genome.fa.s4.2.7.7.80.10.50.1000.169.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  169  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)
57281619--57281695	38	2.1	37	92	4	136	31	33	0	33	1.58
57282019--57282072	17	3.2	17	81	5	65	9	7	1	81	0.94
57282037--57282080	5	8.2	5	83	14	52	18	4	0	77	0.94
57282040--57282092	22	2.4	22	84	6	72	16	9	0	73	1.08
57287397--57287691	74	4.0	74	99	0	581	26	9	24	39	1.86
57289033--57289167	50	2.7	50	93	2	218	26	17	26	28	1.98
57295040--57295107	26	2.7	26	81	2	84	16	25	22	36	1.94
57295037--57295182	25	5.9	24	72	11	91	19	23	21	34	1.96
57295148--57295250	49	2.1	49	84	10	131	21	25	20	33	1.97
57295219--57295285	25	2.7	25	95	0	116	23	34	14	26	1.94
57300780--57301352	296	1.9	296	92	1	952	33	12	20	32	1.91
57311429--57311515	44	2.0	43	93	0	138	20	14	19	43	1.86
57339816--57340207	40	9.8	40	87	1	552	25	26	22	26	2.00
57339816--57340207	80	4.9	80	96	0	678	25	26	22	26	2.00
57341476--57341583	37	2.9	37	94	0	180	25	32	19	22	1.97
57341763--57342260	47	10.6	47	90	0	782	26	29	12	32	1.92
57341898--57342026	25	5.4	25	62	23	80	27	29	10	31	1.91
57349544--57349569	8	3.2	8	100	0	52	38	23	26	11	1.89
57350168--57350207	19	2.0	20	85	4	55	67	5	2	25	1.23
57352106--57352152	23	2.0	23	100	0	94	42	12	12	31	1.81
57362581--57362639	29	2.0	29	100	0	118	20	20	10	49	1.77
57368915--57368975	23	2.7	23	76	14	65	32	0	1	65	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57370069--57370104	5	7.0	5	93	6	63	0	2	77	19	0.88
57382887--57382978	45	2.0	45	87	0	130	23	14	25	36	1.92
57382901--57383020	43	2.8	42	80	3	114	25	16	27	30	1.97
57382989--57383093	41	2.5	42	80	13	126	27	17	26	28	1.97
57394995--57395232	114	2.1	114	93	0	404	28	31	23	16	1.96
57405053--57405093	19	2.2	19	86	4	57	70	4	2	21	1.18
57405019--57405092	31	2.4	31	78	13	82	66	4	2	27	1.23
57412224--57412393	53	3.2	51	81	6	196	32	15	26	25	1.96
57414770--57414821	16	3.3	15	75	17	52	53	1	3	40	1.30
57416740--57416915	83	2.1	83	88	2	255	27	29	11	31	1.91
57432591--57432785	43	4.6	42	74	7	153	29	17	24	27	1.98
57441861--57441910	22	2.3	21	80	16	57	18	8	6	68	1.36
57445015--57445242	33	7.0	32	78	7	172	35	12	22	28	1.91
57453468--57453626	27	5.9	27	80	11	175	35	22	23	18	1.96
57453486--57453629	54	2.7	54	93	2	236	35	23	23	17	1.95
57454016--57454045	8	3.8	8	90	0	51	3	26	26	43	1.70
57455223--57455304	26	3.2	26	98	0	155	35	25	7	31	1.84
57455669--57455883	33	6.5	33	74	4	148	36	11	20	31	1.89
57455798--57455902	33	3.2	32	76	5	102	33	14	22	29	1.94
57467277--57467360	22	3.5	22	66	20	60	39	5	14	40	1.70
57467240--57468089	51	16.7	51	98	0	1610	37	6	13	42	1.69
57470881--57470964	22	3.5	22	69	20	69	40	4	13	41	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57470844--57471030	51	3.7	51	92	0	284	37	5	13	42	1.68
57470852--57471004	29	5.8	28	66	20	96	37	5	13	42	1.69
57470954--57471030	22	3.2	22	67	22	55	36	5	14	44	1.67
57472655--57472696	17	2.5	17	81	18	52	73	2	9	14	1.18
57472742--57472803	27	2.3	27	88	0	88	17	30	37	14	1.90
57472882--57472930	3	17.3	3	79	12	59	63	0	36	0	0.95
57472882--57472920	8	4.8	8	81	6	51	66	0	33	0	0.92
57472883--57472924	22	1.9	22	90	0	66	66	0	33	0	0.92
57472882--57472929	25	1.9	25	86	0	69	64	0	35	0	0.94
57473467--57473498	17	1.9	16	93	6	55	68	6	15	9	1.36
57473531--57475242	149	11.5	146	90	5	2374	58	9	5	26	1.53
57476999--57477037	21	1.9	20	85	15	53	15	25	41	17	1.89
57488826--57488850	13	1.9	13	100	0	50	24	40	16	20	1.91
57495532--57495706	49	3.6	48	82	3	174	24	26	20	29	1.99
57501853--57501944	39	2.4	37	81	15	107	50	13	4	32	1.61
