genome.fa.s7.2.7.7.80.10.50.1000.89.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  89  of  290  ( 34714 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)
29906155--29906256	42	2.4	42	85	0	132	43	13	21	21	1.87
29909027--29909158	40	3.3	40	96	0	237	29	20	29	20	1.98
29909070--29909258	101	1.9	101	93	0	324	31	20	28	20	1.97
29909171--29909431	40	6.5	40	98	0	477	33	20	26	19	1.96
29909030--29909298	141	1.9	141	93	0	466	31	20	27	20	1.97
29911695--29911864	46	3.7	46	75	13	186	22	19	28	30	1.98
29911689--29911859	93	1.8	93	92	0	288	21	19	28	29	1.98
29920536--29920635	42	2.4	42	89	0	146	20	30	18	32	1.96
29926701--29926741	20	2.0	21	86	9	59	43	19	14	21	1.87
29927362--29927407	23	2.0	23	87	8	67	10	15	0	73	1.08
29931127--29931180	4	13.2	4	81	11	65	74	5	1	18	1.11
29933517--29933846	43	7.7	43	80	6	294	25	26	20	28	1.99
29934635--29934663	13	2.1	14	93	6	51	55	10	0	34	1.34
29937748--29937834	34	2.6	34	81	7	97	27	22	21	27	1.99
29938253--29938293	19	2.2	19	100	0	82	39	17	9	34	1.82
29942479--29942606	38	3.5	38	90	4	192	34	3	16	45	1.66
29945036--29945171	54	2.5	54	100	0	272	41	11	5	41	1.62
29946042--29946124	41	2.0	40	86	2	112	30	21	16	31	1.96
29948472--29948512	20	2.0	21	85	4	57	36	4	2	56	1.34
29956806--29956855	15	3.4	14	76	17	57	30	2	2	66	1.14
29957641--29957690	15	3.4	14	76	17	57	66	2	2	30	1.14
29957676--29957780	51	2.1	51	94	0	183	49	1	16	32	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29961043--29961103	30	2.0	30	87	0	86	31	24	4	39	1.77
29962545--29962592	25	1.9	25	82	0	60	35	16	18	29	1.93
29972347--29972458	29	4.0	28	79	11	113	29	31	14	25	1.94
29972336--29972446	58	1.9	58	87	1	161	27	31	15	25	1.95
29976455--29976630	40	4.4	40	76	7	151	36	17	27	18	1.93
29976472--29976622	80	1.9	80	81	0	185	35	17	27	19	1.94
29983549--29983631	40	2.1	40	90	0	130	32	18	30	19	1.95
29991496--29991560	20	3.3	20	74	8	62	41	21	6	30	1.77
29991750--29991807	24	2.4	24	85	5	73	36	13	22	27	1.92
29997947--29997991	21	2.1	22	83	4	56	37	8	0	53	1.32
30005264--30005349	43	2.0	42	90	2	136	23	15	24	36	1.93
30006944--30006974	16	1.9	16	93	0	53	83	0	16	0	0.64
30007377--30007423	5	8.6	5	82	17	58	21	4	2	72	1.12
30017646--30017705	27	2.3	26	82	2	66	36	20	21	21	1.95
30025161--30025190	8	3.8	8	90	0	51	6	36	30	26	1.82
30025155--30025190	16	2.2	16	95	0	63	5	36	33	25	1.79
30035104--30035368	40	6.6	40	84	2	298	25	24	26	23	2.00
30035104--30035368	80	3.3	80	85	0	341	25	24	26	23	2.00
30035104--30035368	120	2.2	121	84	2	336	25	24	26	23	2.00
30043340--30043564	40	5.6	40	79	5	231	27	24	25	23	2.00
30043340--30043564	80	2.8	80	82	2	263	27	24	25	23	2.00
30043340--30043596	120	2.1	121	81	9	303	26	24	24	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30052450--30052507	30	1.9	31	89	3	91	25	15	17	41	1.89
30057401--30057521	43	2.8	42	74	8	127	32	15	20	31	1.94
30061242--30061272	16	1.9	16	93	0	53	35	22	0	41	1.54
30061239--30061278	20	2.0	20	85	0	53	37	22	0	40	1.54
30061511--30061710	107	1.9	109	86	4	289	23	25	18	34	1.96
30069641--30069778	55	2.5	55	77	6	147	21	24	18	36	1.95
30081437--30081599	39	4.2	39	91	1	231	23	22	28	26	1.99
30081437--30081637	78	2.6	78	83	5	212	23	22	27	25	2.00
30090720--30090878	39	4.1	39	85	4	189	23	20	26	28	1.99
30093115--30093246	45	2.9	45	89	2	194	26	27	21	24	1.99
30099416--30099491	37	2.1	37	87	0	107	26	32	19	21	1.97
30099613--30099968	47	7.6	47	96	0	640	28	30	8	32	1.87
30102759--30103070	40	7.8	40	91	0	471	25	26	20	26	1.99
30104342--30104487	37	3.9	37	89	0	211	26	32	18	22	1.97
30104348--30104487	74	1.9	74	92	0	235	25	32	19	22	1.97
