genome.fa.s4.2.7.7.80.10.50.1000.143.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  143  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)
48072235--48072274	21	1.9	21	85	10	55	27	7	2	62	1.35
48073596--48073657	24	2.5	26	78	10	74	37	14	8	40	1.76
48073605--48073658	24	2.2	24	90	0	81	35	14	9	40	1.78
48073815--48073879	20	3.2	20	76	8	78	38	20	26	15	1.92
48073868--48073906	20	2.0	20	94	0	69	46	23	20	10	1.81
48073813--48073899	40	2.2	40	80	0	102	40	20	25	13	1.89
48074656--48074695	21	1.9	21	84	0	53	40	22	5	32	1.76
48074944--48074974	12	2.6	12	94	0	53	32	12	0	54	1.38
48075597--48075651	25	2.2	25	90	0	83	29	18	23	29	1.98
48077842--48077875	18	1.9	17	88	5	50	50	0	2	47	1.16
48078113--48078159	23	2.0	23	95	0	85	44	0	23	31	1.54
48080658--48080687	6	5.0	6	100	0	60	0	50	0	50	1.00
48080659--48080712	18	3.0	18	83	0	54	1	35	1	61	1.18
48083204--48083249	22	2.0	22	83	4	56	36	8	15	39	1.78
48083795--48084310	256	2.0	256	99	0	1014	26	23	15	34	1.94
48088899--48088923	5	5.0	5	100	0	50	40	0	20	40	1.52
48090826--48090879	28	1.9	28	88	0	81	27	11	25	35	1.90
48093708--48093752	23	2.0	23	90	0	72	22	15	17	44	1.86
48095408--48095449	18	2.3	18	80	8	50	26	0	9	64	1.24
48107727--48107784	25	2.5	22	77	20	64	48	1	1	48	1.22
48108328--48108360	3	11.0	3	100	0	66	33	0	0	66	0.92
48108577--48108640	18	3.7	18	76	17	64	42	1	1	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48108582--48108646	33	1.9	33	84	9	87	41	1	0	56	1.08
48113655--48113730	28	2.7	28	84	6	100	31	9	28	30	1.88
48114698--48114821	25	5.2	25	74	18	138	28	11	14	45	1.79
48114706--48114826	22	5.2	22	74	18	120	28	12	14	45	1.80
48114690--48114880	47	4.0	47	90	2	285	29	12	14	43	1.81
48115589--48115795	40	5.2	39	82	6	222	31	19	15	33	1.93
48115589--48115784	79	2.5	79	86	5	261	31	19	15	33	1.93
48119612--48119812	101	2.0	100	99	0	393	20	15	10	52	1.73
48130961--48131927	44	20.8	44	71	15	621	32	17	21	28	1.96
48130991--48131739	142	5.3	142	99	0	1462	32	17	21	28	1.96
48131559--48131987	232	1.8	232	97	1	824	32	18	21	27	1.96
48132886--48133085	100	2.0	100	99	0	391	12	33	35	19	1.88
48139679--48139718	21	1.9	21	84	0	53	32	22	10	35	1.87
48142626--48142650	13	1.9	13	100	0	50	24	8	28	40	1.83
48144226--48144251	11	2.4	11	100	0	52	50	30	11	7	1.67
48144256--48144304	20	2.5	19	77	6	53	67	6	12	14	1.40
48146978--48147020	3	14.3	3	100	0	86	32	0	0	67	0.91
48147482--48147524	17	2.6	15	82	17	50	37	2	2	58	1.24
48150523--48150693	45	3.8	45	81	3	202	33	25	12	28	1.92
48150523--48150686	90	1.8	89	85	1	229	34	25	12	28	1.92
48151986--48152024	16	2.3	17	86	8	53	53	12	10	23	1.69
48151986--48152028	17	2.5	18	81	11	54	53	13	9	23	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48152662--48152721	17	3.8	17	74	17	65	60	13	3	23	1.48
48152655--48152736	30	2.7	30	86	3	121	60	13	2	23	1.44
48152709--48152739	13	2.3	14	94	5	55	64	12	0	22	1.27
48158036--48158080	3	15.3	3	86	4	65	0	0	26	73	0.84
48161582--48161808	30	7.6	30	96	0	418	27	20	14	37	1.92
48163644--48163697	21	2.7	21	91	5	85	12	27	18	40	1.87
48166530--48166571	17	2.4	18	88	4	59	21	11	9	57	1.63
48177274--48177923	332	1.9	334	90	2	1034	25	12	22	39	1.89
48181520--48181557	18	2.1	18	90	0	58	21	26	13	39	1.89
48182488--48182660	93	1.9	93	100	0	346	34	6	27	30	1.83
48182660--48182700	3	13.7	3	100	0	82	0	34	0	65	0.93
48183877--48183986	50	2.2	51	96	1	204	31	15	12	40	1.85
48184246--48184304	17	3.4	17	71	17	57	57	3	3	35	1.32
48189930--48190064	66	2.0	66	98	0	261	19	35	10	34	1.86
48190271--48190496	112	2.0	112	98	0	434	30	30	11	26	1.92
