genome.fa.s20.2.7.7.80.10.50.1000.92.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  92  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)
30008184--30008245	25	2.4	26	86	2	90	25	12	20	40	1.89
30008184--30008245	13	4.8	13	90	4	90	25	12	20	40	1.89
30010209--30010264	13	4.4	13	90	4	87	26	8	21	42	1.82
30015675--30015718	18	2.4	18	85	7	54	56	6	6	29	1.51
30016943--30016976	14	2.5	13	81	9	50	0	14	5	79	0.91
30020842--30020885	21	2.1	22	87	8	65	61	22	2	13	1.43
30025045--30025075	15	2.1	15	93	0	53	45	0	6	48	1.28
30026026--30026075	24	2.1	24	88	0	73	48	14	14	24	1.80
30028953--30028988	18	2.0	18	94	0	63	50	8	0	41	1.33
30031216--30031264	20	2.5	21	81	18	61	71	8	0	20	1.11
30031305--30031367	23	2.7	25	78	14	80	60	1	4	33	1.27
30031355--30031391	17	2.1	18	90	5	58	59	0	8	32	1.27
30033322--30033516	83	2.3	83	98	0	372	27	20	20	31	1.98
30046384--30046417	16	2.1	17	88	5	52	55	8	11	23	1.63
30046952--30047001	21	2.5	21	81	15	61	72	8	0	20	1.10
30047100--30047136	17	2.1	18	90	5	58	59	0	8	32	1.27
30047257--30047298	21	2.0	21	86	9	59	64	2	0	33	1.07
30047227--30047298	19	3.7	19	69	22	51	63	1	1	33	1.11
30052563--30052630	29	2.2	32	82	12	90	39	0	2	57	1.14
30052561--30052630	28	2.4	30	85	7	90	41	0	2	55	1.14
30054013--30054074	16	3.7	16	75	12	61	53	4	1	40	1.32
30055766--30055810	22	2.0	22	83	8	56	73	11	2	13	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30056650--30056693	19	2.2	20	84	11	56	22	47	18	11	1.80
30059036--30059328	132	2.2	132	83	3	358	30	17	17	34	1.93
30059036--30059391	132	2.7	132	80	4	353	28	17	18	34	1.95
30062888--30063057	41	4.2	41	90	3	238	34	23	22	19	1.96
30063680--30063711	15	2.1	15	94	0	55	59	0	9	31	1.29
30070533--30070714	9	20.4	9	85	2	242	47	13	1	37	1.50
30070533--30070714	80	2.3	80	98	0	346	47	13	1	37	1.50
30076327--30076377	21	2.4	21	80	0	66	29	19	49	1	1.60
30076632--30076698	31	2.2	31	83	0	80	17	4	17	59	1.53
30076772--30076935	43	3.8	43	86	3	240	24	31	20	24	1.98
30076772--30076935	86	1.9	86	92	0	274	24	31	20	24	1.98
30077123--30077206	16	5.1	16	74	9	71	71	3	4	20	1.19
30077253--30077755	149	3.4	150	86	6	684	59	7	5	27	1.47
30081528--30081572	20	2.2	21	92	4	74	24	11	26	37	1.89
30082933--30083382	224	2.0	224	100	0	900	24	19	15	40	1.90
30084131--30084175	24	1.9	23	81	4	54	46	0	4	48	1.22
30084396--30084462	16	4.2	16	88	0	98	26	31	4	37	1.77
30084530--30084613	26	3.1	26	68	18	71	48	11	2	36	1.53
30087554--30087592	13	2.8	13	81	11	51	48	0	0	51	1.00
30090994--30091115	59	2.0	60	82	4	149	8	24	5	61	1.46
30091649--30091715	33	2.0	33	82	5	82	41	1	2	53	1.25
30091790--30091838	24	2.1	23	84	3	62	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)
30102981--30103016	15	2.4	15	95	0	63	22	8	25	44	1.80
30106621--30106674	25	2.2	25	86	0	72	24	20	22	33	1.97
30109845--30109917	37	2.0	37	97	2	139	39	27	10	21	1.87
30110152--30110402	82	3.0	82	84	4	335	48	12	11	27	1.75
30113103--30113154	25	2.1	25	81	0	59	55	7	7	28	1.56
30114107--30114147	22	1.9	21	85	5	55	41	4	0	53	1.22
30116358--30116435	22	3.5	22	81	6	95	23	20	16	39	1.92
30118211--30118254	23	1.9	23	90	4	63	25	2	45	27	1.65
30123633--30123740	17	5.9	19	84	10	145	37	10	15	36	1.82
30123642--30123740	35	2.8	36	90	6	157	38	11	15	35	1.83
30124225--30124284	17	3.5	17	74	21	63	33	1	0	65	1.03
30124226--30124284	16	3.5	16	76	23	59	33	1	0	64	1.04
30124261--30124310	26	1.9	26	83	0	64	36	4	0	60	1.16
30141359--30141487	48	2.7	48	84	3	163	30	15	31	22	1.95
30141464--30141625	46	3.6	44	80	12	152	28	19	27	24	1.99
30141507--30141680	47	3.8	46	81	5	183	28	19	28	24	1.98