30104650--30104929	47	6.0	47	90	0	425	26	29	12	32	1.93
30104686--30104761	23	3.2	25	63	24	63	22	34	14	28	1.93
30104642--30104930	141	2.0	140	93	2	490	26	29	12	31	1.92
30104829--30104904	22	3.3	22	65	28	59	23	31	14	30	1.94
30118831--30118877	16	2.9	16	93	0	85	42	6	0	51	1.27
30119637--30119684	16	2.9	17	81	9	55	52	4	2	41	1.32
30122272--30122300	15	1.9	15	100	0	58	79	0	20	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30125575--30126059	47	10.2	47	90	2	700	31	8	30	29	1.87
30125576--30126044	96	4.9	95	94	1	726	30	8	30	29	1.87
30125575--30126059	143	3.4	141	89	2	718	31	8	30	29	1.87
30126177--30126252	37	2.1	37	87	0	107	23	17	31	27	1.97
30127836--30127875	18	2.2	18	90	0	62	50	0	25	25	1.50
30128357--30128402	23	2.0	23	84	12	60	45	10	6	36	1.65
30128364--30128408	23	2.0	23	82	8	56	40	13	8	37	1.76
30130074--30130113	15	2.7	15	96	0	71	20	15	20	45	1.86
30132789--30132816	14	2.0	14	100	0	56	28	0	0	71	0.86
30134637--30134702	31	2.2	29	86	5	87	31	12	15	40	1.83
30134637--30134716	29	2.6	30	86	5	99	31	10	15	43	1.79
30134662--30134725	30	2.2	29	82	2	74	32	10	10	45	1.74
30137476--30137557	25	3.3	25	70	10	69	26	25	19	28	1.99
30137492--30137583	25	3.6	25	69	15	64	23	27	19	29	1.98
30137476--30137591	50	2.3	50	81	11	139	25	24	19	30	1.98
30139631--30139665	18	1.9	18	88	0	52	37	25	0	37	1.57
30141077--30141119	18	2.4	18	82	17	54	37	2	2	58	1.24
30143271--30143330	25	2.4	25	83	5	68	41	10	16	31	1.81
30150052--30150095	18	2.5	18	92	3	72	52	0	34	13	1.41
30153642--30153706	34	1.9	34	93	0	112	23	20	18	38	1.93
30157185--30157224	19	2.1	19	90	0	62	17	22	27	32	1.96
30159265--30159377	54	2.1	54	85	3	147	16	32	22	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30163495--30163538	18	2.5	16	77	22	52	47	0	6	45	1.29
30163683--30163717	13	2.7	13	90	0	52	37	0	2	60	1.12
30164951--30164988	15	2.4	16	87	12	53	52	0	0	47	1.00
30168820--30168866	16	3.0	16	78	12	53	46	0	2	51	1.13
30168816--30168866	15	3.5	15	82	12	54	47	0	1	50	1.12
30168940--30168981	15	2.7	16	82	14	52	45	0	2	52	1.13
30168931--30168972	15	2.9	15	82	10	52	47	0	0	52	1.00
30169107--30169216	45	2.7	40	80	8	114	32	28	5	33	1.80
30169197--30169264	16	4.2	16	94	0	118	35	36	0	27	1.58
30170582--30170615	12	2.8	12	87	12	52	67	0	0	32	0.91
30175510--30175707	99	2.0	99	96	0	369	34	15	18	31	1.92
30176762--30176841	39	2.1	39	97	0	151	32	11	25	31	1.91
30179736--30179767	15	2.0	17	88	11	50	43	0	3	53	1.16
30182968--30183196	93	2.5	92	86	2	298	20	23	13	42	1.88
30182968--30183196	46	5.0	46	87	2	298	20	23	13	42	1.88
30188913--30188951	18	2.2	17	86	13	53	33	0	20	46	1.51
30189177--30189274	23	4.3	23	90	2	162	20	21	26	31	1.98
30189179--30189267	45	2.0	45	95	0	160	19	22	26	31	1.97
30190529--30190575	19	2.5	19	89	6	69	27	21	8	42	1.81
30205611--30205811	51	3.9	50	82	6	242	29	26	13	29	1.94
30207641--30207742	42	2.4	42	69	9	100	24	29	20	25	1.99
30208097--30208134	3	12.7	3	100	0	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30208583--30208634	26	2.0	26	96	0	95	19	28	19	32	1.96
30211099--30211271	46	3.7	46	77	10	199	22	20	27	29	1.98
30211096--30211266	93	1.8	93	93	0	297	22	20	28	28	1.98
30216154--30216192	20	1.9	21	84	5	53	17	5	10	66	1.39
30217665--30217702	5	7.6	5	85	8	51	15	0	2	81	0.80
30223200--30223247	25	1.9	25	87	8	71	39	10	10	39	1.74
30227673--30227729	20	2.9	20	78	2	62	8	12	17	61	1.55
30243991--30244043	18	2.9	18	80	0	61	39	16	9	33	1.81
30244190--30244289	48	2.1	48	92	0	164	36	25	18	21	1.95
30245303--30245344	9	3.8	11	85	14	52	57	4	0	38	1.20

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