genome.fa.s8.2.7.7.80.10.50.1000.97.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  97  of  279  ( 33431 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)
31309595--31309657	29	2.2	27	81	13	65	74	7	12	4	1.19
31310194--31310259	31	2.1	32	82	2	80	77	3	3	16	1.02
31311258--31311377	64	1.9	64	89	0	186	31	14	12	41	1.83
31311649--31311903	133	1.9	133	88	3	388	28	18	25	27	1.98
31311652--31311965	133	2.4	132	82	7	370	28	18	25	28	1.98
31311919--31312004	44	2.0	44	86	9	122	33	13	26	25	1.94
31312018--31312936	176	5.2	175	77	5	786	31	17	23	26	1.97
31313077--31313119	13	3.4	13	78	15	54	81	9	0	9	0.88
31323575--31323738	52	3.1	52	66	16	129	29	13	21	34	1.92
31323560--31323755	107	1.8	108	86	6	290	31	11	21	35	1.89
31324489--31324539	15	3.4	16	81	10	63	35	5	33	25	1.80
31327318--31327419	3	35.7	3	69	9	61	26	5	1	65	1.26
31327340--31327377	19	2.0	19	94	0	67	21	2	2	73	1.07
31339494--31339585	43	2.1	44	85	2	123	27	22	26	23	2.00
31339916--31340020	43	2.5	42	84	1	120	39	22	18	20	1.93
31340121--31340238	41	2.8	42	90	2	193	28	15	23	32	1.95
31340129--31340239	21	5.3	21	65	4	64	28	13	24	33	1.93
31342230--31342331	3	35.7	3	69	9	52	25	5	1	66	1.24
31342229--31342267	20	2.0	20	89	0	60	23	7	2	66	1.30
31342250--31342296	19	2.4	20	85	7	69	21	2	2	74	1.03
31344737--31344789	19	2.7	19	74	8	54	52	3	5	37	1.43
31344919--31344959	19	2.2	19	86	0	55	53	4	2	39	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31344698--31345036	170	2.0	172	91	3	556	50	6	4	38	1.47
31344932--31345183	140	1.8	140	95	0	459	51	4	4	39	1.43
31344945--31345229	140	2.0	140	86	4	396	52	4	4	38	1.41
31346281--31346710	213	2.0	214	92	0	709	29	32	14	23	1.94
31347015--31347195	90	2.0	89	81	5	213	47	14	8	29	1.74
31352775--31352809	17	1.9	17	88	11	52	65	17	0	17	1.27
31365999--31366072	37	2.0	37	91	0	121	36	37	6	18	1.78
31371477--31371501	13	1.9	13	100	0	50	16	24	24	36	1.94
31373081--31373125	15	2.9	15	81	12	54	51	0	2	46	1.13
31373081--31373126	17	2.9	16	84	9	58	52	0	2	45	1.13
31373261--31373296	17	2.1	18	89	5	56	41	0	0	58	0.98
31378506--31378581	33	2.3	33	93	0	125	15	39	3	40	1.66
31394959--31395720	44	17.0	43	71	9	407	30	18	22	27	1.98
31395006--31395377	89	4.2	89	71	8	272	28	20	23	27	1.99
31394909--31395472	266	2.1	266	87	1	790	29	19	22	28	1.98
31395125--31395653	89	5.9	90	73	8	351	30	19	21	27	1.98
31394912--31395474	133	4.2	133	85	2	691	29	19	22	27	1.98
31395271--31395707	229	1.9	229	88	0	658	31	19	21	27	1.97
31395361--31395614	140	1.8	140	83	5	343	31	19	21	28	1.97
31397307--31397332	3	8.7	3	100	0	52	30	0	0	69	0.89
31398032--31398501	253	1.8	257	84	3	653	29	12	18	38	1.88
31402311--31402338	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31402570--31402634	31	2.2	29	81	15	71	40	0	4	55	1.21
31407705--31408325	3	205.0	3	68	9	172	26	8	4	60	1.46
31408404--31408448	17	2.6	17	83	16	58	22	6	0	71	1.09
31408563--31408600	18	2.1	18	100	0	76	21	10	5	63	1.46
31418201--31418239	16	2.4	16	91	8	62	56	12	0	30	1.37
31421285--31421456	87	2.0	89	82	4	215	41	12	7	38	1.71
31421496--31421537	17	2.4	19	84	11	54	57	2	0	40	1.12
31423782--31423814	13	2.4	14	90	5	50	60	0	3	36	1.12
31427482--31427542	21	3.0	20	75	13	61	36	1	1	60	1.16
31428701--31428744	23	1.9	23	85	0	61	61	4	13	20	1.50
31432825--31432916	11	8.1	11	71	7	67	27	2	6	64	1.30
31434006--31434125	60	2.0	60	82	8	145	40	4	14	41	1.65
31439343--31439379	3	12.3	3	94	0	56	32	5	0	62	1.18
31439929--31439974	22	2.0	22	83	4	56	32	8	4	54	1.51
31443781--31443832	22	2.3	22	86	3	68	28	3	1	65	1.21
31452875--31452930	23	2.5	23	77	11	62	19	21	3	55	1.58
