genome.fa.s4.2.7.7.80.10.50.1000.121.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  121  of  235  ( 28198 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)
41176859--41176926	30	2.3	30	81	18	90	72	1	0	26	0.94
41178362--41178415	13	4.2	13	77	15	51	72	1	0	25	0.95
41178362--41178417	23	2.4	24	85	14	73	71	1	0	26	0.96
41179009--41179076	15	4.4	16	75	17	72	26	0	1	72	0.94
41179009--41179076	29	2.3	30	81	18	90	26	0	1	72	0.94
41179012--41179067	21	2.8	19	80	20	62	26	0	1	71	0.96
41181873--41182163	146	2.0	146	93	0	501	28	14	15	41	1.86
41182488--41182532	13	3.6	13	77	20	51	24	0	4	71	1.05
41182481--41182531	24	2.1	24	86	13	70	25	0	1	72	0.95
41185290--41185355	31	2.1	31	88	0	96	24	24	31	19	1.98
41188669--41188702	15	2.2	16	90	10	54	26	0	0	73	0.83
41194313--41194422	54	2.0	55	96	1	204	40	14	10	33	1.81
41200057--41200209	63	2.4	63	86	4	211	25	20	28	24	1.99
41201751--41201819	26	2.7	25	78	14	70	33	10	1	55	1.43
41206559--41206666	26	4.2	26	92	0	180	36	23	7	33	1.83
41209073--41209127	18	3.1	18	78	2	58	30	5	1	61	1.29
41209422--41209680	127	2.0	125	80	7	281	27	16	16	38	1.91
41210742--41210785	23	1.9	23	95	0	79	38	2	2	56	1.24
41212017--41212052	15	2.4	15	90	0	54	27	13	2	55	1.52
41213303--41213414	40	2.8	40	81	1	125	26	13	28	31	1.94
41214155--41214201	11	4.6	10	80	12	51	17	0	27	55	1.42
41214409--41214442	13	2.6	13	100	0	68	14	20	32	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41218601--41218645	17	2.5	17	82	13	54	17	4	13	64	1.44
41219115--41219191	37	2.1	37	100	0	154	41	5	7	45	1.55
41222629--41222674	24	1.9	24	90	0	74	32	39	17	10	1.84
41222628--41222680	24	2.2	24	82	0	70	32	43	15	9	1.78
41224874--41224926	24	2.2	24	82	0	61	37	0	3	58	1.16
41225117--41225175	16	3.7	16	81	0	73	28	25	1	44	1.64
41235508--41235551	8	5.4	8	80	2	52	54	0	0	45	0.99
41235556--41235586	16	1.9	16	100	0	62	70	0	6	22	1.09
41235608--41235666	15	3.9	15	74	10	57	69	3	23	3	1.19
41239199--41239246	16	3.1	16	76	11	64	54	10	0	35	1.35
41248282--41248323	8	5.1	8	80	13	50	71	2	23	2	1.10
41248274--41248323	24	2.0	25	88	3	75	72	2	22	4	1.12
41249408--41249435	12	2.3	12	100	0	56	39	14	14	32	1.86
41255618--41255669	22	2.4	22	96	0	95	21	15	26	36	1.93
41273524--41273567	17	2.6	18	89	7	65	29	34	18	18	1.94
41281744--41281810	19	3.7	20	67	18	56	29	4	0	65	1.12
41283715--41283822	54	2.0	54	100	0	216	31	20	9	38	1.84
41287869--41288211	173	2.0	170	89	4	530	33	18	6	41	1.75
41288071--41288099	15	2.0	15	93	6	51	34	6	0	58	1.25
41289381--41289421	21	1.9	22	85	5	57	60	0	2	36	1.10
41289922--41289967	19	2.4	19	80	20	60	50	0	13	36	1.41
41292684--41292761	23	3.4	23	78	0	93	16	11	24	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41292686--41292776	46	2.0	46	88	0	137	19	10	23	46	1.82
41294146--41294199	23	2.3	23	80	0	63	16	22	20	40	1.91
41302359--41302445	43	2.0	44	82	10	108	25	17	31	26	1.97
41309454--41309487	15	2.3	15	89	0	50	35	2	23	38	1.70
41319188--41319281	40	2.3	41	82	10	106	29	28	14	26	1.95
41321414--41321438	13	1.9	13	100	0	50	28	24	24	24	2.00
41334002--41334102	41	2.4	41	88	1	148	30	22	26	19	1.98
41334141--41334211	37	1.9	37	85	0	97	47	30	0	21	1.51
41334325--41334388	7	9.0	7	81	3	65	23	3	28	45	1.68
41334325--41334387	14	4.4	14	80	4	72	22	3	28	46	1.67
41334981--41335049	8	9.1	8	81	12	65	69	1	0	28	0.97
41334981--41335015	15	2.3	15	100	0	70	62	0	0	37	0.95
41334988--41335021	15	2.3	15	89	0	50	70	0	0	29	0.87
41334987--41335045	14	4.1	14	76	6	55	71	1	0	27	0.96
41335119--41335159	19	2.2	18	91	4	64	75	0	2	21	0.92
