genome.fa.s8.2.7.7.80.10.50.1000.159.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  159  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)
52345434--52345469	14	2.6	14	90	0	54	36	41	0	22	1.54
52345492--52345524	14	2.3	15	94	5	59	36	33	0	30	1.58
52346091--52346388	145	2.0	146	94	1	526	24	17	14	43	1.85
52346214--52346571	181	2.0	179	93	3	621	25	16	12	45	1.82
52346090--52346716	326	1.9	324	95	2	1132	25	17	14	43	1.86
52346392--52346781	145	2.7	145	99	0	771	24	17	15	43	1.87
52346777--52346945	73	2.3	72	87	2	239	26	24	23	25	2.00
52347012--52347037	12	2.2	12	100	0	52	46	30	15	7	1.74
52351989--52352032	21	2.1	21	100	0	88	31	4	13	50	1.62
52400575--52400686	59	1.9	58	94	3	199	31	8	20	40	1.81
52401095--52401133	21	1.9	19	85	10	51	41	5	2	51	1.38
52410660--52410689	4	7.5	4	100	0	60	23	0	26	50	1.50
52430175--52430367	96	2.0	96	90	0	305	25	24	15	34	1.95
52458412--52458485	36	2.1	36	100	0	148	24	25	10	39	1.88
52470750--52470783	16	2.2	15	89	5	50	38	0	2	58	1.13
52474763--52474832	31	2.3	31	82	0	86	28	25	20	25	1.99
52474787--52474878	46	2.0	46	89	0	139	27	23	22	26	2.00
52474833--52474891	31	1.9	31	100	0	118	25	25	20	28	1.99
52474871--52474998	50	2.5	51	89	2	195	25	23	17	33	1.96
52476055--52476089	16	2.1	18	89	10	56	37	14	2	45	1.59
52486280--52486307	6	4.7	6	100	0	56	67	0	32	0	0.91
52496327--52496379	19	2.8	19	78	13	56	32	5	18	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52507506--52507627	61	2.0	61	100	0	244	45	24	6	22	1.76
52509370--52509422	16	3.3	16	71	7	54	18	9	0	71	1.12
52511463--52511502	20	2.0	20	85	4	55	45	2	2	50	1.28
52511523--52511573	17	3.1	16	81	10	59	41	1	1	54	1.22
52516663--52516774	39	2.8	40	73	8	104	23	20	25	30	1.98
52524385--52524535	76	2.0	76	97	0	284	34	23	13	29	1.92
52526477--52526542	23	3.0	22	78	12	82	39	24	21	15	1.91
52526685--52526880	98	2.0	98	97	0	374	39	31	9	19	1.84
52526842--52526928	28	3.1	29	81	5	115	43	28	8	19	1.79
52529365--52529414	25	2.0	25	100	0	100	28	4	4	64	1.30
52530245--52530302	31	1.9	30	85	3	80	13	12	3	70	1.28
52530284--52530327	22	2.0	22	86	0	61	25	11	4	59	1.51
52535969--52536024	28	2.0	28	92	0	94	37	1	23	37	1.65
52545785--52545841	11	5.6	10	74	17	55	57	0	1	40	1.09
52545786--52545841	20	2.7	21	81	10	71	57	0	1	41	1.09
52547797--52547875	29	2.7	30	84	7	101	56	1	0	41	1.07
52547856--52547892	14	2.5	15	83	16	51	67	5	0	27	1.12
52552045--52552070	12	2.2	12	100	0	52	57	0	0	42	0.98
52558100--52558128	10	2.7	11	94	5	51	0	17	20	62	1.33
52562002--52562031	13	2.2	14	94	5	53	43	0	6	50	1.28
52563334--52563374	21	1.9	22	85	14	59	26	2	9	60	1.40
52565050--52565074	4	6.2	4	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52573169--52573198	15	2.0	15	100	0	60	33	20	0	46	1.51
52584284--52584308	8	3.1	8	100	0	50	0	12	0	88	0.53
52588612--52589996	690	2.0	690	100	0	2770	29	16	21	32	1.95
52602264--52602296	10	3.3	10	100	0	66	0	9	0	90	0.44
52608741--52608791	25	2.0	25	100	0	102	31	13	15	39	1.87
52610466--52610516	15	3.4	15	74	15	52	68	0	1	29	1.00
52622635--52622672	18	2.1	18	85	9	51	0	2	26	71	1.00
52629486--52629604	37	3.3	37	65	13	104	56	10	4	28	1.52
52629486--52629630	70	2.1	69	94	1	254	53	8	6	31	1.57
52630306--52630368	30	2.1	30	87	3	90	12	9	7	69	1.35
52630302--52630351	21	2.4	21	72	0	55	10	10	6	74	1.23
52630809--52630835	2	13.5	2	100	0	54	0	48	0	51	1.00
52633310--52633353	14	3.1	14	80	0	52	34	0	4	61	1.16
52645403--52645436	17	2.0	17	94	0	59	44	50	0	5	1.26
52650042--52650075	17	2.0	17	94	0	59	44	50	0	5	1.26
