genome.fa.s20.2.7.7.80.10.50.1000.99.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  99  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)
32508296--32508371	37	2.1	37	87	0	107	23	18	31	26	1.97
32513710--32513768	30	2.0	30	93	0	100	33	13	27	25	1.93
32515747--32515869	39	3.2	39	78	0	138	34	13	28	24	1.92
32524388--32524439	18	2.9	18	88	0	77	34	15	7	42	1.75
32526129--32526161	14	2.3	15	94	5	59	18	9	15	57	1.63
32529512--32529541	15	2.1	15	93	6	53	30	6	26	36	1.82
32529726--32529786	31	2.0	31	83	6	79	54	0	6	39	1.27
32532327--32532445	37	3.1	38	83	9	136	29	22	23	24	1.99
32534851--32535049	43	4.7	43	79	4	206	27	19	28	25	1.99
32534888--32535049	85	1.9	85	92	2	272	26	19	29	24	1.99
32534861--32535103	128	1.9	125	83	5	310	26	19	29	24	1.99
32542602--32542786	40	4.6	39	83	7	205	23	22	28	25	1.99
32542655--32542819	79	2.1	79	83	6	201	25	20	27	26	1.99
32550719--32550904	40	4.7	40	88	5	252	24	22	27	26	2.00
32550772--32550937	80	2.1	79	86	5	228	25	20	27	26	1.99
32555141--32555176	14	2.6	14	86	0	54	36	30	8	25	1.85
32559569--32559641	21	3.5	21	73	0	65	28	21	28	20	1.98
32561484--32561617	40	3.4	40	73	9	141	26	17	24	31	1.97
32566083--32566120	19	2.0	19	85	10	51	13	23	44	18	1.85
32566336--32566443	54	2.0	54	89	3	164	35	21	20	23	1.96
32566340--32566443	27	3.9	27	88	2	147	35	20	20	24	1.96
32566339--32566455	54	2.2	54	85	3	155	33	21	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32566585--32566666	27	3.1	27	80	5	87	25	18	20	35	1.95
32569694--32569852	43	3.7	43	78	9	155	32	26	17	23	1.97
32580253--32580365	43	2.7	43	82	12	151	31	26	17	23	1.97
32583656--32583783	31	4.2	32	73	18	114	46	3	1	49	1.27
32583656--32583783	60	2.1	61	95	4	233	46	3	1	49	1.27
32588855--32588926	29	2.4	30	83	4	101	22	23	11	43	1.85
32590180--32590234	17	3.3	17	79	2	58	60	1	7	30	1.35
32590152--32590253	15	6.7	15	71	15	59	60	1	5	31	1.31
32592137--32593225	44	24.9	44	69	18	575	32	25	13	28	1.94
32592168--32593054	87	10.1	89	89	5	446	32	25	13	27	1.94
32592300--32593286	87	11.3	87	91	4	1396	33	24	14	28	1.94
32593043--32593266	40	5.2	41	61	24	104	35	23	13	27	1.93
32592300--32593355	437	2.4	435	88	5	1539	32	24	14	28	1.94
32605606--32605631	9	2.9	9	100	0	52	0	23	34	42	1.54
32612179--32612345	89	1.9	88	85	4	230	37	13	10	38	1.79
32612543--32612581	20	2.0	20	85	10	53	64	7	0	28	1.21
32612574--32612611	19	2.0	19	100	0	76	47	15	5	31	1.68
32612770--32612919	10	14.9	10	68	19	55	29	5	2	63	1.27
32612863--32612921	20	2.8	22	80	14	72	27	5	0	67	1.11
32612887--32612960	19	3.8	18	77	10	58	29	4	1	64	1.20
32613502--32613654	36	4.2	36	74	9	121	43	13	20	22	1.86
32613530--32613671	75	1.9	75	88	0	212	43	13	20	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32613540--32613695	75	2.1	75	82	2	188	42	13	21	21	1.87
32613725--32614154	36	11.7	35	72	9	224	43	14	20	22	1.87
32613722--32614170	75	6.1	73	76	6	379	43	14	20	21	1.87
32613709--32614075	147	2.5	146	87	2	522	44	14	19	20	1.87
32613838--32614150	111	2.8	110	75	9	303	44	14	19	21	1.86
32613807--32614229	75	5.7	73	77	6	246	44	13	18	22	1.86
32613709--32614262	147	3.8	148	81	4	433	44	14	18	22	1.86
32614294--32614486	36	5.2	35	70	15	120	47	16	16	20	1.83
32614214--32614502	150	1.9	153	83	6	381	47	14	17	20	1.83
32614214--32614510	75	3.9	75	83	4	328	46	15	17	20	1.84
32615305--32615359	25	2.2	26	78	15	62	50	5	3	40	1.43
32615252--32615388	68	2.0	71	86	5	199	50	3	4	41	1.40
32615260--32615407	68	2.1	71	80	7	160	51	3	4	41	1.37
32619438--32619468	14	2.2	14	100	0	62	38	12	6	41	1.69
32622532--32622736	102	2.0	102	90	1	322	35	23	12	28	1.91
