genome.fa.s20.2.7.7.80.10.50.1000.21.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  21  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)
6162616--6162744	42	3.1	42	94	0	222	27	22	18	31	1.97
6163527--6163777	44	5.7	44	69	13	131	20	23	20	35	1.96
6163493--6163780	88	3.3	88	83	4	366	20	23	20	34	1.96
6163799--6163907	43	2.5	44	80	3	130	22	23	23	29	1.99
6163959--6164045	43	2.0	44	86	2	122	22	19	20	36	1.95
6164936--6164984	26	2.0	24	88	8	71	28	0	6	65	1.16
6171523--6171578	26	2.2	26	96	0	103	26	17	16	39	1.91
6177288--6177312	11	2.3	11	100	0	50	28	0	0	72	0.86
6179643--6179683	21	2.0	21	90	0	64	29	21	29	19	1.98
6181589--6181622	16	2.1	16	88	0	50	50	14	17	17	1.79
6184593--6184642	3	16.7	3	82	0	64	26	0	40	34	1.56
6184593--6184642	15	3.3	15	97	0	91	26	0	40	34	1.56
6188915--6188980	30	2.2	30	83	5	80	30	4	9	56	1.51
6189348--6189389	22	1.9	23	90	9	70	50	0	4	45	1.23
6192470--6192540	23	3.3	23	66	22	73	33	0	9	56	1.32
6192462--6192542	40	2.0	40	100	0	162	38	0	9	51	1.35
6192465--6192553	40	2.3	40	90	3	119	40	1	10	48	1.44
6192813--6193126	139	2.3	135	81	6	344	21	13	17	47	1.82
6197589--6197739	53	2.8	53	85	4	187	27	15	26	30	1.96
6198900--6198963	26	2.5	26	78	12	69	51	1	1	45	1.20
6199498--6199536	19	2.1	19	100	0	78	35	23	15	25	1.94
6199737--6199815	38	2.1	38	97	0	149	35	12	16	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6208365--6208389	3	8.3	3	100	0	50	0	32	0	68	0.90
6208677--6208701	13	1.9	13	100	0	50	0	16	0	84	0.63
6222380--6222419	4	10.5	4	84	10	57	47	22	2	27	1.64
6222380--6222422	14	3.2	14	90	6	63	46	23	2	27	1.64
6222424--6222450	12	2.2	12	100	0	54	55	0	0	44	0.99
6228144--6228195	26	2.0	26	100	0	104	30	19	11	38	1.87
6228148--6228203	26	2.2	26	90	0	85	37	21	8	32	1.84
6233574--6233812	119	2.0	119	99	0	469	42	17	10	30	1.82
6236662--6236816	75	2.1	76	95	1	276	36	15	23	24	1.93
6238363--6238399	5	7.6	5	87	6	58	18	0	2	78	0.87
6239780--6240022	105	2.3	105	100	0	486	36	23	6	34	1.80
6239919--6240251	131	2.5	131	97	0	623	32	19	10	37	1.86
6240546--6240679	44	3.0	44	100	0	268	36	4	23	35	1.75
6244798--6244847	25	2.0	25	84	0	64	54	6	2	38	1.37
6262741--6262787	21	2.2	22	92	3	78	21	38	19	21	1.94
6269765--6269804	14	2.5	17	73	23	50	20	55	12	12	1.69
6272067--6272145	25	3.3	25	72	22	87	31	17	10	40	1.83
6272512--6272666	18	9.0	17	65	22	74	42	1	1	54	1.19
6272269--6272686	120	3.5	120	95	1	737	42	1	3	52	1.27
6272558--6272600	22	1.9	23	85	4	61	37	0	2	60	1.10
6275198--6275653	50	8.8	51	81	6	501	19	29	23	26	1.98
6275197--6275650	106	4.4	104	94	3	631	20	29	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6275748--6275779	13	2.5	13	94	0	55	56	12	0	31	1.37
6275991--6276048	30	1.9	30	89	0	89	31	24	3	41	1.71
6292383--6292410	14	2.0	14	100	0	56	35	0	0	64	0.94
6298341--6298389	21	2.2	21	85	7	62	61	2	2	34	1.19
6298332--6298389	23	2.6	23	81	8	66	63	1	1	32	1.14
6298350--6298400	21	2.2	24	80	13	63	64	3	5	25	1.33
6301782--6301821	18	2.3	18	86	4	55	25	20	17	37	1.94
6307380--6307747	44	8.5	44	68	7	177	26	21	20	31	1.98
6307368--6307747	87	4.4	88	79	7	386	26	21	20	31	1.98
6316744--6316915	86	2.0	85	91	1	281	20	30	19	28	1.97
6333352--6333377	10	2.6	10	100	0	52	23	7	0	69	1.14
6333374--6333411	10	3.8	10	83	13	51	23	7	2	65	1.32
6333354--6333411	20	2.8	20	78	14	57	22	8	1	67	1.27
6335754--6335828	33	2.3	33	83	0	96	32	20	14	33	1.92
6337260--6337329	31	2.3	31	82	0	86	28	25	20	25	1.99
