genome.fa.s8.2.7.7.80.10.50.1000.15.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  15  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)
4765630--4765751	43	2.9	42	78	7	147	31	17	23	27	1.97
4794329--4794399	28	2.5	28	86	4	90	33	26	11	28	1.91
4797830--4797947	43	2.8	41	77	7	119	31	17	22	27	1.97
4799481--4799652	43	4.1	42	76	8	170	26	14	25	33	1.94
4807514--4807679	43	3.9	43	76	10	144	27	14	24	33	1.94
4807169--4807778	310	2.0	310	90	0	959	31	14	23	30	1.94
4810474--4810528	27	2.0	27	92	0	92	30	12	20	36	1.90
4813739--4813811	36	2.0	36	97	0	137	42	10	15	31	1.81
4818711--4818750	21	2.0	20	85	5	53	20	35	30	15	1.93
4820365--4820450	30	2.9	30	75	17	90	29	22	17	31	1.96
4822594--4822639	16	3.1	14	82	14	56	76	2	17	4	1.06
4822712--4822781	24	2.9	25	76	6	72	64	1	22	11	1.34
4822707--4822792	30	2.9	31	77	8	81	67	1	19	11	1.28
4826115--4826146	13	2.5	13	94	0	55	68	3	6	21	1.26
4829911--4829943	13	2.5	13	95	0	57	66	9	6	18	1.40
4832119--4832204	30	2.9	30	78	11	97	27	20	18	32	1.96
4832381--4832466	30	2.9	30	76	11	88	27	22	18	31	1.97
4832106--4832628	262	2.0	262	99	0	1037	33	15	12	38	1.85
4834466--4834497	14	2.3	14	94	0	55	43	6	25	25	1.77
4854329--4854391	29	2.2	29	91	0	99	39	3	26	30	1.72
4861284--4861342	29	2.0	29	100	0	118	23	16	33	25	1.96
4862364--4862402	18	2.1	19	90	4	62	64	0	17	17	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4862565--4862626	26	2.4	26	83	0	70	41	11	12	33	1.79
4870581--4870668	40	2.2	40	91	0	140	19	42	20	18	1.90
4875757--4876020	137	1.9	137	100	0	528	32	10	26	30	1.91
4876138--4876301	39	4.2	39	93	0	274	24	23	29	23	1.99
4881773--4881815	21	2.0	21	95	0	77	27	18	25	27	1.98
4883230--4883403	96	1.8	96	83	5	235	27	29	17	25	1.98
4884968--4885078	37	3.0	37	94	0	204	35	11	11	41	1.78
4886331--4886374	22	2.0	23	86	4	63	52	0	0	47	1.00
4891400--4891442	18	2.5	17	85	7	59	58	2	0	39	1.11
4893149--4893183	16	2.1	17	89	5	54	45	0	5	48	1.26
4909483--4909600	43	2.8	42	78	10	132	28	24	15	31	1.95
4911219--4911280	19	3.2	19	67	13	54	33	14	33	17	1.90
4911199--4911371	39	4.4	39	87	0	229	33	14	32	19	1.92
4915534--4915648	14	8.2	13	78	1	59	31	14	14	39	1.87
4915542--4915654	28	4.0	28	82	11	142	31	15	13	39	1.85
4915542--4915621	42	1.9	42	81	0	97	31	15	15	38	1.88
4915553--4915661	56	1.9	56	92	0	182	31	15	13	39	1.87
4915748--4915807	30	2.0	30	83	0	75	33	18	20	28	1.96
4918888--4919023	58	2.3	58	88	0	218	30	24	17	27	1.97
4922193--4922256	19	3.2	19	80	13	67	54	4	0	40	1.21
4922205--4922247	18	2.5	17	85	7	59	51	4	0	44	1.22
4922252--4922312	11	5.5	11	78	5	70	68	4	1	24	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4931049--4931085	17	2.2	17	100	0	74	43	0	0	56	0.99
4935415--4935545	49	2.6	50	81	4	158	28	15	29	26	1.96
4956068--4956395	164	2.0	163	90	0	521	39	16	12	31	1.86
4961006--4961051	23	2.0	23	83	8	58	43	19	10	26	1.84
4961799--4962054	58	4.4	58	77	4	250	32	17	17	32	1.94
4961802--4962054	115	2.2	116	91	0	409	32	17	17	32	1.94
4972608--4972689	36	2.3	35	75	8	85	34	20	15	29	1.94
4972998--4973067	14	5.0	14	72	6	61	30	18	15	35	1.92
4972998--4973088	28	3.2	28	76	6	94	30	18	15	35	1.92
4973011--4973099	28	3.2	28	74	15	85	31	19	13	35	1.90
4972998--4973133	56	2.4	56	81	2	148	30	18	14	36	1.91
4973110--4973164	26	2.1	26	86	0	74	25	18	14	41	1.88
4981559--4981656	28	3.5	28	94	1	162	26	13	28	31	1.94
4981559--4981669	28	4.0	27	89	3	125	28	12	26	32	1.93
4981893--4982018	28	4.5	28	92	1	209	26	11	27	33	1.92
