genome.fa.s8.2.7.7.80.10.50.1000.177.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  177  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)
58318900--58318967	16	4.2	16	96	0	127	25	0	35	39	1.56
58319302--58319353	15	3.6	15	80	12	56	53	1	0	44	1.11
58319186--58319482	59	5.0	58	66	18	164	50	4	3	41	1.38
58319186--58319478	120	2.4	121	93	1	491	50	4	3	41	1.39
58329790--58330029	77	3.1	77	81	2	259	29	16	20	33	1.95
58329956--58330130	93	1.9	93	84	0	233	39	14	18	27	1.90
58330056--58330373	75	4.2	75	85	4	447	30	14	21	33	1.94
58330043--58330360	155	2.0	155	92	0	519	32	14	22	31	1.93
58330612--58330753	62	2.3	63	91	1	232	28	13	28	30	1.94
58332269--58332325	22	2.5	22	83	11	62	28	8	0	63	1.24
58332366--58332409	17	2.6	18	82	7	56	29	6	2	61	1.34
58332533--58332616	3	28.3	3	71	9	57	33	2	3	60	1.27
58332627--58332694	25	2.6	27	81	6	86	38	7	2	51	1.45
58332769--58332827	18	3.2	18	75	17	59	32	3	0	64	1.10
58332821--58332874	26	2.0	27	85	3	74	25	9	1	62	1.35
58335752--58335906	78	2.0	77	98	1	301	21	28	14	35	1.93
58342400--58342431	16	2.0	16	93	0	55	28	6	34	31	1.82
58345819--58346104	46	6.6	45	73	12	201	26	19	21	31	1.98
58345734--58346108	170	2.2	170	87	4	513	27	21	20	31	1.98
58354811--58354944	67	2.0	67	92	0	223	19	38	10	32	1.86
58357785--58357997	110	1.9	110	98	0	408	38	13	16	31	1.87
58358379--58358632	46	5.6	46	89	2	354	27	20	29	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58362026--58362201	46	3.8	46	76	12	171	22	20	27	29	1.99
58362023--58362193	93	1.8	93	88	0	261	22	21	27	28	1.99
58364041--58364079	19	2.1	19	100	0	78	15	35	33	15	1.89
58369273--58369325	27	2.0	27	82	14	65	28	5	3	62	1.35
58369358--58369483	43	3.0	43	85	1	155	26	18	23	31	1.97
58376751--58376848	32	3.2	31	66	14	76	52	7	3	37	1.45
58379525--58379632	45	2.5	46	82	7	127	36	16	25	22	1.94
58380718--58380783	33	1.9	36	87	9	102	54	1	0	43	1.09
58380716--58380792	34	2.2	35	82	13	97	55	1	0	42	1.07
58387245--58387299	27	2.0	27	92	3	92	36	10	7	45	1.67
58387294--58387334	15	2.7	15	88	0	55	26	2	7	63	1.33
58387530--58387579	25	2.0	25	100	0	100	36	16	0	48	1.46
58391912--58391955	19	2.3	19	76	0	52	59	6	0	34	1.24
58392038--58392080	21	2.0	21	100	0	86	34	13	9	41	1.77
58403967--58403999	3	11.0	3	100	0	66	66	0	33	0	0.92
58406953--58406992	21	1.9	21	89	0	62	30	15	0	55	1.41
58407133--58407227	19	4.9	19	70	14	61	27	4	2	66	1.21
58407684--58407728	17	2.6	17	80	16	56	35	6	8	48	1.61
58408289--58408333	15	3.1	15	84	6	58	57	13	13	15	1.65
58408563--58408647	33	2.6	33	81	9	86	18	31	24	24	1.98
58414844--58414887	21	2.3	18	84	11	52	68	0	9	22	1.18
58414884--58414911	11	2.5	11	100	0	56	50	0	14	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58416597--58416699	44	2.4	42	82	9	125	27	23	18	31	1.97
58416637--58416800	89	1.8	89	82	2	213	30	20	18	30	1.96
58416935--58417454	89	5.9	89	83	4	525	32	20	14	31	1.93
58416940--58417355	133	3.1	133	93	0	679	31	20	15	32	1.94
58416935--58417457	222	2.4	222	87	3	725	32	20	14	31	1.93
58429214--58429241	11	2.5	11	100	0	56	50	0	14	35	1.43
58441662--58441715	25	2.2	25	93	0	90	44	5	31	18	1.73
58448592--58448631	16	2.6	15	84	7	53	57	0	7	35	1.27
58449622--58449711	46	2.0	46	95	0	162	44	38	11	5	1.63
58450822--58450886	28	2.7	23	75	17	60	36	10	3	49	1.53
58451296--58451324	5	6.0	5	96	4	51	20	0	0	79	0.74
58454604--58454697	26	3.7	26	69	8	77	58	4	4	32	1.37
58454604--58454699	52	1.9	51	83	8	126	58	4	4	33	1.36
58456389--58456527	45	3.1	45	79	4	129	30	20	17	31	1.95
58456419--58456574	44	3.5	44	77	1	177	29	20	19	30	1.97
