.97
46938792--46938832	19	2.2	19	95	0	73	17	14	12	56	1.68
46938800--46938839	19	2.2	19	90	4	64	20	17	10	52	1.72
46939683--46939707	13	1.9	13	100	0	50	72	16	12	0	1.13
46943892--46943969	29	2.8	28	80	7	86	25	33	16	24	1.96
46943890--46943969	28	2.8	28	79	7	90	25	32	17	25	1.97
46947265--46947391	46	2.8	46	92	0	209	32	30	18	18	1.95
46949671--46949790	56	2.1	56	98	0	231	45	9	23	22	1.81
46951645--46951773	47	2.7	47	85	2	150	31	7	32	27	1.85
46951896--46951974	37	2.1	37	88	0	113	24	17	31	26	1.97
46954247--46954444	78	2.5	79	81	3	231	35	11	22	30	1.89
46954308--46954479	78	2.2	77	86	6	231	37	12	23	26	1.91
46955095--46956887	296	6.0	296	91	2	2488	30	19	15	34	1.92
46958446--46958485	19	2.2	18	86	4	53	57	0	2	40	1.12
46962182--46962210	14	2.1	14	100	0	58	55	6	20	17	1.65
46986726--46986765	21	1.9	21	100	0	80	22	15	15	47	1.82
46997236--46997269	14	2.4	14	90	0	50	32	11	8	47	1.71
47006553--47006584	13	2.5	13	94	0	55	68	6	3	21	1.26
47007018--47007050	16	2.1	16	88	11	50	54	9	0	36	1.32
47007780--47007854	36	2.1	36	94	0	132	33	9	12	45	1.73
47010888--47010920	17	2.0	16	94	5	57	42	6	21	30	1.77
47013058--47013183	55	2.2	58	85	4	168	50	3	3	42	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47020460--47020498	18	2.2	18	85	0	51	58	2	23	15	1.49
47027286--47027339	27	2.0	27	92	3	92	31	31	3	33	1.75
47029354--47029629	138	2.0	138	97	0	516	30	13	24	31	1.93
47031583--47031608	3	8.7	3	100	0	52	34	0	30	34	1.58
47035479--47035516	20	1.9	20	88	0	58	63	2	2	31	1.22
47037937--47037961	3	8.3	3	100	0	50	0	32	0	68	0.90
47039699--47039729	2	15.5	2	100	0	62	48	0	0	51	1.00
47046855--47047327	123	3.8	123	95	0	784	31	16	19	32	1.94
47050336--47050368	9	3.9	9	84	15	52	36	0	9	54	1.32
47050441--47050465	10	2.5	10	100	0	50	48	0	8	44	1.32
47050514--47050579	29	2.3	29	97	0	123	31	0	25	42	1.55
47051100--47051134	18	1.9	18	94	0	61	31	5	34	28	1.81
47052892--47052954	28	2.2	30	91	5	103	61	0	0	38	0.96
47052955--47053062	51	2.1	51	94	0	189	41	0	27	29	1.62
47055937--47056008	30	2.4	29	81	6	81	38	23	1	36	1.64
47055927--47056044	60	2.0	59	81	8	141	34	25	1	38	1.66
47056585--47056635	6	8.3	6	78	4	57	76	1	19	1	0.98
47056870--47056915	20	2.2	20	84	3	56	19	47	28	4	1.68
47056888--47056926	20	2.0	20	89	0	60	17	43	28	10	1.82
47057614--47057665	16	3.0	18	83	11	81	42	15	5	36	1.71
47057614--47057667	17	3.2	17	81	7	74	40	14	5	38	1.70
47057597--47057683	34	2.5	34	73	1	93	37	12	6	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47057681--47057819	19	7.6	17	75	15	59	36	12	9	41	1.75
47057724--47057778	21	2.7	19	91	8	83	38	12	10	38	1.79
47057728--47057833	21	5.4	21	78	13	66	36	13	7	42	1.72
47057680--47057833	76	2.0	75	80	8	170	36	12	9	40	1.77
47057864--47058026	18	9.1	18	73	12	106	32	13	11	42	1.79
47057644--47058026	35	10.6	36	70	13	193	33	13	10	42	1.78
47057838--47058026	53	3.6	53	74	11	149	31	13	12	43	1.80
47057933--47058027	36	2.6	36	85	6	122	30	10	11	47	1.74
47057932--47058062	53	2.5	54	80	5	133	34	9	9	45	1.71
47058503--47058538	12	3.0	12	91	0	63	55	0	11	33	1.35
47060646--47061259	151	4.0	148	83	8	657	40	3	10	45	1.56
47073391--47073458	22	3.0	22	70	12	66	52	8	1	36	1.42
47074731--47074771	18	2.2	19	87	12	59	14	0	29	56	1.39
47079900--47079945	23	2.0	23	83	8	58	39	0	0	60	0.97
47079901--47079956	17	3.5	16	74	18	55	35	1	0	62	1.06
47080983--47081022	19	2.1	19	85	0	53	67	15	0	17	1.23
47082712--47082806	49	2.0	48	95	2	172	17	15	26	40	1.90
47090054--47090096	18	2.4	18	88	0	59	41	44	2	11	1.53
