genome.fa.s25.2.7.7.80.10.50.1000.85.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  85  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)
30639159--30639313	40	3.9	39	82	5	177	24	21	28	25	1.99
30639159--30639313	79	2.0	80	83	6	199	24	21	28	25	1.99
30639003--30639623	310	2.0	310	99	0	1224	27	15	25	31	1.96
30639469--30639653	40	4.7	40	80	9	184	24	21	28	26	1.99
30639522--30639676	79	2.0	79	82	7	190	25	19	27	27	1.99
30646381--30646492	27	4.1	27	80	7	93	38	21	24	16	1.93
30653483--30653552	27	2.6	27	88	0	95	41	11	21	25	1.86
30659358--30659417	27	2.3	26	85	2	75	35	20	23	21	1.96
30662801--30662962	27	6.0	27	82	5	193	27	20	17	34	1.95
30662792--30662962	54	3.2	54	90	0	252	26	20	18	34	1.95
30662813--30662962	81	1.9	81	88	0	228	27	18	18	36	1.94
30662948--30663048	27	3.8	26	76	6	78	29	8	20	40	1.83
30662946--30663069	26	4.7	27	73	9	94	27	8	23	40	1.84
30668591--30668697	42	2.5	43	83	7	137	24	20	24	30	1.98
30668594--30668697	43	2.5	42	82	7	129	25	20	24	30	1.98
30685324--30685472	42	3.5	42	80	5	167	30	15	24	28	1.96
30690748--30690877	47	2.8	47	87	0	179	23	16	27	33	1.95
30696191--30696343	28	5.5	28	91	2	229	30	30	13	26	1.94
30709176--30709252	39	2.0	39	97	0	145	32	27	14	25	1.94
30728051--30728091	21	2.0	21	100	0	82	39	2	14	43	1.59
30728717--30728838	39	3.1	39	89	0	199	27	22	28	21	1.99
30735400--30735490	39	2.4	38	88	3	130	25	21	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30740906--30741958	358	3.0	355	86	3	1460	36	17	19	26	1.94
30744847--30744966	64	1.9	64	82	6	154	27	25	18	28	1.98
30744999--30745033	13	2.7	13	95	0	61	25	25	5	42	1.77
30745222--30745315	47	2.0	48	83	6	120	61	7	4	26	1.41
30755492--30755568	24	3.3	23	68	17	68	28	7	10	53	1.63
30756885--30756924	7	5.7	7	93	0	71	2	12	42	42	1.56
30781798--30781867	27	2.6	27	88	6	106	31	30	12	25	1.93
30781569--30782173	306	2.0	306	96	0	1129	33	24	12	29	1.92
30782104--30782226	28	4.4	28	88	2	167	32	28	13	26	1.93
30782103--30782226	55	2.2	57	86	2	180	32	29	12	25	1.93
30786806--30786879	36	2.1	36	97	0	139	32	13	20	33	1.91
30786956--30787001	20	2.4	19	96	3	83	26	10	26	36	1.89
30789823--30789855	15	2.2	15	100	0	66	33	12	6	48	1.65
30791364--30791394	16	1.9	16	93	0	53	35	22	0	41	1.54
30791473--30791517	23	1.9	24	90	4	74	22	24	11	42	1.86
30794679--30794711	12	2.8	12	95	0	57	48	0	36	15	1.45
30819546--30819730	58	3.2	57	63	18	137	32	12	11	42	1.79
30819495--30819729	117	2.0	117	100	0	470	33	15	11	40	1.82
30820481--30820512	13	2.5	13	94	0	55	56	15	6	21	1.62
30825569--30825643	39	1.9	39	83	0	96	32	26	16	25	1.96
30826051--30826185	68	2.0	67	92	0	216	34	12	14	37	1.84
30829522--30829680	43	3.7	43	76	5	169	32	25	14	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30833422--30833638	47	4.6	47	83	9	250	23	29	18	28	1.98
30833417--30833687	47	5.8	45	74	17	166	23	28	19	28	1.98
30841892--30842070	40	4.5	40	87	5	220	25	21	26	27	1.99
30841890--30842103	80	2.7	79	80	7	202	26	21	26	26	1.99
30847010--30847227	47	4.6	48	83	8	254	22	30	19	27	1.98
30847009--30847273	47	5.7	48	81	10	248	23	30	19	27	1.98
30847011--30847273	140	1.9	141	85	7	365	23	29	19	27	1.98
30847968--30847992	12	2.1	12	100	0	50	60	16	8	16	1.58
30850034--30850090	26	2.2	26	90	0	87	29	12	10	47	1.74
30850253--30850286	6	5.7	6	92	0	50	20	23	0	55	1.43
30862180--30862352	46	3.7	46	75	13	174	31	27	20	21	1.98
30868072--30868113	21	2.0	21	85	0	57	21	16	42	19	1.89
30869317--30869423	53	2.0	53	98	0	205	26	25	18	29	1.98
30872542--30872638	40	2.5	40	77	3	108	13	13	34	39	1.84
30877451--30877556	55	1.9	55	80	3	124	22	32	20	24	1.98
