genome.fa.s4.2.7.7.80.10.50.1000.37.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  37  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)
12030210--12030261	27	2.0	26	84	3	68	36	21	26	15	1.93
12035344--12035490	61	2.4	62	87	3	215	24	29	18	27	1.98
12039788--12039825	17	2.4	17	91	8	62	55	0	13	31	1.38
12047073--12047247	40	4.4	40	88	2	246	24	23	27	24	2.00
12052640--12052737	49	2.0	49	91	0	160	31	12	27	28	1.93
12054564--12054739	40	4.4	40	89	1	264	23	22	26	27	1.99
12054552--12054768	80	2.7	79	86	6	287	24	22	26	26	2.00
12056957--12056984	5	5.6	5	100	0	56	0	60	0	39	0.97
12060664--12060737	38	1.9	38	100	0	148	29	13	21	35	1.92
12060798--12060868	35	2.0	35	97	0	133	43	11	19	25	1.84
12086337--12086623	146	2.0	142	95	2	520	35	14	13	35	1.87
12102010--12102038	15	1.9	15	100	0	58	17	48	0	34	1.47
12113488--12113521	6	5.7	6	92	0	59	67	0	17	14	1.23
12117600--12117631	16	1.9	17	93	6	57	37	6	3	53	1.42
12125282--12125453	93	1.8	93	94	0	308	27	30	21	20	1.98
12125274--12125449	46	3.8	46	81	10	214	28	29	21	21	1.98
12127841--12127929	30	3.0	30	80	8	101	57	15	16	10	1.65
12127841--12127920	15	5.4	15	80	7	92	58	13	17	10	1.62
12127852--12127929	15	5.2	15	78	9	79	56	15	16	11	1.67
12143402--12143521	43	2.8	43	89	0	186	24	20	31	23	1.98
12144914--12144950	19	2.0	19	89	5	58	21	16	40	21	1.91
12145023--12145131	29	3.8	29	72	10	89	30	13	31	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12150719--12150816	49	2.0	49	97	0	187	34	15	18	31	1.92
12153285--12153366	43	1.9	43	92	5	139	23	15	31	29	1.95
12163302--12163486	79	2.3	82	84	7	238	25	27	22	24	2.00
12163283--12163486	40	5.1	40	82	8	238	25	27	22	25	2.00
12171252--12171474	79	2.8	78	83	7	272	24	27	22	25	2.00
12171252--12171474	39	5.7	40	87	6	280	24	27	22	25	2.00
12186528--12186598	35	2.0	35	97	0	133	39	21	5	33	1.77
12197506--12197644	60	2.3	61	82	8	169	28	21	25	25	1.99
12199975--12200017	10	4.3	10	82	11	61	20	6	2	69	1.23
12201125--12201160	15	2.5	15	95	4	65	61	11	22	5	1.50
12212208--12212288	5	16.4	5	76	21	82	22	2	0	75	0.92
12212210--12212303	8	12.2	8	71	24	69	23	3	0	73	0.98
12212210--12212304	41	2.5	39	85	14	119	23	3	0	73	0.97
12214120--12214163	10	4.4	10	82	0	52	25	2	2	70	1.10
12222698--12222723	8	3.2	8	100	0	52	38	15	11	34	1.83
12227405--12227539	44	3.1	42	80	11	134	33	25	14	26	1.95
12228135--12228175	20	2.0	20	100	0	82	43	26	4	24	1.74
12230491--12230664	92	1.9	91	95	4	316	42	15	12	29	1.83
12238718--12238774	29	1.9	30	85	3	80	28	7	15	49	1.71
12238899--12238973	31	2.4	31	77	0	87	48	5	6	40	1.52
12240685--12240722	20	1.9	19	89	5	58	31	2	2	63	1.22
12241379--12241442	33	1.9	33	87	0	92	23	10	0	65	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12241567--12241599	17	1.9	17	93	0	57	33	0	6	60	1.21
12244852--12244891	13	3.2	13	80	19	50	25	25	0	50	1.50
12244839--12244879	18	2.2	19	87	12	59	29	24	0	46	1.53
12245516--12245568	15	3.5	15	81	0	70	49	11	1	37	1.50
12245709--12247081	686	2.0	688	97	0	2615	31	19	4	44	1.72
12247100--12247138	19	2.1	19	95	0	69	33	5	10	51	1.58
12247103--12247146	19	2.4	19	78	17	56	34	6	9	50	1.61
12248894--12248939	14	3.3	14	84	0	65	32	26	4	36	1.76
12248878--12248939	28	2.2	28	91	0	97	35	24	4	35	1.77
12255214--12255290	41	1.9	41	91	2	129	28	20	14	36	1.92
12255274--12255311	20	1.9	20	100	0	76	26	26	10	36	1.89
12255559--12255600	22	1.9	22	100	0	84	47	28	0	23	1.52
12255845--12255891	22	2.1	23	84	4	60	55	31	2	10	1.46
12256054--12256080	14	1.9	14	100	0	54	22	3	29	44	1.70
12256249--12256283	17	2.0	18	88	5	54	68	11	0	20	1.20
12256325--12256573	41	6.0	41	84	0	318	22	20	23	32	1.98