47094481--47094506	8	3.2	8	100	0	52	23	11	0	65	1.25
47095502--47095532	9	3.4	9	95	0	53	41	29	3	25	1.71
47095540--47095602	17	3.5	17	73	12	63	49	11	3	36	1.54
47095531--47095605	37	2.0	37	92	0	123	45	13	4	37	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47095531--47095619	37	2.4	37	79	7	101	47	13	4	34	1.63
47095761--47095818	17	3.6	16	77	20	59	18	0	41	39	1.51
47095757--47095818	30	2.1	30	90	6	99	19	0	40	40	1.52
47095757--47095810	13	3.9	13	80	19	65	16	0	42	40	1.48
47103635--47103695	24	2.8	21	75	15	61	68	0	21	9	1.18
47103681--47103726	22	2.1	21	84	11	58	78	0	13	8	0.97
47106965--47106990	13	2.0	13	100	0	52	38	30	7	23	1.83
47112278--47112311	17	2.0	17	88	0	50	35	0	0	64	0.94
47113514--47113586	28	2.6	28	95	0	128	53	21	2	21	1.59
47113538--47113586	14	3.5	14	72	10	55	55	22	0	22	1.44
47113823--47113866	6	7.7	6	82	7	56	68	29	2	0	1.02
47113823--47113866	11	3.8	12	84	3	56	68	29	2	0	1.02
47114029--47114279	133	1.9	133	94	0	448	45	17	8	28	1.77
47117025--47117172	56	2.6	57	83	10	198	32	16	15	35	1.91
47117171--47117205	14	2.5	14	90	0	52	60	2	17	20	1.49
47117136--47117349	86	2.5	87	89	1	331	35	19	17	27	1.94
47117275--47117948	72	9.2	72	90	4	935	34	18	16	30	1.93
47117271--47117948	217	3.1	217	90	3	988	34	18	16	30	1.93
47117895--47118311	122	3.3	123	83	8	599	36	20	14	28	1.92
47117820--47118311	252	2.0	251	97	0	921	35	20	14	29	1.92
47118071--47118509	198	2.2	198	99	0	862	35	20	14	28	1.93
47118335--47118925	123	4.8	123	88	3	889	36	21	15	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47118269--47118925	253	2.6	252	92	2	1053	36	20	14	28	1.93
47130627--47131056	18	24.8	18	68	14	115	44	11	13	30	1.79
47130841--47131056	35	6.1	34	71	18	120	41	12	15	31	1.83
47130916--47131059	55	2.7	53	79	3	162	44	11	13	30	1.79
47130627--47131059	17	25.0	18	70	15	236	45	11	12	30	1.78
47131154--47131190	19	1.9	20	94	5	67	32	10	13	43	1.79
47131189--47131236	15	3.0	16	80	19	64	41	12	14	31	1.83
47132525--47132626	30	3.4	30	83	2	125	43	3	23	29	1.72
47142114--47142154	19	2.2	19	100	0	82	26	9	19	43	1.82
47146869--47146918	18	2.6	19	81	12	59	56	4	2	38	1.30
47150416--47150482	19	3.5	19	71	18	66	16	2	25	55	1.55
47150418--47150505	39	2.3	39	93	0	149	17	4	26	52	1.63
47156488--47156695	91	2.3	91	92	0	335	45	3	4	46	1.39
47156610--47156670	28	2.2	28	85	5	81	45	0	3	50	1.17
47156528--47156670	44	3.2	43	69	20	121	46	2	3	48	1.31
47156832--47156866	18	2.0	17	88	5	52	45	0	0	54	0.99
47157031--47157121	45	2.0	45	85	2	121	37	28	6	27	1.82
47157102--47157170	16	4.2	16	96	3	129	37	37	0	24	1.56
47157102--47157170	33	2.1	32	97	2	129	37	37	0	24	1.56
47158875--47158928	27	2.0	27	92	0	90	22	11	18	48	1.79
47162856--47162881	3	8.7	3	100	0	52	30	0	0	69	0.89
47165866--47165909	14	2.9	15	80	16	54	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47168262--47168523	45	5.8	45	91	1	402	34	18	22	24	1.96
47168264--47168553	135	2.1	135	85	3	388	35	17	22	24	1.95
47168262--47168553	90	3.2	89	87	3	390	35	17	22	24	1.95
47168219--47168608	45	8.6	45	82	4	182	37	18	21	22	1.94
47171716--47171774	21	2.9	20	82	5	75	10	23	20	45	1.81
47172318--47172384	4	16.8	4	100	0	134	25	0	23	50	1.49
47175318--47175383	25	2.7	24	73	19	64	16	4	24	54	1.61
47180160--47180206	17	2.7	18	84	12	62	31	0	0	68	0.90
47180337--47180388	27	2.0	26	84	3	68	38	5	5	50	1.51
47180495--47180553	29	2.0	30	90	9	95	69	0	6	23	1.12

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