genome.fa.s9.2.7.7.80.10.50.1000.10.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  10  of  284  ( 34012 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)
3211918--3211950	10	3.4	10	87	8	50	21	0	9	69	1.15
3214569--3214622	26	2.1	25	86	3	72	40	0	1	57	1.09
3214910--3214997	16	5.1	16	69	17	52	59	5	1	34	1.29
3214927--3215020	26	3.5	28	81	12	108	59	7	1	31	1.32
3214917--3215020	54	1.9	55	90	2	165	58	6	0	33	1.31
3218797--3218862	23	2.8	23	80	13	80	66	13	1	18	1.32
3221107--3221148	11	3.8	11	78	9	50	59	11	11	16	1.61
3226022--3226056	12	2.9	12	84	16	54	42	0	0	57	0.99
3226023--3226056	8	4.2	8	85	14	52	41	0	0	58	0.98
3234449--3234486	3	12.7	3	100	0	76	68	0	31	0	0.90
3234746--3234778	6	5.7	6	89	3	50	63	0	36	0	0.95
3238280--3238499	94	2.3	94	98	0	422	28	19	30	22	1.98
3238285--3238690	140	2.9	140	83	7	475	27	19	29	22	1.98
3239930--3240289	104	3.5	104	99	0	711	43	15	6	34	1.73
3241553--3241590	19	2.0	20	89	5	60	65	5	18	10	1.41
3245793--3245862	35	2.0	35	97	0	131	47	17	12	22	1.81
3252680--3252847	40	4.2	40	82	8	148	27	27	20	24	1.99
3252715--3252900	80	2.3	80	83	9	229	27	27	20	23	1.99
3252717--3252900	40	4.6	40	83	7	205	27	27	21	23	1.99
3267206--3267248	22	2.0	22	86	4	61	34	23	18	23	1.96
3273074--3273110	18	2.1	18	94	0	65	40	18	0	40	1.51
3274391--3274460	25	2.8	24	77	12	70	75	2	17	4	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278283--3278307	13	1.9	13	100	0	50	12	0	0	88	0.53
3279925--3279952	5	5.6	5	100	0	56	42	0	39	17	1.50
3283721--3283784	24	2.7	24	87	0	83	23	17	18	40	1.91
3286945--3286982	5	7.6	5	100	0	76	39	0	0	60	0.97
3286941--3287035	3	33.3	3	71	21	71	35	1	2	61	1.15
3286957--3287032	16	4.9	15	75	12	57	34	1	2	61	1.18
3287926--3288032	45	2.4	45	90	3	162	20	16	19	42	1.89
3287911--3288030	45	2.5	50	76	18	135	20	18	20	41	1.90
3289578--3289700	45	2.8	44	82	3	131	23	21	18	35	1.95
3290155--3290193	16	2.4	17	86	4	53	25	2	5	66	1.25
3294371--3294416	22	2.1	22	91	0	74	39	13	13	34	1.83
3296508--3297028	262	2.0	260	93	0	880	30	22	14	32	1.94
3301925--3302858	35	26.7	35	97	0	1685	28	11	23	36	1.90
3304986--3305079	38	2.4	39	85	1	127	32	14	34	18	1.91
3305015--3305077	20	3.2	20	73	8	67	28	14	41	15	1.87
3306567--3306617	25	2.0	25	88	0	75	35	13	21	29	1.92
3311908--3311940	17	1.9	17	100	0	66	63	0	18	18	1.31
3316862--3316899	19	2.0	20	89	5	60	23	23	13	39	1.90
3317549--3317636	34	2.6	34	76	3	97	28	15	15	39	1.89
3318935--3319131	79	2.5	80	86	8	285	26	25	21	25	2.00
3318919--3319122	40	5.2	40	85	6	256	26	25	22	25	2.00
3328978--3329017	21	1.9	21	89	0	62	30	17	10	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3333025--3333187	62	2.6	62	85	5	206	22	23	30	23	1.99
3351099--3351199	51	2.0	51	98	0	193	33	1	18	45	1.61
3356029--3356173	40	3.6	40	89	1	193	24	21	28	25	1.99
3356029--3356200	80	2.2	80	82	3	204	23	20	27	27	1.99
3358305--3358453	43	3.5	43	90	0	235	24	30	21	24	1.99
3358592--3358638	19	2.5	19	76	10	51	72	4	2	21	1.12
3360526--3361050	46	11.3	46	80	6	535	36	22	6	34	1.80
3360548--3361050	93	5.4	93	91	2	712	36	22	6	34	1.80
3360526--3361066	23	23.4	22	77	7	420	36	22	6	34	1.80
3364007--3364078	7	10.0	7	75	11	56	38	38	0	22	1.54
3364007--3364078	21	3.3	21	70	12	65	38	38	0	22	1.54
3364187--3364255	14	4.6	14	71	13	57	44	21	1	31	1.61
3364178--3364262	21	3.9	21	72	17	82	44	24	1	29	1.61
3364162--3364251	46	2.0	46	95	0	162	42	24	2	31	1.67
3364427--3364684	41	6.4	41	84	2	281	20	20	21	37	1.95
3364466--3364715	41	6.2	41	81	5	129	21	20	20	37	1.94
