genome.fa.s10.2.7.7.80.10.50.1000.23.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  23  of  172  ( 20562 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)
7299927--7300026	40	2.5	40	83	1	130	13	19	26	42	1.87
7303709--7303754	19	2.4	19	77	0	56	58	2	4	34	1.30
7305779--7305961	90	2.0	90	100	0	366	25	19	22	31	1.98
7306239--7306320	42	2.0	42	95	0	146	35	15	3	45	1.64
7306253--7306343	42	2.2	41	86	7	121	40	10	3	45	1.56
7306470--7306526	8	7.1	8	76	21	57	49	0	0	50	1.00
7306470--7306528	30	1.9	32	89	6	95	50	0	0	49	1.00
7308521--7308546	11	2.4	11	100	0	52	15	0	7	76	0.99
7308737--7308979	41	5.9	41	82	3	249	38	21	16	24	1.93
7308738--7308979	82	2.9	81	84	4	281	38	21	15	24	1.92
7308752--7308979	123	1.9	123	82	3	289	38	21	14	25	1.92
7309120--7309161	11	3.8	11	93	0	75	26	9	0	64	1.24
7309120--7309169	22	2.2	22	89	3	73	24	8	0	68	1.16
7310692--7310805	40	2.8	40	84	10	142	32	20	21	25	1.98
7321396--7321498	31	3.4	29	76	8	107	52	6	1	38	1.39
7323209--7323337	64	2.0	64	90	3	206	30	16	14	38	1.89
7323490--7323883	177	2.2	177	90	0	610	30	21	22	26	1.99
7325357--7325407	24	2.1	24	100	0	102	19	11	11	56	1.65
7325437--7325476	16	2.5	16	84	8	55	35	0	2	62	1.09
7326220--7326530	126	2.5	126	86	2	426	27	15	18	38	1.91
7328954--7328988	12	2.9	12	87	12	54	57	0	0	42	0.99
7335389--7335414	13	2.0	13	100	0	52	23	0	30	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7352095--7352193	40	2.5	40	79	12	125	16	16	25	42	1.88
7362989--7363182	9	20.6	9	68	20	69	63	2	2	31	1.19
7363055--7363213	10	16.2	10	67	22	70	63	3	2	30	1.23
7363055--7363154	19	5.2	19	74	14	71	64	3	3	30	1.24
7363080--7363156	21	3.8	21	75	6	68	66	2	3	27	1.22
7363079--7363154	40	1.9	40	86	0	107	64	2	3	28	1.25
7363061--7363219	58	2.7	56	76	12	151	62	3	3	30	1.26
7363151--7363245	39	2.5	39	75	11	97	62	2	3	32	1.23
7363437--7363486	19	2.8	17	85	11	64	34	2	0	64	1.05
7363443--7363478	18	1.9	19	94	5	65	36	2	0	61	1.11
7363512--7363734	88	2.5	89	81	5	229	33	9	17	39	1.82
7365997--7366066	31	2.3	31	85	5	88	22	2	38	35	1.69
7376787--7376874	27	3.3	27	85	9	126	15	22	21	39	1.91
7376768--7376877	54	2.0	54	87	3	159	17	23	20	38	1.93
7394239--7394318	42	1.9	42	89	5	126	51	5	3	40	1.42
7395624--7395703	19	3.8	20	73	15	63	62	5	0	32	1.17
7396400--7396439	21	1.9	20	85	10	53	10	40	0	50	1.36
7398347--7398398	22	2.3	22	78	15	52	59	3	3	32	1.33
7398770--7398818	17	3.0	16	79	11	55	57	8	2	32	1.40
7398856--7398886	16	1.9	16	93	0	53	58	0	0	41	0.98
7405746--7405787	22	1.9	22	95	0	75	35	14	19	30	1.91
7407651--7407695	15	3.0	15	100	0	90	40	0	20	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7411301--7411397	48	2.0	48	85	0	131	25	26	7	40	1.82
7412660--7412706	20	2.4	20	96	3	87	19	29	0	51	1.47
7416101--7416188	30	2.9	30	81	0	104	25	14	20	39	1.90
7423107--7423152	23	2.0	23	100	0	92	34	21	4	39	1.73
7431035--7431109	20	3.8	20	69	22	59	41	2	10	45	1.53
7435611--7435738	50	2.5	50	88	1	193	38	13	14	33	1.85
7439496--7439941	226	2.0	226	95	0	813	46	13	8	31	1.74
7439924--7440045	50	2.4	51	84	2	183	37	13	14	33	1.86
7440053--7440129	39	2.0	39	94	0	136	42	14	10	32	1.79
7440445--7440494	24	2.1	24	100	0	100	34	8	24	34	1.84
7440481--7440609	60	2.2	60	98	0	249	44	19	13	21	1.85
7440499--7440592	29	3.2	29	61	21	68	45	20	11	22	1.83
7441334--7441373	17	2.4	17	91	0	62	42	32	12	12	1.80
7447609--7447688	37	2.1	38	88	6	119	46	1	2	50	1.23
7447993--7448059	27	2.4	28	82	7	75	14	1	28	55	1.49
7450462--7450565	52	2.0	52	98	0	199	28	9	29	31	1.89