6337284--6337375	46	2.0	46	89	0	139	27	23	22	26	2.00
6337330--6337388	31	1.9	31	100	0	118	25	25	20	28	1.99
6337368--6337594	50	4.5	50	92	0	364	26	22	15	34	1.95
6340519--6340601	5	15.6	5	74	16	53	22	2	0	74	0.93
6340539--6340583	18	2.6	18	96	3	83	26	0	0	73	0.84
6340517--6340597	24	3.2	26	76	13	80	23	2	0	74	0.94
6340524--6340598	26	2.9	25	77	18	75	24	2	0	73	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6340517--6340601	16	5.2	16	76	16	68	23	2	0	74	0.94
6342551--6342610	10	6.0	10	81	11	70	23	6	1	68	1.22
6342551--6342610	20	3.0	19	85	9	84	23	6	1	68	1.22
6346562--6346684	65	1.9	65	98	0	237	35	16	26	21	1.94
6351655--6351695	19	2.2	19	86	8	57	56	0	2	41	1.13
6353572--6353624	18	3.0	17	81	13	54	35	3	1	58	1.27
6354219--6354269	17	3.0	17	86	8	77	27	9	9	52	1.65
6357454--6357491	5	7.6	5	100	0	76	81	0	0	18	0.69
6358215--6358239	10	2.5	10	100	0	50	48	0	0	52	1.00
6363773--6363813	21	2.0	21	90	0	64	29	21	29	19	1.98
6371917--6372319	169	2.4	169	95	0	718	33	18	12	35	1.89
6372970--6373009	9	4.2	9	84	12	53	35	0	5	60	1.19
6378554--6378829	35	7.9	35	78	4	227	29	15	25	29	1.96
6378552--6378825	104	2.6	105	82	2	320	29	15	26	29	1.96
6378925--6378985	31	2.0	31	83	0	77	27	18	26	27	1.98
6392614--6392648	15	2.3	15	90	9	54	62	2	0	34	1.10
6396100--6396409	43	7.1	43	79	7	322	13	22	31	32	1.93
6402175--6402222	21	2.3	21	82	13	64	47	0	4	47	1.21
6402177--6402219	20	2.2	20	87	8	61	46	0	4	48	1.22
6403854--6403913	31	2.0	31	83	3	77	38	10	11	40	1.75
6405292--6405350	28	2.1	28	81	6	66	42	6	1	49	1.39
6405547--6405589	17	2.5	17	82	14	61	76	6	6	9	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6405760--6405826	3	23.0	3	76	11	68	68	0	31	0	0.90
6405760--6405812	16	3.3	16	82	12	65	67	0	32	0	0.91
6405855--6405914	19	3.4	17	74	14	50	68	0	31	0	0.90
6406411--6407892	152	10.2	138	81	11	1206	55	6	8	29	1.56
6406975--6407036	15	4.3	15	78	11	67	67	1	3	27	1.15
6406975--6407012	13	2.9	13	92	0	58	68	0	2	28	1.03
6407122--6407159	13	2.9	13	92	0	58	68	0	2	28	1.03
6406685--6407900	152	8.1	151	89	4	1648	56	6	7	29	1.54
6412632--6412674	21	2.0	21	95	0	77	34	4	23	37	1.76
6415341--6415421	24	3.4	24	66	24	62	48	13	3	34	1.60
6416072--6416116	23	2.0	23	86	0	63	64	0	4	31	1.13
6416694--6416746	24	2.2	24	96	0	97	37	15	18	28	1.91
6418535--6418587	25	2.1	25	100	0	106	43	3	24	28	1.71
6421177--6421216	16	2.6	16	84	4	55	60	2	0	37	1.11
6422821--6422850	3	10.0	3	92	0	51	66	3	0	30	1.07
6426898--6426957	31	1.9	32	86	3	86	38	0	6	55	1.27
6430376--6430404	14	2.0	15	93	6	51	48	34	13	3	1.60
6431160--6431216	29	1.9	29	86	10	80	64	5	0	29	1.15
6432018--6432057	19	2.1	19	90	0	62	35	5	0	60	1.19
6432114--6432162	22	2.3	22	86	10	66	32	6	0	61	1.21
6432098--6432175	22	3.7	21	75	11	61	28	3	2	65	1.23
6434845--6434869	13	1.9	13	100	0	50	48	8	12	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6437618--6437652	18	1.9	18	94	0	61	31	0	11	57	1.34
6449198--6449321	33	3.8	33	90	0	194	20	8	40	30	1.83
6456270--6456308	20	2.0	20	85	10	53	33	2	15	48	1.58
6456509--6456555	3	16.0	3	87	12	71	31	2	0	65	1.04
6456749--6456780	16	2.0	16	93	0	55	84	0	15	0	0.63
6464016--6464041	9	2.9	9	100	0	52	11	57	23	7	1.59
6464913--6465141	76	3.0	76	90	1	359	24	24	18	32	1.97
6464940--6465337	198	2.0	197	90	1	618	25	25	17	31	1.97
6465139--6465448	76	4.1	76	88	0	460	25	23	18	32	1.97
6465240--6466100	306	2.7	334	82	9	952	25	23	18	32	1.97

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