12263159--12263234	39	1.9	40	91	2	127	25	28	23	22	1.99
12265759--12265928	27	6.4	27	82	6	195	35	20	20	24	1.95
12265760--12265929	78	2.1	80	84	3	227	36	20	19	24	1.95
12266583--12266634	27	2.0	26	84	3	68	17	26	21	34	1.95
12275313--12275436	48	2.5	48	81	5	124	41	4	3	50	1.37
12275181--12275521	175	1.9	175	99	0	673	40	5	4	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12275632--12275682	25	2.0	26	84	3	68	39	9	11	39	1.75
12277913--12277961	18	2.7	18	87	3	71	73	0	8	18	1.07
12277920--12277971	24	2.1	26	89	7	81	73	0	3	23	1.00
12281155--12281264	56	2.0	56	100	0	220	45	18	7	29	1.76
12281854--12281949	40	2.4	40	82	3	122	33	27	15	23	1.95
12283907--12283964	23	2.4	23	94	5	98	32	15	20	31	1.94
12284142--12284199	26	2.2	26	81	3	62	31	8	15	44	1.76
12284377--12284414	15	2.5	15	100	0	76	57	5	0	36	1.21
12291168--12291245	38	2.1	38	100	0	156	39	15	2	42	1.61
12305925--12305954	15	2.1	15	93	6	53	23	13	26	36	1.92
12308770--12308992	79	2.8	78	82	9	265	24	27	22	25	2.00
12308770--12308992	39	5.7	40	86	8	266	24	27	22	25	2.00
12316764--12316948	79	2.3	82	83	7	229	24	27	22	24	2.00
12316745--12316948	40	5.1	40	81	8	229	24	27	22	25	2.00
12318748--12318819	33	2.1	34	87	2	101	23	23	25	27	2.00
12319455--12319508	27	2.0	27	96	0	99	33	3	20	42	1.70
12319455--12319496	14	3.1	14	74	19	52	35	4	16	42	1.69
12320795--12320855	28	2.2	28	90	0	95	32	16	19	31	1.94
12325689--12325813	45	2.9	43	84	8	130	24	30	21	24	1.99
12326313--12326358	19	2.5	19	85	3	58	17	6	0	76	1.00
12329238--12329333	47	2.0	47	95	0	174	36	7	22	33	1.82
12377940--12377978	20	1.9	21	89	5	62	30	33	10	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12386322--12386508	47	4.0	48	85	5	213	25	20	9	44	1.81
12386335--12386508	94	1.9	94	87	0	258	27	20	9	42	1.83
12402606--12402631	11	2.4	11	100	0	52	84	0	7	7	0.77
12404972--12405155	67	2.8	64	76	8	185	30	16	29	22	1.96
12421049--12421084	13	2.8	13	100	0	72	22	47	22	8	1.77
12425022--12425061	15	2.9	13	82	13	53	12	30	32	25	1.92
12425029--12425060	15	2.1	15	100	0	64	12	25	34	28	1.92
12442739--12442864	43	3.0	42	79	12	139	34	26	15	23	1.94
12444237--12444261	13	1.9	13	100	0	50	80	4	0	16	0.87
12444965--12445081	62	1.9	62	96	0	216	29	26	11	33	1.91
12446722--12447012	128	2.3	127	82	1	332	38	18	15	28	1.90
12449721--12449946	44	5.2	44	69	9	140	23	21	19	35	1.96
12449636--12450183	88	6.2	88	84	3	649	22	22	20	33	1.97
12449652--12450181	175	3.0	175	86	3	717	22	23	20	33	1.97
12449844--12450077	44	5.3	44	69	1	137	22	23	20	33	1.97
12449696--12450085	44	8.9	44	66	1	136	22	23	19	34	1.97
12461631--12461907	128	2.2	127	83	3	333	37	19	15	27	1.92
12466224--12466256	17	1.9	18	88	11	52	39	0	0	60	0.97
12466224--12466256	16	2.0	17	88	5	50	39	0	0	60	0.97
12488403--12488448	13	3.8	13	78	18	55	67	0	0	32	0.91
12488405--12488446	3	13.3	3	85	9	57	66	0	0	33	0.92
12488403--12488445	10	4.3	10	91	5	61	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12494707--12494844	42	3.3	41	77	8	134	44	14	21	20	1.86
12494796--12494871	21	3.7	21	77	7	66	43	15	19	21	1.88
12498201--12498311	56	2.0	56	82	3	134	29	25	17	27	1.97
12511686--12511711	3	8.7	3	100	0	52	34	30	0	34	1.58
12512325--12512408	43	2.0	42	88	2	123	29	30	19	20	1.97
12518605--12518701	48	2.0	48	93	0	167	40	8	19	31	1.81
12519073--12519099	13	2.1	13	100	0	54	14	25	37	22	1.93
12524110--12524165	28	2.0	27	89	3	85	35	8	19	33	1.83
12524445--12524581	55	2.5	55	81	0	184	29	32	23	14	1.94
12532895--12533205	156	2.0	156	100	0	622	24	14	20	39	1.90

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