genome.fa.s20.2.7.7.80.10.50.1000.129.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  129  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)
42699266--42699290	13	1.9	13	100	0	50	64	0	4	32	1.12
42699281--42699313	17	1.9	17	100	0	66	72	0	0	27	0.85
42701193--42701374	91	2.0	91	90	4	287	44	11	12	31	1.77
42704957--42705000	20	2.2	20	88	8	63	29	0	4	65	1.12
42704973--42705032	31	1.9	31	89	0	93	21	1	5	71	1.14
42705718--42705786	26	2.9	23	80	18	70	63	0	0	36	0.94
42705734--42705787	6	9.3	6	73	15	51	64	0	0	35	0.94
42710915--42710986	35	2.1	35	87	12	105	15	1	11	72	1.19
42711482--42711829	124	2.8	124	92	0	588	29	14	22	33	1.94
42714694--42714718	10	2.5	10	100	0	50	48	0	8	44	1.32
42714702--42714827	55	2.3	55	97	0	234	46	3	11	38	1.58
42714822--42715070	29	8.6	29	90	0	399	28	1	25	44	1.64
42714822--42715070	117	2.1	116	92	2	410	28	1	25	44	1.64
42715039--42715092	23	2.7	18	81	18	63	29	0	18	51	1.46
42715088--42715156	26	2.7	26	97	0	129	39	13	2	44	1.58
42716318--42716342	7	3.6	7	100	0	50	60	12	0	28	1.32
42717423--42717488	31	2.2	30	88	2	96	59	0	0	40	0.98
42717431--42717471	21	2.0	21	95	0	73	56	0	0	43	0.99
42717489--42717603	51	2.3	51	93	3	196	42	0	28	28	1.56
42721319--42721351	14	2.4	14	94	0	57	36	21	6	36	1.78
42723655--42723705	26	2.0	26	92	0	84	19	21	21	37	1.95
42729202--42729230	6	4.8	6	100	0	58	17	17	0	65	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42741802--42741834	16	2.1	16	94	0	57	36	3	39	21	1.69
42742067--42742101	18	2.0	17	88	5	52	54	0	0	45	0.99
42742186--42742220	18	2.0	17	88	5	52	54	0	0	45	0.99
42742304--42742340	16	2.2	17	86	13	51	54	0	2	43	1.14
42742047--42742403	120	3.0	120	95	2	619	48	5	2	43	1.40
42744275--42744342	33	2.1	33	94	0	118	47	14	29	8	1.75
42744282--42744352	33	2.2	33	84	5	90	52	12	29	5	1.62
42744414--42744452	19	2.0	20	95	5	71	46	10	43	0	1.37
42744478--42744524	23	2.0	23	100	0	94	44	21	25	8	1.80
42753039--42753081	18	2.4	18	100	0	86	23	11	16	48	1.78
42753079--42753106	14	2.0	14	100	0	56	35	14	14	35	1.86
42755698--42755746	18	2.7	18	81	6	64	18	4	4	73	1.15
42756920--42757052	43	3.1	43	87	0	203	59	7	15	18	1.58
42768459--42768521	26	2.5	26	85	7	78	30	3	4	61	1.32
42768614--42768672	25	2.3	25	80	8	66	25	6	3	64	1.34
42769055--42769291	120	2.0	122	82	5	293	35	15	15	33	1.89
42776392--42776465	31	2.5	31	89	8	109	64	1	0	33	1.02
42791548--42791704	4	39.2	4	100	0	314	50	24	0	24	1.50
42807032--42807066	17	2.0	18	88	5	54	0	28	0	71	0.86
42807138--42807176	21	1.9	20	84	5	51	46	7	0	46	1.31
42810620--42810671	16	3.3	15	79	12	59	40	13	13	32	1.83
42810604--42810709	17	6.1	17	73	9	72	40	9	15	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42810714--42810748	18	1.9	18	88	0	52	51	11	11	25	1.71
42810811--42811001	18	10.5	18	68	17	83	43	11	10	34	1.76
42810833--42810881	19	2.8	17	82	11	71	42	14	12	30	1.82
42810775--42811006	111	2.1	110	89	4	351	44	12	9	34	1.74
42810754--42811006	37	6.8	36	69	12	147	44	11	10	33	1.74
42811823--42811852	11	2.7	11	94	0	51	0	20	0	80	0.72
42811980--42812047	31	2.3	29	83	16	86	0	36	1	61	1.05
42812586--42812717	30	4.5	29	75	10	124	40	3	21	35	1.69
42812558--42812669	30	3.8	29	80	11	104	37	4	25	33	1.76
42812586--42812717	59	2.2	60	82	6	162	40	3	21	35	1.69
42813031--42814077	77	13.5	77	86	6	1243	33	20	16	29	1.95
42813031--42814077	232	4.5	233	86	6	1347	33	20	16	29	1.95
42814944--42814994	15	3.2	15	83	8	57	5	3	3	86	0.79
42814944--42814994	24	2.1	24	85	7	68	5	3	3	86	0.79
42825847--42826036	52	3.9	54	67	23	134	42	10	13	34	1.77
42825958--42826035	17	4.8	16	69	19	54	46	12	10	30	1.75
