genome.fa.s4.2.7.7.80.10.50.1000.106.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  106  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)
36444378--36444493	27	4.3	27	82	4	101	39	15	13	31	1.86
36447332--36447395	28	2.3	28	83	5	85	21	14	34	29	1.93
36447712--36448716	27	37.6	27	83	6	1095	38	20	10	30	1.86
36448697--36448785	27	3.3	27	87	0	115	39	15	16	28	1.90
36448429--36448785	54	6.6	54	81	4	163	38	20	11	29	1.88
36449741--36449833	21	4.4	21	74	8	71	20	23	35	20	1.96
36449751--36449874	64	1.9	64	86	0	176	22	22	33	21	1.98
36449816--36449922	43	2.5	43	84	0	133	28	25	28	18	1.98
36459396--36459477	27	3.0	27	81	0	101	28	17	17	37	1.92
36461095--36461175	33	2.5	33	93	0	135	28	24	19	27	1.99
36466052--36466161	27	4.1	27	86	1	141	26	15	16	41	1.88
36466052--36466161	54	2.1	53	87	1	157	26	15	16	41	1.88
36471381--36471551	43	4.0	43	78	13	181	25	18	26	28	1.98
36474173--36474232	28	2.1	28	81	0	66	20	26	26	26	1.99
36478962--36479080	21	5.5	22	86	4	136	36	25	23	15	1.94
36479060--36479173	57	2.0	57	94	0	201	34	22	22	20	1.97
36479703--36479740	2	19.0	2	94	0	67	52	47	0	0	1.00
36484228--36484266	19	2.1	19	90	0	60	71	5	5	17	1.23
36484716--36484797	27	3.0	27	82	7	103	31	23	25	19	1.98
36484683--36484797	55	2.1	56	80	8	128	34	21	24	19	1.96
36484903--36484967	28	2.3	28	94	0	112	30	7	27	33	1.85
36488156--36488673	21	24.5	21	89	0	748	28	25	27	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36488156--36488639	42	11.5	42	98	0	914	27	26	27	18	1.98
36489055--36489112	15	3.8	15	83	2	80	51	12	1	34	1.49
36489132--36489429	2	149.0	2	100	0	596	50	50	0	0	1.00
36502550--36502662	42	2.7	43	80	8	115	31	19	21	27	1.97
36502550--36502662	43	2.6	42	81	10	106	31	19	21	27	1.97
36504529--36504580	24	2.2	24	85	0	68	51	9	3	34	1.53
36507917--36507992	39	1.9	39	81	5	91	28	6	18	46	1.74
36508075--36508117	21	2.0	21	86	0	59	34	6	9	48	1.62
36508132--36508196	20	3.4	19	78	12	62	32	6	12	49	1.65
36511675--36511833	52	3.0	53	78	6	155	25	26	13	34	1.93
36522319--36522370	17	2.9	17	78	16	52	71	0	19	9	1.13
36526502--36526551	23	2.2	23	88	0	73	20	24	14	42	1.88
36526516--36526570	23	2.4	23	84	0	74	25	20	18	36	1.94
36536055--36536155	47	2.2	47	86	12	138	27	17	30	23	1.97
36553600--36553647	25	1.9	25	86	0	69	35	22	14	27	1.93
36553671--36553727	20	2.9	21	87	10	77	38	8	19	33	1.82
36553777--36553911	26	5.3	26	89	5	190	28	19	22	28	1.98
36554122--36554185	31	2.1	31	90	0	101	39	15	21	23	1.92
36561932--36561979	25	1.9	25	91	0	78	35	20	14	29	1.93
36562006--36562062	9	5.8	10	76	15	57	36	8	19	35	1.83
36562005--36562079	20	3.8	20	91	6	111	37	9	18	34	1.83
36562024--36562079	11	5.5	11	71	16	57	37	10	19	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36562129--36562212	26	3.4	25	85	6	109	29	19	23	27	1.98
36562128--36562226	25	4.0	24	82	11	103	28	21	23	27	1.99
36562423--36562486	31	2.1	31	87	0	92	37	12	23	26	1.90
36562440--36562514	38	2.0	38	97	0	141	37	13	22	26	1.91
36570249--36570280	5	6.6	5	92	7	57	81	0	0	18	0.70
36570250--36570280	9	3.3	9	95	4	53	80	0	0	19	0.71
36574700--36574727	5	5.6	5	100	0	56	82	0	0	17	0.68
36578182--36578231	25	2.0	25	100	0	100	40	8	8	44	1.63
36584562--36584624	31	2.0	31	84	6	83	20	19	22	38	1.94
36587572--36587647	34	2.2	35	80	2	91	27	15	23	32	1.95
36588447--36588503	25	2.2	26	81	12	73	42	10	12	35	1.77
36600902--36600990	46	1.9	46	88	0	133	30	28	21	20	1.98
36603370--36603458	30	3.0	30	80	8	101	57	15	16	10	1.65
36603370--36603449	15	5.4	15	80	7	92	58	13	17	10	1.62
36603381--36603458	15	5.2	15	78	9	79	56	15	16	11	1.67
