genome.fa.s4.2.7.7.80.10.50.1000.87.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  87  of  235  ( 28198 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)
30384835--30384959	28	4.6	27	94	1	196	32	28	12	27	1.92
30384835--30384959	55	2.3	55	91	2	198	32	28	12	27	1.92
30388871--30388946	37	2.1	37	89	0	116	26	32	18	22	1.97
30389067--30389962	49	18.6	49	95	2	1491	31	29	7	32	1.84
30407936--30407992	21	2.6	23	86	5	82	15	33	31	19	1.93
30409029--30409389	143	2.6	138	81	9	392	23	28	19	28	1.98
30413548--30413661	57	2.0	57	96	0	210	14	17	35	33	1.90
30417910--30418831	80	11.5	80	98	0	1722	25	21	27	26	1.99
30420295--30420489	54	3.6	53	74	6	167	21	22	18	37	1.94
30424032--30424124	3	31.7	3	69	12	59	65	3	4	26	1.26
30424011--30424080	31	2.3	29	83	16	81	62	4	2	30	1.28
30424196--30424307	9	11.5	10	70	12	65	61	1	6	30	1.31
30424197--30424264	3	22.3	3	79	11	68	63	0	7	29	1.21
30424207--30424311	38	2.8	37	81	11	101	61	1	5	30	1.30
30424311--30424354	15	2.7	17	79	10	56	59	4	11	25	1.51
30424355--30424383	15	1.9	15	100	0	58	68	3	6	20	1.27
30424409--30424438	14	2.1	14	100	0	60	66	0	0	33	0.92
30428471--30428622	27	5.6	27	93	3	241	30	28	13	26	1.94
30428471--30428622	55	2.8	55	94	0	259	30	28	13	26	1.94
30430586--30430652	28	2.5	28	82	4	75	40	23	11	23	1.88
30437303--30437337	18	1.9	18	88	11	54	25	0	0	74	0.82
30438089--30438153	34	2.0	34	81	6	80	32	26	15	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30439523--30439553	4	7.8	4	100	0	62	77	0	22	0	0.77
30440772--30440811	19	2.2	18	86	4	53	57	0	2	40	1.12
30440926--30440959	14	2.3	15	90	5	52	58	0	0	41	0.98
30441094--30441133	18	2.1	20	86	9	57	50	5	0	45	1.23
30445290--30445335	23	2.0	23	95	0	83	43	15	4	36	1.66
30447886--30447952	27	2.4	27	72	16	66	73	5	0	20	1.04
30448321--30448377	7	8.1	7	77	14	64	17	0	0	82	0.67
30448322--30448376	8	6.6	8	78	21	60	14	0	0	85	0.60
30448322--30448376	16	3.2	16	92	7	83	14	0	0	85	0.60
30450323--30450424	38	2.6	39	81	3	134	29	11	12	46	1.78
30450499--30450548	23	2.2	23	85	0	64	28	12	16	44	1.83
30455037--30455068	6	5.3	6	100	0	64	65	0	0	34	0.93
30455969--30456002	12	2.8	12	95	0	59	26	26	14	32	1.95
30458810--30458902	41	2.3	40	79	5	98	27	20	24	26	1.99
30459018--30459057	21	2.0	21	85	14	57	52	22	17	7	1.69
30459585--30459634	21	2.3	21	80	12	57	18	0	46	36	1.49
30459600--30459640	21	2.0	21	85	9	57	19	0	39	41	1.52
30462524--30462581	8	7.4	8	77	11	57	36	1	29	32	1.68
30463240--30463579	99	3.4	99	97	0	619	47	7	4	40	1.53
30463408--30463442	16	2.2	16	89	0	52	42	8	0	48	1.33
30463507--30463540	16	2.2	16	89	5	52	41	8	0	50	1.34
30463240--30463618	99	3.9	97	94	3	577	45	7	4	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30463642--30463675	5	7.0	5	86	6	52	23	0	0	76	0.79
30463732--30463849	9	13.1	9	79	10	134	44	21	0	33	1.58
30463732--30463814	21	4.0	21	72	17	73	44	22	0	32	1.53
30463732--30463856	42	2.8	44	85	12	168	45	20	0	32	1.57
30466085--30466432	87	4.0	87	99	0	687	36	11	18	33	1.87
30469207--30469235	14	2.1	14	93	6	51	34	0	10	55	1.34
30469978--30470038	31	2.0	31	90	0	95	14	9	19	55	1.67
30472706--30472770	30	2.2	30	88	5	96	32	6	13	47	1.68
30484982--30485225	40	6.1	40	93	1	366	25	29	23	21	1.99
30490182--30490230	23	2.1	23	81	7	55	22	53	2	22	1.57
30493117--30493291	46	3.8	45	77	15	178	20	21	28	30	1.98
30493114--30493285	93	1.8	93	91	2	283	20	21	28	29	1.98
30495680--30495778	49	2.0	48	94	1	171	31	20	23	24	1.98
30500349--30500748	200	2.0	200	97	0	755	36	7	18	38	1.79
30500947--30501116	46	3.7	45	76	13	193	19	19	30	30	1.96
30500938--30501109	93	1.8	93	97	0	326	20	20	30	29	1.97