57501913--57501970	26	2.2	26	93	0	98	50	6	5	37	1.52
57501957--57502023	16	3.9	16	73	19	64	65	14	0	19	1.27
57501963--57501990	13	2.2	13	100	0	56	64	14	0	21	1.29
57502230--57502272	18	2.4	19	84	7	54	13	4	2	79	1.00
57506123--57506151	15	1.9	15	100	0	58	65	6	20	6	1.40
57506533--57506573	23	1.9	21	85	14	57	53	0	21	24	1.46
57506850--57506884	17	2.1	17	94	0	61	48	0	20	31	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57508160--57508282	44	2.8	44	76	12	128	33	28	15	22	1.95
57510340--57510377	13	3.0	13	88	11	53	60	0	5	34	1.19
57515527--57515584	21	2.8	19	78	17	53	48	0	3	48	1.18
57515527--57515592	24	2.9	23	80	14	66	48	0	3	48	1.17
57516127--57516217	29	3.0	29	79	7	85	51	12	5	30	1.61
57518774--57518821	21	2.3	20	76	13	53	27	0	4	68	1.07
57519036--57519096	32	1.9	32	93	0	104	54	11	1	32	1.46
57519576--57519622	3	15.7	3	90	0	76	0	29	0	70	0.88
57520673--57520799	63	2.0	63	98	0	245	35	21	9	33	1.86
57526907--57526985	28	2.8	28	82	3	97	22	2	34	40	1.68
57526935--57526998	7	9.0	7	74	3	56	20	1	34	43	1.61
57526933--57526998	14	4.6	14	78	1	69	21	1	33	43	1.62
57527092--57527136	7	6.4	7	84	0	54	22	0	26	51	1.49
57527100--57527204	21	4.9	21	73	15	74	26	1	26	44	1.64
57527097--57527194	22	4.5	22	74	15	73	26	1	25	46	1.59
57533049--57533142	42	2.2	42	84	0	116	28	14	23	32	1.94
57533123--57533243	42	2.9	42	87	0	179	23	18	32	25	1.97
57535276--57535348	29	2.4	29	82	13	78	36	4	6	52	1.48
57535276--57535348	30	2.4	29	84	8	85	36	4	6	52	1.48
57536877--57537910	228	4.5	228	89	0	1296	20	23	27	29	1.98
57540153--57540199	23	2.0	23	88	8	69	25	23	10	40	1.87
57543737--57543791	16	3.4	16	78	14	60	38	5	25	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57543960--57544055	25	3.7	26	73	12	90	53	2	1	43	1.19
57543970--57544088	52	2.2	58	83	8	151	52	4	0	43	1.20
57544093--57544135	21	2.0	21	86	9	59	62	2	0	34	1.08
57551551--57552045	40	12.4	40	92	0	837	23	18	28	28	1.98
57552073--57552204	57	2.3	57	85	3	178	22	20	29	27	1.99
57552077--57552176	28	3.5	28	76	8	94	22	22	28	28	1.99
57552105--57552205	28	3.6	28	75	9	80	23	18	29	27	1.98
57555109--57555213	50	2.1	50	94	1	185	35	7	21	35	1.82
57562218--57562410	80	2.4	80	82	5	212	27	28	19	23	1.98
57562188--57562357	40	4.3	40	90	0	225	27	28	20	24	1.99
57562342--57562419	40	1.9	41	82	10	97	26	28	21	23	1.99
57565374--57565414	17	2.3	19	87	8	59	34	0	7	58	1.26
57573674--57573718	19	2.5	19	82	7	58	40	0	6	53	1.27
57574063--57574171	42	2.6	41	82	7	130	32	23	15	28	1.95
57581135--57581350	119	1.8	120	84	7	296	25	27	22	25	2.00
57581133--57581355	79	2.8	79	81	7	236	25	28	22	24	1.99
57581114--57581357	40	6.1	40	83	6	273	25	27	22	24	2.00
57589249--57589492	40	6.1	40	81	6	255	24	27	22	25	2.00
57594209--57594246	19	2.0	19	90	10	60	71	0	7	21	1.11
57600231--57600331	50	2.0	50	96	0	184	32	27	0	38	1.64
57600534--57600758	40	5.7	40	82	7	271	25	28	21	24	1.99
57600536--57600758	119	1.9	120	82	8	285	25	27	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57603602--57603711	44	2.5	44	89	2	168	25	28	15	30	1.96
57609982--57610066	27	3.2	26	86	9	109	15	24	24	35	1.94
57610803--57610850	22	2.2	22	96	0	87	6	43	10	39	1.64
57615263--57615348	27	3.2	26	87	8	118	13	23	23	39	1.90
57625394--57625453	27	2.3	26	85	2	75	21	23	20	35	1.96
57628248--57628326	37	2.1	37	90	0	122	25	31	18	24	1.98
57628445--57628967	47	11.1	47	91	0	776	28	30	9	31	1.89
57630882--57630938	29	2.0	28	93	3	96	19	22	26	31	1.98
57631998--57632056	28	2.1	28	83	3	73	45	5	18	30	1.71
57632003--57632062	29	2.1	28	81	3	66	48	5	18	28	1.69

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