genome.fa.s20.2.7.7.80.10.50.1000.125.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  125  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)
41517789--41517993	100	2.1	100	92	0	340	40	21	7	30	1.80
41518976--41519015	20	2.0	20	85	9	55	40	15	7	37	1.75
41523573--41523674	42	2.4	43	77	6	109	30	20	17	31	1.96
41523562--41523711	43	3.5	43	73	8	110	29	23	19	28	1.98
41527812--41527944	51	2.6	50	86	3	169	25	18	25	30	1.98
41527809--41527992	50	3.7	51	81	5	198	25	17	26	29	1.98
41536559--41536687	49	2.7	49	80	4	147	25	30	18	25	1.98
41541163--41541260	22	4.3	23	76	14	80	36	17	25	20	1.94
41541200--41541261	22	2.7	24	82	12	85	37	16	27	19	1.93
41541200--41541271	23	3.2	23	80	7	85	34	16	29	19	1.94
41548188--41548441	129	2.0	129	79	4	280	27	26	22	24	2.00
41549625--41549684	30	2.0	30	90	0	93	38	8	25	28	1.84
41552308--41552352	24	1.9	23	82	13	56	40	6	20	33	1.78
41571907--41572084	27	6.6	27	84	3	205	29	28	15	26	1.96
41571928--41572083	82	1.9	81	88	3	233	29	28	15	26	1.96
41579970--41580147	27	6.6	27	84	3	205	29	28	15	26	1.96
41579991--41580146	82	1.9	81	88	3	233	29	28	15	26	1.96
41589063--41589109	24	2.0	24	86	0	67	38	4	6	51	1.47
41592915--41593016	17	6.0	17	69	0	69	46	15	8	29	1.76
41592911--41593015	51	2.1	51	83	0	129	46	14	8	30	1.74
41593648--41593696	18	2.7	18	84	6	64	48	22	4	24	1.67
41595732--41595760	11	2.7	11	94	5	51	58	0	34	6	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41597641--41597697	15	3.8	15	73	13	55	36	3	0	59	1.14
41597645--41597711	32	2.1	31	83	8	82	37	5	0	56	1.24
41603098--41603341	45	5.3	45	78	4	245	31	17	17	34	1.93
41603138--41603338	95	2.2	93	82	6	246	31	18	17	31	1.94
41611856--41611904	15	3.5	15	68	21	52	53	30	2	14	1.52
41611849--41611903	26	2.1	26	100	0	110	54	25	3	16	1.58
41613622--41613651	14	2.1	14	93	0	51	53	0	3	43	1.17
41614238--41614289	26	2.0	27	92	3	88	50	0	9	40	1.35
41618345--41618392	19	2.5	19	93	0	78	52	2	22	22	1.58
41620126--41620161	18	1.9	19	88	5	56	63	13	5	16	1.47
41622969--41623008	20	2.0	20	85	9	55	40	5	0	55	1.22
41627773--41628103	50	6.9	50	81	10	345	22	30	19	26	1.98
41627828--41628093	140	1.9	143	90	3	430	22	30	19	26	1.98
41627828--41628101	94	2.9	93	80	7	320	23	30	19	26	1.98
41627779--41628101	46	6.8	47	86	4	343	22	30	19	27	1.98
41629835--41629881	22	2.2	22	96	3	87	34	8	0	57	1.29
41633139--41633197	29	2.0	29	100	0	118	32	6	13	47	1.69
41634663--41634838	39	4.5	39	84	2	212	22	22	27	27	1.99
41642517--41642701	39	4.7	39	92	0	298	22	21	25	30	1.98
41646467--41646616	39	3.9	39	90	0	230	22	21	26	30	1.99
41652090--41652260	93	1.8	93	96	0	315	28	29	21	21	1.98
41652082--41652257	46	3.8	46	80	12	225	28	28	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41657928--41658077	67	2.2	67	81	8	171	32	17	28	21	1.96
41657952--41658135	67	2.8	64	77	8	194	29	17	29	22	1.97
41669178--41669294	29	4.1	29	88	1	173	24	13	29	32	1.94
41673191--41673448	27	9.6	26	80	5	246	41	20	10	27	1.85
41673191--41673448	54	4.8	54	85	0	311	41	20	10	27	1.85
41673212--41673448	81	2.9	81	85	2	316	41	19	11	27	1.86
41676400--41676449	20	2.5	20	80	0	64	22	34	22	22	1.97
41677991--41678040	20	2.5	20	80	0	64	22	34	22	22	1.97
41682272--41682456	40	4.7	40	81	6	207	27	28	21	23	1.99
41682278--41682456	79	2.2	81	81	7	206	25	28	21	24	1.99
41692783--41692845	31	2.0	31	90	0	99	23	22	15	38	1.93
41693030--41693160	48	2.6	49	82	11	160	27	23	18	30	1.98
41693030--41693158	25	5.2	25	86	8	158	27	24	18	30	1.98
41693209--41693275	20	3.3	20	76	0	80	35	20	10	32	1.87
41695091--41695115	12	2.1	12	100	0	50	32	36	0	32	1.58
41695068--41695411	56	6.1	56	96	0	600	23	22	8	45	1.79