30882668--30882764	40	2.5	40	79	3	117	13	13	35	38	1.84
30889353--30889436	44	1.9	44	87	4	125	25	19	22	33	1.97
30899845--30899880	14	2.5	15	86	9	56	44	0	2	52	1.15
30907190--30907264	22	3.2	22	69	12	69	56	2	30	9	1.45
30907173--30907268	48	2.0	47	95	2	174	54	2	33	9	1.44
30910144--30910465	127	2.5	127	83	2	412	24	16	20	37	1.93
30916487--30916632	43	3.4	43	90	0	229	30	15	21	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30922631--30922788	54	2.9	53	83	6	203	22	24	18	34	1.97
30924332--30924525	52	3.8	52	83	4	238	25	15	28	30	1.96
30934616--30934646	2	15.5	2	93	0	53	45	0	54	0	0.99
30936476--30936538	8	6.9	9	74	18	51	66	0	3	30	1.07
30936476--30936538	18	3.5	17	76	20	56	66	0	3	30	1.07
30936577--30936636	18	3.3	18	80	2	66	70	5	5	20	1.26
30938113--30938144	16	2.1	16	88	11	50	71	0	12	15	1.14
30938713--30938918	105	2.0	105	90	0	322	37	19	10	32	1.86
30941316--30941378	28	2.2	28	94	0	108	25	33	14	26	1.94
30941617--30941647	8	3.9	8	91	0	53	3	25	25	45	1.69
30941617--30941650	16	2.1	16	100	0	68	5	23	23	47	1.73
30946367--30946391	13	1.9	13	100	0	50	36	16	32	16	1.90
30946801--30946883	30	2.8	30	70	7	78	27	16	27	27	1.97
30951266--30951327	23	2.8	22	90	4	90	14	20	17	46	1.83
30952215--30952248	17	1.9	17	94	5	59	76	0	23	0	0.79
30954026--30954105	41	1.9	42	82	7	101	22	23	32	21	1.98
30956510--30956623	57	2.0	57	96	0	210	27	13	25	34	1.93
30964684--30964721	18	2.2	18	85	4	51	44	15	18	21	1.86
30964765--30964793	5	5.8	5	100	0	58	41	0	0	58	0.98
30973931--30973984	25	2.4	22	82	14	65	40	0	5	53	1.24
30975613--30975679	31	2.2	31	88	0	98	43	4	8	43	1.56
30980997--30981156	59	2.7	59	83	3	189	26	20	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30981008--30981197	59	3.2	59	78	8	149	26	19	13	40	1.88
30981249--30981319	31	2.3	31	80	0	79	36	21	19	22	1.95
30990639--30990694	27	2.1	27	93	0	94	37	12	17	32	1.88
30991159--30991210	18	2.9	17	80	5	50	23	1	36	38	1.66
30993445--30993805	181	2.0	181	85	0	488	43	23	8	24	1.81
31008424--31008468	20	2.2	20	88	0	63	40	13	11	35	1.80
31021313--31021394	40	2.0	40	83	0	101	30	7	32	29	1.85
31024971--31025013	16	2.5	17	81	11	52	37	32	9	20	1.85
31034691--31034779	18	4.9	19	72	12	64	55	3	0	41	1.17
31034681--31034779	19	4.9	19	69	21	67	55	4	1	39	1.25
31035014--31035055	16	2.7	16	77	3	50	26	21	11	40	1.88
31038612--31038636	7	3.6	7	100	0	50	44	0	0	56	0.99
31039062--31039101	12	3.3	12	85	0	62	45	0	0	55	0.99
31049468--31049502	18	1.9	18	94	0	61	28	28	2	40	1.71
31050594--31050642	24	2.0	26	88	8	75	65	2	2	30	1.15
31052925--31052970	5	9.4	5	95	4	85	41	0	0	58	0.98
31054795--31055073	36	7.5	36	73	12	181	35	11	15	37	1.84
31054807--31054972	18	9.2	18	76	11	151	35	12	15	37	1.84
31059195--31059316	62	2.0	62	95	0	217	22	9	29	37	1.87
31060235--31060419	40	4.6	39	80	6	194	24	21	27	25	1.99
31060235--31060419	79	2.3	81	83	7	227	24	21	27	25	1.99
31060236--31060452	79	2.7	78	78	11	192	26	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31073874--31073904	3	10.3	3	100	0	62	35	0	0	64	0.94
31082015--31082072	30	1.9	30	86	6	82	36	0	43	20	1.52
31083002--31083043	22	1.9	22	90	0	66	66	2	2	28	1.16
31086937--31086982	23	2.0	23	100	0	92	52	26	0	21	1.47
31099908--31100004	38	2.6	38	89	0	149	16	10	35	38	1.83
31106156--31106501	172	2.0	172	99	0	683	28	7	21	42	1.79
31107343--31107388	24	1.9	25	86	8	69	23	0	10	65	1.24
31109216--31109327	46	2.4	46	86	2	154	29	17	29	23	1.97
31109404--31109528	45	2.6	50	75	15	138	27	20	30	21	1.98
31122362--31122523	86	1.9	87	83	6	213	27	22	19	30	1.98

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