32625680--32625846	27	6.1	27	82	10	198	37	22	22	17	1.94
32625680--32625846	54	3.1	54	89	2	246	37	22	22	17	1.94
32627422--32627529	26	4.2	26	93	0	189	36	24	7	32	1.83
32627839--32627887	17	2.9	17	81	6	55	65	0	0	34	0.93
32628412--32628490	27	2.9	27	80	12	90	35	0	5	59	1.19
32628410--32628476	18	3.7	18	78	4	71	37	0	4	58	1.19
32640712--32640749	18	2.1	18	95	0	67	42	47	2	7	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32640726--32640750	13	1.9	13	100	0	50	40	48	0	12	1.40
32640775--32640809	6	5.5	6	87	12	52	80	2	0	17	0.84
32640777--32640812	14	2.6	14	86	4	56	77	2	0	19	0.88
32640827--32640911	9	9.4	9	83	5	91	29	9	18	42	1.82
32645176--32645215	20	2.0	20	85	9	55	35	0	7	57	1.27
32645182--32645238	28	2.1	27	83	9	71	38	0	7	54	1.28
32645210--32645247	20	1.9	20	89	10	60	42	0	2	55	1.14
32652686--32652952	35	7.6	35	85	0	327	31	23	11	32	1.91
32652692--32652952	105	2.5	105	88	1	371	31	24	11	32	1.91
32657515--32657620	40	2.7	39	82	7	126	36	4	8	50	1.54
32659327--32659423	48	2.0	48	97	0	185	29	21	28	19	1.98
32660897--32660955	16	3.4	18	77	11	61	45	5	18	30	1.71
32660907--32660961	16	3.4	16	78	11	58	50	3	16	29	1.62
32660897--32660960	34	1.9	33	87	3	92	46	4	18	29	1.69
32661517--32661560	22	2.0	22	82	13	54	18	2	31	47	1.61
32661830--32661893	33	1.9	33	96	0	119	35	10	25	28	1.89
32662522--32662566	19	2.3	19	92	3	72	51	13	15	20	1.76
32665192--32665248	28	2.0	28	96	0	105	28	8	38	24	1.85
32666662--32666798	37	3.9	37	80	16	184	33	5	11	48	1.63
32666691--32666750	29	2.1	29	96	0	111	36	6	5	51	1.50
32666656--32666787	66	2.0	65	94	4	230	34	6	10	49	1.62
32666798--32666880	9	9.4	9	76	5	89	27	9	19	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32666804--32666846	17	2.5	17	82	10	61	27	9	23	39	1.85
32666793--32666880	26	3.3	27	79	6	81	27	10	19	43	1.83
32676251--32676276	9	2.9	9	100	0	52	57	0	42	0	0.98
32677704--32677736	15	2.1	16	88	5	50	27	0	3	69	1.03
32678158--32678219	30	2.1	30	100	0	124	20	22	19	37	1.95
32680152--32680188	18	2.1	18	94	0	65	45	8	18	27	1.77
32682088--32682199	33	3.4	32	79	11	113	38	12	22	26	1.90
32682096--32682199	32	3.2	32	80	5	102	38	11	23	26	1.89
32682192--32682334	31	4.5	31	83	6	173	29	16	27	26	1.97
32682398--32682462	27	2.4	27	92	0	103	38	13	26	21	1.91
32682517--32682590	34	2.2	34	92	0	121	25	10	28	35	1.90
32683136--32683175	20	2.0	20	100	0	80	45	5	15	35	1.68
32687433--32687606	50	3.5	49	88	3	260	24	17	28	29	1.98
32687433--32687615	99	1.8	100	92	1	314	24	18	27	29	1.98
32689534--32689918	126	3.0	126	92	1	619	25	18	19	35	1.95
32690380--32690433	15	3.8	15	73	14	60	48	29	0	22	1.51
32690388--32690440	27	1.9	28	92	3	90	43	32	0	24	1.55
32690374--32690482	45	2.5	42	78	15	107	44	33	0	21	1.52
32705228--32705266	19	2.1	19	95	0	69	35	12	12	38	1.82
32707160--32707216	27	2.1	27	83	6	71	24	26	7	42	1.80
32707285--32707374	27	3.3	26	78	9	101	24	27	16	31	1.97
32709654--32709687	6	5.7	6	89	0	50	67	2	17	11	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32709826--32709923	25	3.9	24	80	9	99	38	11	16	33	1.84
32709826--32709923	50	2.0	50	80	11	112	38	11	16	33	1.84
32712952--32712999	10	4.5	10	79	10	51	39	10	0	50	1.37
32718788--32718822	17	2.1	17	100	0	70	45	0	17	37	1.48
32723699--32723771	30	2.4	30	93	0	119	28	24	21	24	1.99
32733225--32733260	18	2.0	19	89	10	58	11	11	2	75	1.16
32744907--32744945	19	2.1	19	100	0	78	35	10	0	53	1.35
32747485--32747511	2	13.5	2	100	0	54	51	0	0	48	1.00
32749359--32749440	43	1.9	43	89	0	128	31	14	20	32	1.93
32752839--32752894	28	2.0	28	96	0	103	51	10	3	33	1.54

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