41699619--41699735	56	2.1	56	95	0	207	22	23	10	44	1.83
41701633--41701938	150	2.0	150	98	0	594	22	28	16	32	1.96
41707705--41707789	20	4.2	20	86	0	125	32	20	12	34	1.90
41707705--41707758	11	5.3	11	72	17	53	33	20	11	35	1.88
41709799--41709832	17	1.9	17	88	5	50	41	23	0	35	1.55
41709856--41709889	17	1.9	17	88	5	50	41	23	0	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41709796--41709928	57	2.3	57	100	0	266	32	19	4	43	1.71
41715884--41715944	30	2.0	30	83	0	77	31	22	8	37	1.84
41729110--41729210	50	2.0	50	96	0	184	25	21	34	17	1.96
41730735--41730881	39	3.8	39	91	0	231	22	25	21	29	1.99
41733499--41733583	37	2.3	37	89	0	125	28	20	24	27	1.99
41733563--41733743	48	3.8	48	86	0	254	24	19	25	29	1.98
41738279--41738319	12	3.3	12	86	3	55	80	4	2	12	0.97
41739272--41739320	19	2.6	19	83	0	53	20	4	8	67	1.34
41740879--41740955	33	2.3	33	80	12	79	11	11	3	72	1.24
41740878--41740928	21	2.5	21	78	15	61	9	11	3	74	1.19
41741816--41741859	23	2.0	22	86	4	61	79	2	9	9	1.02
41741824--41741869	14	3.2	14	84	6	65	82	0	6	10	0.83
41741824--41741869	15	3.1	15	81	3	58	82	0	6	10	0.83
41748294--41748333	13	3.1	13	89	7	55	22	20	20	37	1.94
41759239--41759512	29	9.4	29	77	6	171	36	12	27	24	1.91
41759239--41759484	58	4.2	58	73	7	203	36	11	28	23	1.90
41759239--41759482	87	2.8	87	75	8	210	36	11	27	24	1.90
41759238--41759484	116	2.1	116	82	4	293	36	11	27	23	1.90
41759261--41759555	29	10.1	29	77	6	170	36	12	27	23	1.91
41773156--41773324	27	6.2	27	83	4	196	27	15	26	30	1.96
41773157--41773312	82	1.9	81	88	3	233	26	15	28	29	1.96
41782593--41782820	40	5.7	40	97	0	411	30	20	27	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41795456--41795542	34	2.6	34	83	3	95	25	25	25	24	2.00
41804837--41804875	20	2.0	20	94	0	69	48	0	2	48	1.15
41804973--41805012	20	2.0	20	100	0	80	45	15	10	30	1.78
41804996--41805038	14	3.0	14	86	3	50	34	16	11	37	1.85
41809911--41810669	380	2.0	380	95	0	1374	33	23	15	27	1.95
41840436--41840724	147	2.0	147	91	1	472	39	19	12	28	1.88
41844487--41844529	22	1.9	23	90	4	70	20	53	4	20	1.63
41849371--41849422	24	2.2	24	82	6	61	36	11	1	50	1.50
41852418--41852495	39	2.0	39	94	0	138	47	19	3	29	1.67
41858016--41858092	40	1.9	40	86	5	111	29	27	18	24	1.98
41860151--41860294	75	1.9	75	100	0	288	23	23	23	29	1.99
41861063--41861214	74	2.1	74	89	0	232	24	21	21	32	1.98
41865216--41865507	40	7.3	40	95	1	498	26	27	21	24	1.99
41865216--41865558	80	4.3	80	91	2	505	26	27	21	24	1.99
41873074--41873256	40	4.6	39	81	6	170	24	20	27	26	1.99
41873110--41873291	79	2.3	80	79	3	190	26	20	27	25	1.99
41886999--41887974	40	24.4	40	98	0	1803	29	27	20	22	1.98
41895638--41895818	40	4.6	40	77	6	181	24	19	28	27	1.98
41895688--41895841	79	1.9	79	79	7	170	25	18	28	27	1.98
41899220--41899777	49	11.6	47	95	1	864	32	8	29	29	1.87
41899896--41899997	37	2.8	37	95	0	177	24	18	30	26	1.98
41903465--41903648	92	2.0	92	98	0	359	30	16	24	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41909814--41909843	15	1.9	16	93	6	53	36	13	0	50	1.42
41912055--41912310	43	6.0	42	80	3	206	25	14	28	31	1.95
41912049--41912343	86	3.5	84	76	3	257	27	15	26	30	1.96
41916852--41916919	35	1.9	36	84	3	93	26	10	23	39	1.87
41918187--41918211	12	2.1	12	100	0	50	24	0	8	68	1.16
41918898--41918922	12	2.1	12	100	0	50	24	0	8	68	1.16
41921640--41921667	12	2.3	12	100	0	56	39	17	0	42	1.50
41924091--41924182	46	2.0	46	85	8	125	22	22	20	33	1.97
41924091--41924177	23	3.8	22	77	8	93	24	24	20	31	1.98
41924370--41924408	20	2.0	20	94	0	69	33	7	23	35	1.83

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