42825860--42826043	90	2.0	93	86	6	259	41	9	12	36	1.76
42825978--42826333	36	10.0	34	68	19	176	44	11	11	32	1.77
42826141--42826223	19	4.6	18	71	13	62	39	9	12	38	1.75
42826102--42826337	110	2.1	110	88	2	348	44	11	10	33	1.75
42826106--42826314	18	11.4	18	69	17	101	44	11	10	33	1.75
42826160--42826290	19	7.3	17	70	15	77	44	11	11	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42826141--42826333	73	2.6	72	79	4	217	43	10	11	34	1.77
42826100--42826337	38	6.4	38	71	10	163	44	11	10	33	1.75
42826370--42826418	17	2.8	17	79	14	64	42	10	16	30	1.81
42826370--42826426	17	3.3	17	78	4	60	38	8	14	38	1.77
42829779--42829808	11	2.7	11	94	0	51	0	20	0	80	0.72
42830539--42830671	30	4.5	29	78	10	135	39	3	20	36	1.70
42830594--42830671	29	2.7	30	80	4	88	42	2	19	35	1.65
42830540--42830671	59	2.2	60	82	6	162	40	3	20	36	1.68
42832449--42832625	48	3.6	47	75	9	156	36	15	22	24	1.94
42832202--42834354	585	3.7	581	88	3	3116	36	15	17	30	1.91
42833774--42834899	544	2.1	539	89	3	1695	36	15	17	30	1.91
42834354--42839607	597	8.9	591	83	6	6020	36	14	17	31	1.90
42835754--42835779	6	4.3	6	100	0	52	19	15	19	46	1.85
42836024--42839609	596	6.1	591	84	5	4191	36	14	17	31	1.90
42839239--42839979	370	2.0	372	89	2	1150	36	17	14	31	1.90
42839845--42839969	51	2.4	52	81	6	148	30	20	19	30	1.97
42838637--42840576	964	2.0	962	87	3	2786	36	15	16	31	1.90
42840851--42840882	6	5.3	6	100	0	64	18	15	18	46	1.84
42841670--42841766	51	1.9	50	81	6	115	30	16	19	32	1.94
42839609--42848258	593	14.6	589	87	3	11967	36	14	17	31	1.90
42842912--42843020	47	2.3	49	81	7	118	38	13	21	26	1.91
42844986--42845011	6	4.3	6	100	0	52	19	15	19	46	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42846959--42847079	50	2.4	51	77	4	127	38	17	19	23	1.93
42847549--42847721	51	3.4	50	77	6	170	36	16	21	24	1.94
42848196--42848305	47	2.3	47	85	6	141	33	19	16	30	1.94
42848215--42848305	47	1.9	47	90	0	146	29	20	17	31	1.96
42848392--42848797	200	2.0	201	91	0	661	43	12	18	25	1.85
42848984--42849099	50	2.3	50	80	1	126	28	18	22	31	1.97
42849316--42849357	21	2.0	22	85	4	59	40	0	0	59	0.97
42849342--42849367	10	2.6	10	100	0	52	30	0	0	69	0.89
42849325--42849413	31	2.8	31	86	5	117	35	1	0	62	1.02
42853212--42853254	22	2.0	22	86	9	61	44	2	9	44	1.49
42864008--42864041	17	2.0	17	100	0	68	76	0	0	23	0.79
42864029--42864070	21	2.0	22	90	4	68	45	0	0	54	0.99
42864566--42864590	10	2.5	10	100	0	50	40	0	8	52	1.31
42866275--42866425	76	2.0	76	88	0	221	29	13	34	21	1.93
42881381--42881811	111	3.9	111	85	2	532	34	18	15	31	1.92
42881837--42881889	22	2.4	20	82	17	61	54	5	13	26	1.60
42882361--42882406	3	15.0	3	95	4	83	65	0	2	32	1.05
42884724--42884810	44	2.0	44	86	2	122	19	19	27	33	1.96
42889108--42889140	13	2.6	13	85	4	50	0	21	0	78	0.75
42890144--42890177	16	2.1	16	88	0	50	29	0	8	61	1.26
42890927--42890972	6	6.7	7	85	14	53	60	10	2	26	1.41
42890921--42890964	12	3.4	13	84	9	54	65	9	0	25	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42891775--42891842	33	2.0	35	88	8	104	41	22	10	26	1.85
42895535--42895564	7	4.3	7	91	0	51	83	0	16	0	0.65
42908933--42908986	12	4.9	10	77	18	54	3	3	12	79	1.00
42910182--42910239	28	2.1	28	96	0	107	25	17	15	41	1.89
42910246--42910427	62	3.0	62	94	0	312	32	4	20	41	1.74
42912905--42912954	20	2.5	20	100	0	100	28	28	36	8	1.85
42914380--42914419	3	13.3	3	100	0	80	32	0	0	67	0.91
42915145--42915172	3	9.3	3	100	0	56	32	35	0	32	1.58
42926492--42926547	22	2.5	22	82	0	67	14	8	14	62	1.54
42927544--42927584	18	2.3	18	91	0	64	17	21	21	39	1.93

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