genome.fa.s25.2.7.7.80.10.50.1000.193.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  193  of  297  ( 35593 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)
65529663--65529810	15	9.5	15	67	20	65	60	1	6	31	1.31
65529659--65529776	47	2.5	48	81	10	138	60	0	7	31	1.31
65529740--65529811	26	2.7	26	78	17	78	62	4	1	31	1.23
65532623--65532662	20	2.0	20	95	0	71	27	25	15	32	1.95
65532623--65532672	20	2.6	20	79	17	61	28	26	12	34	1.92
65533866--65533915	18	2.7	18	87	12	66	40	22	0	38	1.54
65534319--65534386	19	3.3	19	69	25	57	33	17	5	42	1.74
65534298--65534388	21	4.1	24	70	22	67	35	17	5	41	1.73
65534298--65534388	43	2.1	45	89	4	141	35	17	5	41	1.73
65534603--65534637	14	2.6	14	90	4	54	0	28	0	71	0.86
65534601--65534637	18	2.1	17	90	5	56	0	27	0	72	0.84
65534847--65534904	3	20.7	3	79	13	70	63	1	0	34	1.04
65538918--65538944	3	9.0	3	100	0	54	33	0	0	66	0.92
65539193--65539256	31	2.0	32	85	8	87	45	0	7	46	1.32
65539048--65539346	141	2.1	139	79	7	318	46	1	11	41	1.49
65540094--65540135	15	2.9	15	92	3	68	38	0	11	50	1.40
65540766--65540807	20	2.2	20	87	12	61	50	0	21	28	1.49
65543920--65544448	264	2.0	264	100	0	1058	28	25	8	37	1.86
65544755--65544793	20	2.1	19	90	9	62	38	20	0	41	1.53
65545688--65545733	21	2.1	22	88	8	67	60	2	0	36	1.09
65558992--65559030	21	2.0	21	90	10	64	43	23	0	33	1.54
65559191--65559215	13	1.9	13	100	0	50	32	12	8	48	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65559395--65559464	31	2.2	32	85	12	92	30	5	11	52	1.60
65559417--65559465	16	3.1	15	77	16	55	28	6	12	53	1.62
65566379--65566432	16	3.3	16	72	12	56	33	0	3	62	1.12
65566468--65566518	23	2.1	25	82	7	61	52	1	9	35	1.46
65572332--65572381	19	2.5	19	80	9	55	66	14	4	16	1.40
65574383--65574463	40	2.0	40	100	0	162	53	7	9	29	1.61
65574593--65574670	5	15.8	5	97	2	149	58	0	0	41	0.98
65578424--65578456	11	2.9	12	86	13	52	33	0	0	66	0.92
65578578--65578635	30	1.9	30	89	0	89	56	12	6	24	1.59
65578675--65578717	22	2.0	22	86	9	61	58	13	9	18	1.62
65579808--65579870	21	3.0	21	72	9	65	42	17	23	15	1.88
65579796--65579899	42	2.5	42	85	3	138	42	18	23	16	1.89
65586956--65587075	42	2.9	42	82	2	125	45	17	20	17	1.86
65589605--65589666	27	2.3	28	75	13	67	54	8	11	25	1.63
65596315--65597021	356	2.0	356	100	0	1414	27	12	18	41	1.86
65603294--65603338	22	2.0	22	87	8	65	48	17	2	31	1.59
65606527--65606571	22	2.0	22	91	0	72	48	15	2	33	1.57
65609970--65609999	11	2.8	11	95	5	53	83	0	16	0	0.65
65623032--65623069	18	2.1	18	100	0	76	44	10	23	21	1.83
65628249--65628385	67	2.0	67	95	0	247	21	20	18	39	1.93
65628558--65628593	13	2.9	12	84	8	54	44	8	0	47	1.33
65628573--65628608	18	2.0	18	89	10	56	38	2	0	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65632832--65632895	30	2.2	30	83	8	78	43	4	3	48	1.39
65634593--65634655	32	2.0	32	100	0	126	49	25	9	15	1.75
65640054--65640086	14	2.3	15	89	5	50	42	6	9	42	1.61
65640873--65640911	21	1.9	20	89	5	60	53	2	0	43	1.14
65641038--65641069	12	2.6	12	95	5	55	50	0	0	50	1.00
65644773--65644807	11	2.9	12	91	8	54	14	0	0	85	0.59
65644773--65644807	6	5.8	6	90	10	54	14	0	0	85	0.59
65647163--65647189	2	13.5	2	100	0	54	48	0	0	51	1.00
65648195--65648442	132	1.9	132	86	1	354	34	21	18	25	1.96
65650361--65650583	44	5.2	44	88	4	291	21	30	16	30	1.96
65650375--65650576	40	4.8	41	90	3	264	22	32	17	27	1.96
65656041--65656082	13	3.2	13	93	0	57	9	61	26	2	1.39
65656882--65657583	44	16.2	44	87	6	967	21	31	16	30	1.96
65656882--65657583	84	8.1	85	87	7	847	21	31	16	30	1.96
65656896--65657583	217	3.2	216	90	4	1031	21	31	17	29	1.96
65668767--65669197	120	3.6	120	67	11	331	34	21	19	24	1.96