7450643--7452970	924	2.5	919	81	6	2570	39	12	25	22	1.89
7462510--7462546	19	1.9	19	88	0	56	37	21	16	24	1.93
7465374--7465880	49	10.6	49	95	3	860	32	8	29	29	1.86
7465374--7465880	145	3.5	143	95	3	862	32	8	29	29	1.86
7467080--7467263	91	2.0	90	83	8	230	32	16	27	23	1.96
7471009--7471061	3	18.0	3	88	11	83	32	1	0	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7480326--7480403	41	1.9	41	97	0	147	25	20	12	41	1.88
7480529--7480727	42	4.6	42	71	6	114	26	24	17	31	1.97
7484146--7484409	52	5.1	51	77	6	167	33	16	23	26	1.96
7484146--7484412	26	10.3	26	70	10	125	33	16	23	26	1.96
7498194--7498263	35	2.0	35	94	0	122	38	22	14	24	1.91
7502594--7502797	35	5.8	35	80	0	219	28	8	19	43	1.81
7502597--7502797	105	1.9	105	81	6	246	28	8	19	43	1.81
7507986--7508121	51	2.7	51	77	0	155	39	6	12	41	1.69
7514575--7514677	52	2.0	51	96	3	190	27	19	19	33	1.96
7515076--7515206	41	3.2	41	81	4	151	36	23	22	17	1.95
7515181--7515452	41	6.6	41	83	1	330	23	20	27	27	1.99
7515181--7515452	82	3.3	82	88	2	384	23	20	27	27	1.99
7515762--7515811	18	2.7	18	84	9	66	46	4	2	48	1.32
7516228--7516262	15	2.3	15	95	0	61	57	0	8	34	1.29
7516234--7516301	24	2.8	23	76	10	64	57	0	4	38	1.19
7518829--7518929	49	2.0	50	96	1	186	26	15	18	38	1.91
7524956--7526177	635	1.9	635	99	0	2399	24	13	19	42	1.87
7526615--7527902	373	3.5	373	99	0	2540	35	14	10	38	1.81
7527990--7528057	24	2.8	24	82	8	84	30	17	5	45	1.72
7528234--7528289	15	3.8	15	80	20	73	46	0	0	53	1.00
7528394--7528619	9	24.6	9	76	8	143	47	12	0	38	1.48
7528394--7528619	18	12.3	18	75	9	161	47	12	0	38	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7528422--7528643	114	1.9	114	86	3	313	47	12	0	38	1.48
7534561--7534627	31	2.2	31	83	0	80	17	4	17	59	1.53
7534704--7534878	43	4.0	43	92	0	278	24	33	18	24	1.97
7550466--7550657	40	4.8	41	90	2	275	23	20	29	26	1.99
7562092--7562354	132	2.0	132	98	0	508	36	14	20	28	1.92
7563632--7563686	28	2.0	28	92	0	92	43	16	3	36	1.65
7567098--7567205	5	21.6	5	70	19	57	60	1	2	35	1.22
7567077--7567205	9	14.3	9	65	18	54	58	3	3	34	1.29
7567146--7567205	19	3.0	20	71	24	56	65	0	5	30	1.14
7566999--7567203	17	11.8	17	66	19	77	59	3	2	34	1.29
7567153--7567198	24	1.9	24	86	8	67	63	0	6	30	1.20
7568775--7569330	206	2.7	206	85	1	790	28	21	18	30	1.97
7570486--7570593	5	21.6	5	70	19	57	60	1	2	35	1.22
7570465--7570593	9	14.3	9	65	18	54	58	3	3	34	1.29
7570534--7570593	19	3.0	20	71	24	56	65	0	5	30	1.14
7570387--7570591	17	11.8	17	66	19	77	59	3	2	34	1.29
7570541--7570586	24	1.9	24	86	8	67	63	0	6	30	1.20
7572163--7572677	206	2.5	206	85	1	717	28	21	18	31	1.97
7572497--7572844	180	1.9	180	93	0	597	27	21	18	31	1.97
7572291--7573310	386	2.6	386	84	5	1139	28	21	19	31	1.97
7572677--7573310	206	3.1	206	86	1	939	28	21	19	30	1.97
7585778--7585885	5	21.6	5	70	19	57	60	1	2	35	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7585757--7585885	9	14.3	9	65	18	54	58	3	3	34	1.29
7585826--7585885	19	3.0	20	71	24	56	65	0	5	30	1.14
7585679--7585883	17	11.8	17	66	19	77	59	3	2	34	1.29
7585833--7585878	24	1.9	24	86	8	67	63	0	6	30	1.20
7587455--7588010	206	2.7	206	86	1	799	28	21	18	31	1.97
7588828--7588935	5	21.6	5	70	19	57	60	1	2	35	1.22
7588807--7588935	9	14.3	9	65	18	54	58	3	3	34	1.29
7588876--7588935	19	3.0	20	71	24	56	65	0	5	30	1.14
7588729--7588933	17	11.8	17	66	19	77	59	3	2	34	1.29
7588883--7588928	24	1.9	24	86	8	67	63	0	6	30	1.20

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