52651258--52651648	195	2.0	196	92	1	660	40	14	6	39	1.71
52653549--52653598	24	2.1	24	100	0	100	20	12	28	40	1.87
52660155--52660264	54	2.0	54	98	0	211	39	7	20	33	1.80
52662340--52662368	13	2.1	14	93	6	51	41	6	20	31	1.79
52667506--52667544	19	2.1	19	85	4	53	15	10	5	69	1.34
52678894--52678968	30	2.3	33	78	19	95	60	10	5	24	1.51
52678903--52678964	30	2.1	30	90	6	99	61	11	3	24	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52679001--52679040	11	3.6	11	82	0	53	60	7	10	22	1.54
52687347--52687386	18	2.2	18	86	8	55	17	10	15	57	1.64
52688555--52688605	2	25.5	2	100	0	102	0	49	0	50	1.00
52705475--52705531	22	2.7	19	75	19	60	73	3	0	22	0.98
52705629--52705694	32	2.1	32	83	13	84	33	9	13	43	1.76
52706738--52706791	23	2.5	23	82	8	60	61	7	0	31	1.24
52706908--52706932	4	6.2	4	100	0	50	76	0	0	24	0.80
52706973--52707087	21	5.2	24	72	22	83	62	0	8	28	1.25
52707001--52707087	44	2.0	44	82	13	108	65	0	8	26	1.20
52706999--52707127	15	8.9	14	72	18	70	65	1	6	25	1.26
52707020--52707127	29	3.8	28	73	22	73	64	1	7	25	1.30
52708079--52708142	7	8.4	7	73	26	51	42	1	1	54	1.19
52711269--52711325	22	2.6	22	83	8	80	14	24	19	42	1.88
52731232--52731309	12	6.5	12	78	0	84	44	1	46	7	1.40
52731232--52731313	6	13.7	6	78	5	76	45	1	46	7	1.39
52732287--52732341	27	2.0	27	89	0	83	9	23	38	29	1.85
52734481--52734560	41	2.0	41	94	0	142	41	7	21	30	1.80
52751226--52751251	2	13.0	2	100	0	52	50	0	50	0	1.00
52753312--52753337	12	2.2	12	100	0	52	76	15	0	7	0.99
52755348--52755427	31	2.6	30	84	5	90	33	10	11	45	1.73
52757554--52757729	46	3.8	45	81	10	212	21	21	29	28	1.98
52757551--52757721	93	1.8	93	94	0	306	21	21	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52759130--52759291	42	3.7	42	80	7	146	30	26	14	29	1.95
52759403--52759492	31	2.9	31	89	0	135	25	25	20	28	1.99
52760096--52760130	16	2.1	18	89	10	56	37	14	2	45	1.59
52763689--52763714	8	3.2	8	100	0	52	88	0	11	0	0.52
52770772--52770964	47	4.0	49	81	9	200	30	29	17	23	1.97
52773325--52773396	10	7.6	9	73	16	56	34	2	5	56	1.37
52773350--52773399	20	2.5	20	80	3	66	32	4	8	56	1.47
52778512--52778547	14	2.6	14	86	0	54	41	0	8	50	1.33
52778520--52778554	16	2.2	16	89	0	52	37	0	11	51	1.38
52781893--52782058	53	3.1	53	88	6	221	25	15	28	30	1.96
52789411--52789576	53	3.1	53	88	6	221	25	15	28	30	1.96
52791034--52791078	21	2.1	21	87	0	63	13	6	35	44	1.70
52791448--52791489	22	2.0	21	85	4	57	76	2	0	21	0.90
52795568--52795616	25	2.0	25	87	0	71	24	20	22	32	1.98
52810510--52810560	21	2.4	22	77	9	61	52	7	3	35	1.49
52825124--52825171	21	2.2	22	88	7	71	52	4	10	33	1.55
52832291--52832333	22	2.0	22	100	0	86	32	16	18	32	1.93
52837594--52837644	25	1.9	28	88	11	81	52	3	3	39	1.38
52839117--52839175	20	2.8	20	77	12	57	55	0	1	42	1.09
52839739--52839800	21	3.2	20	82	15	76	37	0	0	62	0.95
52839742--52839807	20	3.1	21	83	12	75	40	0	0	59	0.98
52839781--52839835	27	2.1	27	83	10	69	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52840364--52840402	18	2.2	18	90	9	62	51	0	0	48	1.00
52845205--52845254	22	2.2	21	82	13	55	62	2	0	36	1.07
52845936--52845985	24	2.1	24	100	0	100	16	8	20	56	1.65
52846072--52846109	19	2.1	19	90	9	62	55	0	7	36	1.29
52847638--52847671	15	2.2	16	89	5	52	44	0	2	52	1.16
52850849--52850892	20	2.2	20	100	0	88	27	4	18	50	1.66
52859197--52859360	27	6.6	25	75	13	144	54	4	6	33	1.48
52859242--52859379	52	2.8	49	77	9	122	55	5	5	32	1.47
52859269--52859381	49	2.3	50	77	9	124	57	6	4	31	1.43
52859457--52859608	25	6.1	26	75	18	128	57	3	5	32	1.39

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