58456374--58456574	89	2.3	89	85	1	260	30	19	18	31	1.96
58456767--58456953	94	2.0	94	87	0	266	32	21	18	27	1.97
58456779--58456953	50	3.6	50	74	9	173	32	21	18	26	1.97
58456925--58457051	46	2.7	46	85	6	159	29	23	14	31	1.95
58459997--58460037	13	3.2	12	83	10	55	24	2	2	70	1.11
58461910--58462071	26	6.2	26	93	0	279	33	6	25	35	1.81
58470146--58470295	72	2.1	73	88	1	221	47	4	14	33	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58475567--58476086	131	4.0	133	81	4	504	29	20	16	34	1.94
58477225--58477255	15	2.1	15	93	0	53	51	12	0	35	1.40
58483189--58483252	26	2.4	26	84	5	83	31	25	14	29	1.94
58483356--58483496	27	5.2	27	85	2	167	17	24	22	35	1.95
58483356--58483496	54	2.6	55	86	2	187	17	24	22	35	1.95
58484560--58484598	19	2.1	18	85	4	51	0	20	2	76	0.90
58487066--58487144	14	5.7	14	73	21	69	29	1	7	62	1.31
58487074--58487115	11	4.1	10	87	9	59	30	0	2	66	1.04
58487071--58487116	3	16.0	3	86	8	69	32	0	2	65	1.05
58487282--58487360	28	2.7	31	76	13	85	29	7	1	62	1.31
58487681--58487740	27	2.2	28	84	3	77	35	6	6	51	1.54
58491479--58491711	49	4.7	50	81	4	274	25	18	27	29	1.98
58499583--58499729	43	3.4	42	75	8	134	29	26	16	27	1.97
58501828--58501986	3	53.0	3	100	0	318	66	0	33	0	0.92
58520334--58520445	6	18.8	6	99	0	217	66	0	0	33	0.92
58520321--58520435	8	12.8	9	65	31	52	65	0	0	34	0.93
58524389--58524454	26	2.5	26	78	4	71	43	1	1	53	1.19
58527305--58527417	57	2.0	57	94	0	199	29	25	10	34	1.90
58528057--58528195	69	2.0	69	97	0	260	21	26	10	41	1.85
58532936--58532980	23	2.0	23	82	8	56	37	8	13	40	1.76
58539092--58539120	14	2.1	14	100	0	58	34	13	6	44	1.71
58539747--58539890	72	2.0	72	100	0	288	38	13	23	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58542575--58542751	50	3.5	50	90	0	273	36	16	21	25	1.94
58542727--58542844	31	3.8	31	91	0	191	25	19	27	27	1.99
58542956--58543068	42	2.7	41	80	5	129	32	14	23	29	1.94
58550510--58550549	20	2.0	20	100	0	80	35	20	10	35	1.86
58552116--58552258	77	1.9	77	92	0	241	37	20	18	23	1.95
58555517--58555652	53	2.7	52	78	11	149	23	15	30	30	1.95
58558415--58558440	13	2.0	13	100	0	52	30	23	7	38	1.83
58567771--58567810	20	2.1	19	86	13	55	22	0	15	62	1.32
58574247--58574294	24	2.0	24	84	15	64	52	16	0	31	1.45
58574963--58575034	4	17.2	4	78	16	58	2	20	2	73	1.08
58575187--58575224	19	2.1	19	85	5	51	31	13	2	52	1.54
58576767--58576804	19	2.0	19	89	0	58	26	5	26	42	1.76
58579435--58579489	26	2.1	26	100	0	110	41	18	9	30	1.81
58579533--58579558	13	2.0	13	100	0	52	30	23	7	38	1.83
58579731--58579786	28	2.0	28	100	0	112	28	21	10	39	1.87
58582259--58582343	11	7.7	10	72	12	53	28	1	4	65	1.19
58582274--58582321	14	3.5	14	77	11	55	29	0	4	66	1.10
58582270--58582343	25	3.1	25	78	5	82	28	1	4	66	1.18
58584275--58584321	22	2.2	21	84	3	58	36	21	8	34	1.84
58584294--58584344	19	2.9	16	78	18	57	35	17	9	37	1.83
58584292--58584334	19	2.1	21	91	8	72	34	18	9	37	1.83
58584731--58585049	87	3.7	86	68	15	233	28	21	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58594323--58594428	26	4.1	25	90	7	167	33	7	22	35	1.83
58594323--58594428	52	2.0	52	94	0	185	33	7	22	35	1.83
58604705--58604730	13	2.0	13	100	0	52	23	7	23	46	1.78
58606784--58606826	18	2.6	16	85	10	59	46	0	2	51	1.13
58607836--58608837	44	22.8	44	93	2	1568	29	24	16	29	1.96
58619661--58619688	12	2.3	12	100	0	56	64	14	0	21	1.29
58626972--58627211	37	6.5	37	98	0	453	36	17	21	25	1.94
58628021--58628120	50	2.0	50	100	0	200	20	24	28	28	1.99
58635218--58635260	18	2.3	18	88	11	61	37	13	25	23	1.92
58638825--58638878	8	6.0	8	76	23	54	70	0	3	25	1.04

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