41339298--41339530	84	2.8	84	82	5	281	24	16	27	31	1.96
41339298--41339522	43	5.3	43	86	3	278	24	16	28	31	1.96
41339948--41340315	184	2.0	184	89	2	569	30	16	16	36	1.91
41344035--41344079	11	3.9	11	80	11	54	35	0	2	62	1.08
41346180--41346252	38	1.9	38	94	0	128	35	16	24	23	1.95
41349172--41349383	46	4.6	46	85	3	257	40	15	24	20	1.91
41373466--41373501	12	3.0	12	91	0	63	22	8	16	52	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41374180--41374370	89	2.1	89	82	6	226	30	20	17	31	1.95
41376551--41376916	46	7.8	48	73	11	224	28	18	27	24	1.98
41376593--41376910	47	6.7	47	71	13	174	27	18	28	24	1.98
41390040--41390210	93	1.8	93	94	0	306	28	30	21	19	1.97
41390040--41390206	46	3.6	45	77	13	196	29	30	20	19	1.97
41392704--41392746	20	2.2	20	86	0	59	34	6	6	51	1.56
41392900--41392945	14	3.1	14	81	12	56	23	2	0	73	0.94
41392894--41392948	28	2.0	27	82	13	67	29	1	0	69	0.99
41393348--41393386	19	2.1	19	100	0	78	38	5	10	46	1.60
41396156--41396180	13	1.9	13	100	0	50	48	4	24	24	1.68
41399250--41399279	14	2.1	14	93	0	51	83	0	13	3	0.77
41399413--41399520	48	2.3	45	85	4	144	47	7	17	27	1.74
41403961--41404000	18	2.4	17	87	8	55	25	7	0	67	1.16
41404049--41404165	57	2.1	57	96	0	216	27	18	10	43	1.82
41405320--41405362	21	2.1	20	95	4	77	34	32	11	18	1.87
41410123--41410174	24	2.2	24	86	6	70	34	36	11	17	1.86
41411665--41411702	20	1.9	20	94	0	67	36	7	13	42	1.73
41411704--41411854	58	2.6	58	77	8	144	24	14	8	52	1.70
41412225--41412374	60	2.5	58	78	10	151	54	12	12	20	1.70
41412225--41412382	61	2.7	60	79	7	155	53	12	13	20	1.71
41414070--41414139	24	2.9	24	97	0	131	34	21	35	8	1.84
41414818--41414842	6	4.2	6	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41417606--41417643	17	2.2	17	90	0	58	26	26	26	21	1.99
41417866--41417913	21	2.3	21	88	0	69	10	29	33	27	1.90
41417877--41417926	19	2.5	20	83	6	66	18	28	30	24	1.97
41420528--41420558	13	2.4	13	94	0	53	6	58	0	35	1.24
41420509--41420567	31	1.9	31	89	6	93	3	59	0	37	1.14
41420510--41420563	12	4.4	12	77	13	56	3	57	0	38	1.17
41420510--41420567	18	3.2	18	83	9	73	3	58	0	37	1.15
41422686--41422743	29	2.0	29	93	0	98	29	25	22	22	1.99
41423109--41423148	20	2.0	20	90	0	62	50	12	10	27	1.72
41423097--41423163	34	1.9	35	87	3	100	46	11	8	32	1.72
41423132--41423171	14	2.9	14	84	0	53	42	17	7	32	1.77
41423496--41423574	29	2.5	31	80	15	92	55	3	2	37	1.31
41428039--41428229	92	2.1	92	100	0	382	47	9	16	25	1.78
41430937--41430976	20	2.0	20	85	5	53	67	10	2	20	1.31
41435900--41435934	5	6.8	5	87	6	52	74	0	22	2	0.95
41436207--41436247	19	2.1	20	86	4	57	58	2	2	36	1.24
41445187--41445229	18	2.4	18	96	0	77	23	13	32	30	1.93
41452785--41452844	28	2.2	28	96	3	113	33	6	25	35	1.82
41464643--41464684	17	2.4	18	80	11	52	59	9	0	30	1.29
41464826--41464896	11	6.5	11	76	9	56	61	2	12	22	1.44
41493497--41493667	40	4.3	40	84	3	184	33	15	28	22	1.95
41501390--41501453	32	2.0	32	100	0	128	46	15	15	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41501971--41502108	68	2.0	67	90	4	215	27	22	10	39	1.86
41503498--41503569	37	1.9	39	83	8	96	58	5	1	34	1.30
41503497--41503569	38	1.9	38	83	5	94	57	5	1	35	1.30
41507361--41507415	25	2.2	24	90	9	85	36	3	3	56	1.34
41508340--41508379	19	2.1	19	100	0	80	37	15	25	22	1.93
41526778--41526876	28	3.6	28	88	2	155	26	17	22	34	1.95
41526778--41526898	28	4.4	28	84	2	100	28	16	21	33	1.95
41534075--41534114	19	2.0	21	85	9	57	52	10	30	7	1.62
41536135--41536207	10	7.4	10	73	17	55	42	0	2	54	1.14
41539277--41539318	3	14.0	3	94	0	75	33	2	0	64	1.07

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