3364926--3365006	42	1.9	42	85	9	112	35	23	17	23	1.95
3373922--3374059	33	4.3	32	78	9	120	31	21	11	36	1.89
3373922--3374046	63	1.9	65	82	4	155	32	20	12	34	1.90
3375366--3375518	62	2.5	62	81	5	166	25	23	25	25	2.00
3381930--3381956	12	2.2	12	100	0	54	22	25	7	44	1.79
3385725--3385759	2	18.0	2	88	5	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388917--3388984	34	1.9	35	83	16	88	27	1	4	66	1.20
3390392--3390426	18	1.9	18	94	0	61	37	20	17	25	1.94
3393170--3393194	12	2.1	12	100	0	50	48	0	0	52	1.00
3393231--3393419	103	1.8	106	83	5	260	41	3	5	49	1.43
3393437--3393474	20	1.9	20	88	0	58	39	0	0	60	0.97
3394248--3394294	23	2.0	24	84	8	62	51	2	0	46	1.13
3396577--3396630	20	2.7	20	88	0	72	27	9	20	42	1.82
3399632--3399666	3	11.7	3	100	0	70	34	0	0	65	0.93
3414314--3414372	28	2.1	28	93	0	100	28	13	27	30	1.94
3417395--3417444	19	2.6	19	90	0	64	84	4	12	0	0.76
3417406--3417446	14	2.9	15	86	13	61	82	4	12	0	0.81
3418686--3418857	43	4.0	42	78	6	184	25	19	26	29	1.98
3424114--3424155	5	8.8	5	86	5	52	83	0	14	2	0.75
3424106--3424158	6	9.2	6	80	19	51	83	1	13	1	0.82
3424106--3424156	18	2.9	18	85	11	70	84	1	11	1	0.79
3425283--3426089	143	5.6	143	86	1	1044	30	19	22	27	1.98
3425576--3425697	44	2.8	44	80	7	131	27	19	24	28	1.99
3425622--3425809	99	1.9	99	81	4	227	29	18	23	28	1.98
3426007--3426149	44	3.5	42	66	19	111	29	23	20	26	1.99
3425283--3426089	429	1.9	429	86	2	1154	30	19	22	27	1.98
3426028--3426280	79	3.2	79	86	1	346	31	23	23	21	1.98
3426867--3426912	23	2.0	23	87	8	67	6	15	4	73	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3427545--3427571	3	9.0	3	100	0	54	33	0	0	66	0.92
3427575--3427717	71	2.0	71	98	0	277	24	11	6	57	1.58
3431103--3431344	43	5.7	43	86	7	332	26	17	25	30	1.97
3431142--3431344	85	2.4	85	99	0	397	26	18	24	31	1.98
3461853--3461923	36	2.0	36	100	0	142	38	16	14	30	1.89
3464744--3464825	27	3.0	27	79	10	96	18	23	18	40	1.91
3464944--3465130	45	4.2	44	75	4	169	26	19	10	43	1.83
3464944--3465130	90	2.1	89	81	3	214	26	19	10	43	1.83
3465695--3465761	32	2.1	32	85	0	89	37	19	11	31	1.88
3481503--3481687	40	4.7	40	80	6	207	25	28	22	24	1.99
3481537--3481684	79	1.9	80	83	7	194	24	29	20	25	1.99
3489561--3489745	40	4.7	40	82	6	216	24	27	22	25	2.00
3489561--3489745	79	2.3	82	82	7	220	24	27	22	25	2.00
3496517--3496686	27	6.3	27	80	0	178	25	22	16	34	1.95
3496532--3496685	81	1.9	81	86	2	220	24	21	18	35	1.95
3500292--3500378	44	2.0	44	95	0	156	18	19	29	32	1.96
3508620--3508684	32	2.0	32	100	0	130	41	21	18	18	1.90
3517159--3517339	40	4.6	40	78	7	172	25	25	24	24	2.00
3518842--3518892	25	2.0	25	100	0	102	52	15	3	27	1.60
3523280--3523480	100	2.0	100	100	0	402	20	23	19	35	1.96
3525244--3525411	40	4.2	40	83	4	106	25	27	23	23	2.00
3525267--3525411	40	3.6	40	85	4	193	23	26	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3530375--3530447	36	2.0	36	94	0	128	39	9	15	35	1.80
3531282--3531377	34	2.8	34	93	0	165	23	25	22	28	2.00
3533057--3533124	27	2.6	27	83	6	77	30	29	19	20	1.97
3533524--3533582	22	2.7	22	81	0	64	32	22	25	20	1.98
3533729--3533807	41	2.0	41	92	2	133	26	32	21	18	1.97
3534043--3534562	27	19.3	27	77	8	409	33	11	16	37	1.86
3539571--3539655	43	2.0	43	97	0	161	34	20	25	20	1.96
3546215--3546609	50	7.8	50	78	3	373	26	17	25	30	1.97
3546266--3546548	101	2.8	101	90	1	442	25	17	26	30	1.97
3546261--3546615	151	2.3	152	82	2	437	25	17	26	30	1.97

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