36608997--36609022	12	2.2	12	100	0	52	53	15	7	23	1.67
36626153--36626252	44	2.3	44	82	3	121	30	22	19	29	1.97
36626152--36626426	44	6.2	44	70	12	118	30	21	20	27	1.98
36626197--36626468	88	3.1	88	68	14	261	30	21	22	25	1.98
36626241--36626517	88	3.1	88	68	12	235	31	21	21	25	1.98
36626484--36626755	87	3.1	87	66	16	216	33	16	23	26	1.96
36626053--36626907	176	4.8	176	83	4	777	31	18	22	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36631914--36631949	6	6.0	6	100	0	72	16	0	0	83	0.65
36632308--36632351	22	2.0	22	95	0	79	18	22	25	34	1.96
36637904--36637965	31	2.0	31	90	3	99	27	4	9	58	1.50
36638109--36638202	47	2.0	47	97	0	179	8	14	41	35	1.77
36643721--36643760	20	2.0	20	100	0	80	35	20	10	35	1.86
36648363--36648403	22	1.9	21	85	5	55	73	0	0	26	0.84
36648364--36648427	10	6.2	10	76	15	51	65	0	3	31	1.08
36648740--36648779	20	2.0	21	85	5	55	57	10	2	30	1.45
36650628--36650702	13	5.8	13	73	6	53	36	21	5	37	1.76
36654176--36654206	15	2.1	15	100	0	62	32	0	0	67	0.91
36654685--36654719	17	2.1	17	94	0	61	25	5	20	48	1.71
36661543--36661581	14	2.8	14	88	0	60	56	5	17	20	1.60
36662887--36662923	17	2.3	17	86	9	51	29	2	0	67	1.04
36663638--36663677	21	2.0	20	85	14	55	15	0	40	45	1.46
36663680--36663707	7	4.0	7	100	0	56	42	14	14	28	1.84
36667848--36668019	43	4.0	43	74	13	129	22	16	26	33	1.96
36674100--36674258	46	3.4	46	81	6	176	34	25	12	27	1.92
36678997--36679022	13	2.0	13	100	0	52	23	38	23	15	1.92
36688973--36689422	223	2.0	223	99	0	891	29	21	19	30	1.97
36690875--36691034	46	3.5	46	78	5	137	37	22	13	26	1.91
36702694--36702727	16	2.1	17	89	10	54	61	0	14	23	1.33
36703448--36703480	17	1.9	17	93	0	57	39	21	18	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36703621--36703692	36	2.0	36	100	0	144	36	5	25	33	1.79
36715280--36715339	31	1.9	31	82	0	75	45	10	6	38	1.64
36715452--36715501	8	6.1	8	79	4	55	28	0	4	68	1.08
36718491--36718528	15	2.4	17	87	12	55	36	7	34	21	1.82
36727344--36727473	38	3.4	38	79	2	143	36	25	17	20	1.94
36728359--36729265	448	2.0	448	96	0	1679	33	18	10	37	1.86
36732612--36732736	43	2.9	43	93	0	214	33	33	22	10	1.88
36736292--36736607	50	6.6	50	76	12	274	23	29	17	29	1.97
36736292--36736610	93	3.3	96	75	13	291	23	29	17	29	1.97
36736338--36736610	95	2.8	93	78	8	237	23	30	17	28	1.97
36742804--36742896	46	2.0	46	97	0	177	33	3	21	41	1.69
36746685--36746777	20	4.4	20	87	11	132	39	0	2	58	1.10
36746695--36746782	44	2.0	44	100	0	176	38	0	2	59	1.10
36746747--36746857	58	1.9	57	87	8	163	43	0	2	53	1.21
36747025--36747080	16	3.5	16	82	0	67	28	21	7	42	1.79
36755579--36755624	11	4.1	11	80	5	56	76	0	23	0	0.79
36755579--36755624	17	2.7	17	80	12	58	76	0	23	0	0.79
36755579--36755624	6	8.0	6	78	9	51	76	0	23	0	0.79
36755579--36755645	27	2.4	28	82	2	82	68	1	29	0	0.98
36760387--36760452	34	1.9	34	81	6	80	45	7	13	33	1.72
36760532--36760715	94	1.9	96	85	2	255	47	9	12	30	1.73
36761222--36761259	18	2.2	18	85	4	51	42	31	0	26	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36771904--36771972	36	1.9	36	100	0	138	49	5	23	21	1.71
36774365--36774406	22	2.0	21	90	4	66	33	2	2	61	1.21
36776131--36776201	37	1.9	37	100	0	142	46	9	21	22	1.80
36776949--36776983	16	2.1	17	89	5	54	48	0	8	42	1.33
36779472--36779711	107	2.3	104	87	3	347	44	13	11	30	1.79
36784115--36784162	18	2.6	18	80	6	51	66	2	2	29	1.14
36788844--36788885	16	2.8	16	86	10	54	52	0	7	40	1.29
36788862--36788891	13	2.3	13	94	0	51	60	0	0	40	0.97
36799987--36800016	15	1.9	16	93	6	53	53	23	3	20	1.60
36811886--36811946	25	2.4	26	94	2	106	40	16	13	29	1.86

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