4981559--4982247	362	1.9	362	97	0	1315	28	12	25	33	1.92
4990294--4990523	121	1.9	121	99	0	451	25	22	12	40	1.88
4991861--4992085	113	2.0	113	87	1	326	34	22	12	30	1.91
4993081--4993122	12	3.5	12	83	0	57	2	35	26	35	1.70
4997015--4997878	432	2.0	432	99	0	1719	32	20	9	37	1.84
5003572--5003621	26	1.9	26	91	0	82	30	4	16	50	1.63
5003739--5003777	18	2.3	16	86	8	51	69	2	7	20	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5006912--5006943	14	2.3	14	94	0	55	15	21	25	37	1.93
5009557--5009609	27	2.0	27	96	0	97	26	37	22	13	1.91
5022929--5023019	35	2.4	38	78	10	107	51	0	2	46	1.13
5022942--5022992	19	3.0	17	81	13	52	56	0	1	41	1.10
5024464--5024491	4	7.0	4	100	0	56	0	25	0	75	0.81
5027385--5027429	22	2.1	22	83	4	56	22	26	0	51	1.49
5032609--5032644	16	2.2	16	90	0	54	33	11	25	30	1.90
5034904--5035126	79	2.8	78	81	9	256	24	27	22	25	2.00
5034904--5035126	39	5.7	40	84	9	257	24	27	22	25	2.00
5036867--5037051	68	2.7	68	79	4	167	38	20	18	22	1.94
5036868--5037233	69	5.3	69	76	1	241	38	20	18	22	1.93
5036969--5037244	138	2.0	138	80	2	304	36	21	17	24	1.95
5042415--5042457	5	8.2	5	85	10	59	2	16	2	79	0.95
5047642--5047690	24	2.0	24	84	11	64	59	0	30	10	1.31
5054281--5054329	25	2.0	25	88	8	73	44	8	10	36	1.68
5054568--5054643	37	2.1	37	100	0	152	36	15	7	39	1.77
5058129--5058186	18	3.2	17	73	21	55	60	5	5	29	1.40
5059023--5059147	60	2.1	60	96	0	232	37	17	4	40	1.69
5059313--5059404	9	9.7	9	74	14	78	57	1	1	40	1.13
5059312--5059411	20	5.2	19	75	16	98	58	1	1	40	1.12
5059357--5059413	29	2.0	28	82	3	69	56	0	0	43	0.99
5059542--5059592	20	2.5	21	90	9	88	35	0	1	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5059861--5060098	10	23.8	10	66	16	77	32	2	6	58	1.36
5059861--5059919	29	2.1	28	83	3	73	33	1	0	64	1.04
5059973--5060030	21	2.8	21	84	7	66	25	3	8	62	1.40
5060037--5060120	10	8.8	9	76	16	64	35	0	4	59	1.19
5060037--5060083	19	2.4	20	92	3	78	38	0	2	59	1.09
5060038--5060138	29	3.4	29	80	15	118	35	0	4	59	1.19
5062705--5062740	18	2.0	18	88	0	54	50	11	2	36	1.53
5064182--5064244	30	2.1	30	87	0	90	31	19	17	31	1.95
5068063--5068121	31	1.9	31	100	0	118	49	10	8	32	1.67
5068059--5068131	31	2.3	32	85	7	112	52	9	12	26	1.69
5076483--5076566	43	2.0	43	84	13	111	23	17	29	28	1.97
5082399--5082453	28	1.9	29	85	3	76	23	40	21	14	1.90
5086664--5086844	41	4.4	41	80	0	209	24	30	10	33	1.89
5086655--5086844	82	2.3	82	84	0	236	25	30	11	33	1.91
5087590--5087638	15	3.3	15	76	21	57	22	26	28	22	1.99
5087595--5087638	17	2.8	17	80	19	60	25	29	25	20	1.99
5097352--5097450	46	2.1	47	84	1	128	37	9	25	28	1.86
5102174--5102300	49	2.6	49	76	8	136	25	17	30	25	1.97
5103418--5103651	117	2.0	117	96	0	432	29	12	26	30	1.93
5104593--5105987	717	2.0	711	93	2	2384	36	14	19	28	1.92
5106282--5106639	178	2.0	178	98	0	689	41	16	11	30	1.84
5108149--5108188	20	2.0	20	100	0	80	30	5	25	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109818--5109848	9	3.6	9	95	4	55	9	0	16	74	1.07
5110597--5110749	42	3.6	42	77	0	162	28	16	28	26	1.97
5118920--5118945	13	2.0	13	100	0	52	69	0	0	30	0.89
5121821--5122057	130	1.8	130	86	3	343	27	19	17	34	1.95
5133768--5134810	132	7.9	132	74	11	816	28	14	29	26	1.95
5134232--5134273	22	2.0	21	95	4	75	45	14	30	9	1.77
5134188--5134313	66	1.9	66	86	3	182	36	14	27	21	1.92
5134144--5134357	110	1.9	110	88	0	320	33	14	28	23	1.95
5134363--5134401	20	2.0	19	94	0	60	7	15	28	46	1.73
5134319--5134446	64	2.0	63	92	1	211	21	14	29	33	1.93

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