65669357--65669564	104	2.0	104	98	0	398	35	19	27	17	1.95
65669814--65669855	13	3.2	13	93	0	57	9	61	26	2	1.39
65669771--65670022	127	2.0	124	93	3	425	18	36	19	25	1.94
65670103--65670359	129	2.0	129	98	0	498	24	15	11	48	1.78
65671576--65671736	79	2.1	78	85	4	218	16	32	10	39	1.83
65672018--65672076	29	2.0	29	100	0	118	27	6	10	55	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65672330--65672466	69	2.0	69	92	0	229	35	21	12	29	1.90
65680408--65680445	13	2.8	13	88	4	58	42	0	13	44	1.43
65680461--65680518	10	5.8	10	82	8	64	25	6	1	65	1.27
65680465--65680518	20	2.7	19	80	8	72	25	7	1	64	1.30
65682975--65683092	40	3.0	40	94	0	209	22	18	29	29	1.97
65703465--65703508	20	2.2	20	96	4	81	52	20	13	13	1.74
65705969--65706008	21	1.9	21	89	0	62	55	5	2	37	1.35
65708126--65708261	29	4.7	29	81	7	116	44	10	25	19	1.83
65708125--65708261	58	2.4	58	79	4	143	44	10	25	19	1.82
65708184--65708279	29	3.3	29	76	2	77	46	11	22	18	1.81
65710355--65710564	46	4.6	45	80	3	197	17	20	16	44	1.86
65712669--65712729	26	2.4	26	83	2	70	31	19	6	42	1.77
65712881--65712919	6	6.5	6	88	11	62	15	28	0	56	1.40
65712881--65712919	11	3.2	12	89	10	62	15	28	0	56	1.40
65718456--65718571	42	2.8	42	80	7	128	31	20	15	32	1.94
65724069--65724133	32	2.0	32	96	0	121	36	24	7	30	1.84
65725375--65725412	18	2.1	19	85	5	51	28	13	0	57	1.36
65728825--65729039	46	4.7	46	80	10	222	31	26	18	24	1.98
65739767--65739820	28	2.0	28	85	10	76	64	0	29	5	1.16
65739798--65739831	13	2.5	14	90	9	61	73	0	20	5	1.04
65739771--65739831	28	2.2	28	82	8	72	68	0	26	4	1.09
65742468--65742652	40	4.6	39	83	5	203	24	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65742468--65742652	79	2.3	81	83	7	227	24	22	27	25	2.00
65742521--65742685	79	2.1	79	83	6	201	26	21	26	25	1.99
65745423--65745464	21	2.0	21	100	0	84	14	23	9	52	1.71
65756537--65756612	15	5.0	16	87	3	79	10	13	18	57	1.63
65762810--65762837	14	2.0	14	100	0	56	28	0	0	71	0.86
65771221--65771275	24	2.4	22	80	16	67	10	14	1	72	1.19
65775850--65775885	16	2.2	16	90	0	54	75	2	11	11	1.16
65779394--65779431	17	2.2	17	100	0	76	68	5	0	26	1.11
65779592--65779687	19	5.3	18	70	20	58	67	1	1	30	1.04
65779594--65779688	28	3.5	27	75	9	88	66	1	1	31	1.06
65779592--65779688	27	3.6	27	72	12	83	67	1	1	30	1.05
65779593--65779786	18	10.5	19	69	15	79	61	2	4	30	1.29
65779709--65779784	21	3.7	21	76	18	63	60	2	6	30	1.36
65779731--65779784	20	2.6	22	80	16	71	62	1	5	29	1.28
65779970--65780031	29	2.2	29	85	8	83	33	4	1	59	1.28
65781794--65782016	49	4.7	47	75	8	177	26	26	17	28	1.98
65781798--65782016	98	2.3	92	80	10	230	26	26	17	28	1.98
65783538--65783580	11	3.9	11	75	0	50	20	20	9	48	1.77
65785333--65785385	24	2.2	25	83	16	67	52	0	0	47	1.00
65785322--65785372	22	2.3	23	78	18	63	47	0	1	50	1.12
65785333--65785385	25	2.2	24	86	10	72	52	0	0	47	1.00
65791041--65791074	12	2.8	12	86	0	50	50	17	23	8	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65798883--65798974	39	2.3	39	88	5	132	25	28	22	23	2.00
65798864--65799027	40	4.1	40	78	10	167	25	27	22	25	2.00
65799111--65799313	102	2.0	102	99	0	397	34	20	11	33	1.88
65799313--65799620	155	2.0	155	97	0	580	28	22	14	34	1.93
65799701--65800116	206	2.0	205	97	0	789	28	24	15	31	1.96
65802126--65802159	13	2.5	14	90	9	61	5	20	0	73	1.04
65802137--65802190	28	2.0	27	85	10	74	5	29	0	64	1.16
65803856--65803895	17	2.4	17	86	0	53	15	2	2	80	0.93
65812918--65813136	46	4.7	46	81	7	246	24	18	25	31	1.98
65817824--65817888	32	2.0	32	96	0	121	30	7	24	36	1.84

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297