30508391--30508599	46	4.5	46	77	9	196	27	19	29	23	1.98
30510325--30510502	27	6.6	27	84	3	205	29	28	15	26	1.96
30510346--30510501	82	1.9	81	88	3	233	29	28	15	26	1.96
30518027--30518204	27	6.6	27	84	3	205	29	28	15	26	1.96
30518048--30518203	82	1.9	81	88	3	233	29	28	15	26	1.96
30520672--30520786	46	2.5	44	82	9	126	28	18	27	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30531380--30531408	13	2.2	13	100	0	58	13	13	13	58	1.63
30533399--30533438	21	2.0	20	90	5	62	15	0	55	30	1.41
30535728--30535756	15	1.9	15	100	0	58	27	20	13	37	1.91
30539873--30540109	43	5.7	43	90	3	353	25	21	28	24	1.99
30539880--30540146	43	6.5	40	88	4	238	25	21	28	24	1.99
30540848--30541014	84	2.0	84	94	2	291	47	10	18	23	1.79
30545032--30545082	24	2.1	24	100	0	102	15	7	33	43	1.76
30547871--30547995	43	2.9	43	92	0	214	26	20	29	23	1.99
30548361--30548455	47	2.0	47	100	0	190	26	16	23	33	1.96
30552019--30552191	46	3.7	46	74	6	179	22	20	27	28	1.99
30552015--30552186	93	1.8	93	90	2	274	22	20	29	27	1.99
30559819--30559939	61	2.0	61	83	3	154	25	31	19	23	1.98
30564762--30564793	13	2.4	14	94	5	57	21	0	6	71	1.07
30584083--30584153	34	2.1	34	94	0	124	25	18	11	45	1.82
30593688--30593834	23	6.4	22	78	7	109	23	25	17	33	1.96
30593701--30593826	45	2.8	46	80	13	147	24	25	16	33	1.96
30593700--30593826	23	5.6	22	78	11	116	24	25	17	33	1.96
30598787--30598865	26	3.0	26	94	1	131	30	21	16	31	1.95
30599075--30599117	23	1.9	23	90	4	70	20	4	51	23	1.66
30614553--30614646	49	1.9	49	95	0	170	28	24	15	30	1.96
30615723--30615777	24	2.3	23	82	14	67	29	34	16	20	1.94
30617602--30617660	23	2.6	23	81	10	68	44	13	6	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30625375--30625420	23	2.0	23	84	12	60	45	10	6	36	1.65
30625382--30625426	23	2.0	23	82	8	56	40	13	8	37	1.76
30631003--30631060	11	5.5	10	75	17	55	13	8	1	75	1.10
30631005--30631076	32	2.3	32	81	15	80	18	6	1	73	1.12
30639355--30639393	20	2.1	18	85	9	51	61	0	2	35	1.10
30639357--30639422	27	2.5	26	76	11	71	68	0	4	27	1.09
30639397--30639449	11	5.1	10	76	17	54	75	1	9	13	1.12
30639397--30639459	31	2.0	31	82	11	76	74	3	11	11	1.18
30640402--30640431	6	5.0	6	91	0	51	16	13	16	53	1.73
30655404--30655792	195	2.0	195	99	0	769	40	16	8	33	1.79
30670025--30670085	30	2.0	30	83	0	77	31	22	8	37	1.84
30677422--30677504	41	2.0	41	97	0	157	34	1	28	34	1.65
30681713--30681737	13	1.9	13	100	0	50	32	4	24	40	1.73
30682865--30682973	42	2.6	42	80	11	125	25	19	24	30	1.98
30682824--30682981	42	3.7	42	75	9	124	24	18	25	30	1.98
30683696--30683750	23	2.4	23	93	0	92	27	5	21	45	1.74
30687866--30687945	37	2.2	37	86	4	108	27	30	17	25	1.97
30688079--30688176	47	2.1	47	84	0	124	26	34	10	28	1.89
30694175--30694233	30	2.0	30	90	6	93	33	0	11	54	1.37
30698887--30698919	16	2.1	16	94	0	57	39	15	21	24	1.91
30720008--30720074	25	2.7	25	90	0	107	34	17	20	26	1.96
30723579--30723621	22	2.0	22	95	0	77	37	0	6	55	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30728267--30728297	14	2.2	14	94	0	53	12	3	6	77	1.08
30734171--30734349	31	5.8	31	80	0	214	30	18	25	25	1.98
30734171--30734378	62	3.4	62	80	5	237	30	18	25	25	1.98
30734327--30734420	29	3.2	29	92	0	143	34	11	27	26	1.91
30734415--30734537	33	3.8	32	82	2	129	33	9	21	35	1.86
30734415--30734520	33	3.2	33	83	2	133	33	10	20	34	1.87
30734415--30734541	65	2.0	65	83	0	164	33	10	21	35	1.87
30737995--30738041	15	3.1	15	87	0	67	14	14	17	53	1.74
30740611--30740849	31	7.7	31	83	1	300	29	17	26	26	1.98
30740827--30740921	29	3.3	29	91	2	147	31	11	28	28	1.92

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235