48197490--48197574	18	4.6	17	76	20	64	38	1	3	56	1.24
48197726--48197819	46	2.1	44	84	11	120	38	24	3	34	1.72
48199774--48199904	2	65.5	2	100	0	262	49	0	0	50	1.00
48212633--48212666	16	2.1	16	88	0	50	26	8	0	64	1.22
48214033--48214142	22	5.0	22	70	8	89	38	25	12	23	1.90
48214033--48214145	44	2.6	44	84	2	147	38	24	12	23	1.90
48222047--48222258	29	7.3	29	77	10	177	36	13	25	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48222098--48222290	87	2.2	87	81	5	212	37	12	25	23	1.91
48222069--48222347	116	2.4	116	87	1	371	36	13	26	23	1.92
48222131--48222347	29	7.4	29	79	5	179	36	12	27	22	1.91
48222151--48222346	87	2.2	88	78	6	202	37	14	26	22	1.92
48222279--48222363	30	2.9	30	85	1	100	36	15	28	20	1.92
48222243--48222363	59	2.1	58	81	7	138	36	15	26	21	1.93
48230785--48230819	16	2.2	16	94	0	61	17	0	17	65	1.27
48232784--48232825	20	2.2	19	87	8	59	57	2	11	28	1.47
48232793--48232839	20	2.3	20	88	0	67	59	2	8	29	1.39
48233949--48234025	41	1.9	41	97	2	147	12	40	2	44	1.57
48234669--48234780	44	2.5	44	79	2	118	24	24	23	28	2.00
48234808--48235034	44	5.2	44	72	17	222	26	19	20	33	1.97
48234792--48235080	87	3.3	87	100	0	578	25	20	20	33	1.97
48234836--48235061	44	5.2	44	72	18	220	24	22	19	34	1.97
48234792--48235091	43	6.9	41	69	18	189	24	21	19	34	1.96
48235093--48235630	87	6.2	87	97	0	988	24	23	21	30	1.99
48236176--48236505	165	2.0	165	96	0	615	32	17	16	32	1.93
48236614--48236949	168	2.0	168	96	0	618	25	11	22	41	1.86
48238379--48238437	31	1.9	30	86	10	84	8	11	10	69	1.37
48238391--48238467	28	2.5	30	76	14	70	7	7	9	75	1.20
48242998--48243044	20	2.3	20	88	0	67	59	2	8	29	1.39
48243978--48244016	21	1.9	21	89	5	62	74	0	17	7	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48244518--48244559	16	2.7	15	82	17	50	47	0	2	50	1.14
48244558--48244583	6	4.3	6	100	0	52	15	0	0	84	0.62
48244432--48244617	65	2.8	66	85	8	227	39	0	1	59	1.07
48244577--48244634	28	2.0	29	87	9	84	51	1	0	46	1.11
48247776--48247835	19	3.2	19	85	2	86	66	0	1	31	1.01
48247783--48247834	9	5.8	9	73	8	52	71	0	1	26	0.97
48248141--48248201	30	2.0	30	87	0	86	42	11	6	39	1.67
48249745--48249960	77	2.8	77	87	3	310	53	10	9	26	1.66
48250721--48250767	24	2.0	24	86	0	67	23	21	6	48	1.72
48252532--48252565	16	2.1	16	94	0	59	41	2	5	50	1.42
48253667--48253709	12	3.7	11	82	11	50	55	11	2	30	1.48
48254377--48254452	35	2.2	35	92	0	125	42	1	2	53	1.23
48254397--48254451	15	3.6	15	72	18	51	41	1	3	52	1.29
48255969--48256027	17	3.5	17	75	17	52	47	1	1	49	1.21
48259060--48259096	18	2.1	18	100	0	74	37	5	0	56	1.22
48267419--48267451	15	2.2	15	100	0	66	60	0	0	39	0.97
48274513--48274839	37	9.2	35	65	21	119	57	0	7	35	1.29
48274429--48274856	71	6.0	71	87	5	601	57	0	7	34	1.30
48274467--48274847	18	21.4	16	69	18	79	58	0	6	34	1.27
48274775--48274815	16	2.4	18	84	15	61	53	0	12	34	1.38
48274429--48274860	214	2.0	215	90	4	683	57	0	7	34	1.30
48274858--48274902	5	8.8	5	90	9	65	77	0	22	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48274858--48274898	8	5.2	8	83	16	59	78	0	21	0	0.76
48274863--48274902	13	3.1	13	86	13	64	77	0	22	0	0.77
48293311--48293507	98	2.0	98	92	0	331	37	24	9	28	1.87
48294818--48294890	19	3.8	19	88	0	119	35	16	9	38	1.81
48295094--48295438	44	7.9	45	73	15	183	26	24	19	29	1.99
48295145--48295300	84	1.8	84	82	9	201	26	24	20	28	1.99
48295093--48295576	217	2.2	217	91	0	781	26	23	19	30	1.98
48295533--48295620	44	2.0	45	81	2	106	27	26	17	29	1.97
48295556--48296149	132	4.5	132	91	0	929	26	23	19	30	1.98
48301482--48301678	98	2.0	98	94	2	342	37	25	10	27	1.88

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