31460397--31460436	19	2.0	20	85	14	55	22	12	2	62	1.42
31460966--31461004	20	2.0	20	100	0	78	56	10	0	33	1.33
31468034--31468075	12	3.5	12	87	12	68	23	2	0	73	0.94
31468047--31468085	20	2.0	20	100	0	78	23	5	0	71	1.05
31470055--31470114	10	6.0	10	84	11	79	21	8	1	68	1.25
31471885--31472034	67	2.2	67	81	8	171	32	17	28	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31471909--31472092	67	2.8	64	77	8	194	29	17	29	22	1.97
31475512--31475649	65	2.1	65	94	0	240	28	20	21	30	1.98
31483700--31483747	21	2.3	21	78	7	53	20	2	2	75	1.02
31489019--31489057	19	2.1	19	100	0	78	10	23	25	41	1.86
31489021--31489063	19	2.2	19	91	4	68	11	18	23	46	1.82
31493101--31493145	13	3.3	14	77	22	51	60	0	4	35	1.17
31493139--31493177	18	2.2	18	86	9	53	76	0	12	10	1.01
31493144--31493172	14	2.1	14	93	6	51	79	0	13	6	0.93
31493962--31494000	17	2.4	17	95	4	71	23	5	43	28	1.75
31500267--31500661	197	2.0	197	100	0	790	28	6	27	37	1.81
31503729--31504121	188	2.1	188	81	5	438	36	16	18	27	1.93
31503729--31504125	94	4.2	93	78	5	370	36	16	19	27	1.93
31504091--31504187	44	2.2	44	83	3	115	37	18	21	22	1.95
31514949--31515026	40	2.0	40	86	0	111	20	12	32	34	1.90
31520237--31520264	14	2.0	14	100	0	56	28	21	28	21	1.99
31523907--31523946	8	5.1	8	81	6	55	85	0	15	0	0.61
31525638--31525847	40	5.3	39	87	5	233	24	21	28	25	1.99
31525585--31525847	120	2.2	120	81	4	300	25	21	27	25	1.99
31525638--31525882	80	3.1	80	81	3	228	25	21	28	24	1.99
31528855--31528895	20	2.0	20	85	0	55	24	39	26	9	1.86
31534275--31534299	12	2.1	12	100	0	50	76	0	8	16	1.02
31535403--31535595	39	5.0	40	86	4	159	27	29	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31535432--31535595	78	2.1	78	84	5	208	26	29	22	21	1.99
31535470--31535595	39	3.2	39	95	0	216	26	30	21	21	1.98
31543248--31543372	39	3.2	39	96	0	223	28	29	20	21	1.98
31543912--31544232	156	2.1	156	98	0	626	37	19	9	33	1.84
31551459--31551804	37	9.3	37	76	5	311	27	16	18	37	1.92
31551540--31551811	149	1.8	149	87	0	409	27	15	18	38	1.91
31551459--31551804	112	3.1	109	80	5	368	27	16	18	37	1.92
31555024--31555061	17	2.2	17	86	9	51	21	0	10	68	1.19
31555178--31555233	23	2.5	22	78	16	53	57	1	1	39	1.20
31564091--31564136	21	2.2	21	84	0	56	19	36	28	15	1.92
31568000--31568161	35	4.7	35	80	3	184	29	11	25	34	1.90
31568000--31568161	69	2.3	70	81	3	184	29	11	25	34	1.90
31570243--31570373	32	4.1	32	89	1	165	20	25	32	20	1.97
31572645--31572696	27	2.0	27	88	3	79	13	11	30	44	1.79
31574186--31574226	20	2.0	20	90	9	66	9	9	0	80	0.91
31575824--31575882	28	2.1	28	81	9	68	35	6	1	55	1.36
31575836--31575899	28	2.4	26	82	10	76	31	4	3	60	1.32
31576877--31576920	12	3.4	13	84	15	56	43	9	13	34	1.76
31576883--31576920	12	3.1	12	92	3	58	44	7	15	31	1.75
31577180--31577213	8	4.2	8	100	0	68	11	0	0	88	0.52
31579686--31579774	6	14.8	6	85	0	97	21	17	58	2	1.50
31581441--31581487	22	2.1	22	88	0	67	27	17	4	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31582373--31582433	31	2.0	31	90	0	95	40	4	22	31	1.75
31583103--31583137	18	1.9	18	88	0	52	51	0	2	45	1.16
31583731--31583785	21	2.6	23	77	16	64	41	3	3	50	1.37
31595548--31595632	36	2.4	36	81	15	104	37	21	1	40	1.61
31601485--31601523	19	2.1	19	100	0	78	46	15	12	25	1.81
31601675--31601718	20	2.3	19	80	7	52	52	2	9	36	1.46
31608601--31608660	30	2.0	30	83	6	77	26	26	8	38	1.85
31611020--31611090	35	2.0	35	97	0	133	15	22	15	46	1.83
31612483--31612528	22	2.1	22	84	8	58	63	8	0	28	1.24
31614046--31614119	30	2.4	31	77	6	78	29	0	10	59	1.31

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