30144842--30144923	25	3.3	25	87	3	112	23	31	14	30	1.94
30144882--30144930	25	2.0	25	91	0	80	26	28	10	34	1.89
30149965--30150093	64	2.0	64	96	0	240	38	10	18	31	1.85
30165928--30166174	44	5.6	44	86	1	278	32	15	19	31	1.94
30168858--30169171	49	6.7	49	77	10	280	24	28	19	27	1.98
30168805--30169171	49	7.8	46	73	12	223	25	28	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30168807--30169176	92	4.0	91	77	11	290	25	29	18	26	1.98
30169762--30169800	20	2.0	20	85	10	53	35	20	0	43	1.52
30171119--30171158	20	2.0	20	100	0	80	25	5	0	70	1.08
30178447--30178537	46	2.0	46	100	0	182	43	12	13	30	1.80
30180877--30180918	16	2.6	16	82	14	59	61	0	19	19	1.34
30185624--30185793	46	3.7	43	80	13	155	23	28	19	28	1.98
30191339--30191375	19	1.9	19	88	0	56	32	0	0	67	0.91
30208774--30208857	25	3.2	24	76	18	78	30	2	3	63	1.24
30209344--30209525	57	3.2	57	81	3	213	51	12	10	25	1.71
30209455--30209525	31	2.5	30	84	11	87	57	12	4	25	1.53
30215241--30215490	37	6.8	37	97	0	446	39	14	20	25	1.90
30215453--30215576	46	2.8	46	91	3	200	33	16	22	27	1.96
30223951--30224126	37	4.8	37	96	0	298	39	13	21	26	1.90
30224089--30224212	46	2.8	46	91	3	200	33	16	22	27	1.96
30228034--30228092	30	2.0	30	82	0	73	32	15	22	30	1.94
30228486--30228654	47	3.6	48	75	15	190	30	17	28	23	1.97
30228433--30228653	94	2.3	94	99	0	433	30	18	27	23	1.97
30231606--30231958	93	3.8	93	89	1	519	29	18	28	23	1.98
30231606--30231964	140	2.6	140	79	9	340	28	18	28	23	1.98
30231606--30231964	47	7.7	46	78	9	336	28	18	28	23	1.98
30237304--30237474	91	1.9	94	85	6	242	26	18	29	25	1.98
30240273--30240361	26	3.4	25	72	7	79	51	3	1	43	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30240284--30240432	52	2.7	54	77	12	142	53	4	1	41	1.28
30245221--30245296	37	2.1	37	92	2	127	48	25	3	22	1.67
30245677--30245718	20	2.1	20	90	0	66	57	14	14	14	1.66
30247816--30247856	11	3.7	11	93	0	73	36	17	17	29	1.92
30262647--30262692	23	2.0	23	91	0	74	63	6	13	17	1.50
30264183--30264228	19	2.5	19	96	3	85	65	13	2	19	1.37
30264314--30264352	12	3.2	12	85	0	51	12	28	12	46	1.79
30268473--30268517	19	2.4	19	85	7	56	68	0	28	2	1.01
30269706--30269748	19	2.2	20	83	8	52	53	2	4	39	1.34
30271734--30271848	42	2.7	42	76	9	101	40	15	23	20	1.90
30274855--30274926	35	2.1	35	92	5	119	36	12	19	31	1.89
30280005--30280048	24	1.9	24	86	9	65	45	25	20	9	1.80
30280272--30280301	12	2.4	13	94	5	53	73	0	0	26	0.84
30290241--30290367	68	1.9	68	88	3	193	29	16	22	30	1.96
30290426--30290765	76	4.5	75	83	8	415	31	15	20	32	1.94
30290408--30290765	72	4.8	73	81	9	395	30	14	19	34	1.92
30290987--30291233	88	2.8	87	84	5	291	28	17	19	34	1.94
30291166--30291419	73	3.5	72	90	3	384	33	16	18	31	1.94
30292116--30292300	93	2.0	93	96	0	343	29	44	7	18	1.77
30292209--30292489	141	2.0	141	97	0	535	25	45	10	18	1.82
30296576--30296605	13	2.3	13	94	0	51	36	26	0	36	1.57
30296704--30296870	46	3.6	46	90	1	255	20	25	11	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30300670--30300712	20	2.2	20	83	8	52	37	4	4	53	1.43
30308973--30309025	22	2.5	22	84	3	63	24	37	24	13	1.91
30334132--30334226	43	2.2	43	90	3	147	34	25	12	27	1.92
30338194--30338233	21	1.9	21	89	0	62	42	15	0	42	1.46
30338557--30338604	23	2.1	23	100	0	96	43	8	16	31	1.78
30341332--30341386	21	2.6	21	94	0	92	21	32	27	18	1.96
30341991--30342046	29	1.9	29	100	0	112	30	32	5	32	1.80
30344896--30344967	28	2.6	28	86	0	99	27	27	13	30	1.94
30344954--30345102	46	3.4	45	86	5	182	34	28	14	22	1.93
30344980--30345113	40	3.2	40	79	14	137	34	29	14	21	1.94

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