genome.fa.s8.2.7.7.80.10.50.1000.129.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  129  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)
41233245--41233287	14	3.1	14	86	0	59	18	6	11	62	1.50
41236753--41236825	30	2.5	30	86	6	96	35	8	5	50	1.55
41236811--41236868	30	2.0	29	86	10	82	39	15	6	37	1.74
41236966--41237012	23	2.0	23	100	0	94	48	12	8	29	1.71
41236973--41237019	23	2.2	21	85	14	62	46	10	8	34	1.69
41238620--41238782	42	3.7	42	86	8	202	28	26	14	29	1.95
41238703--41238869	47	3.5	47	83	9	180	29	27	15	26	1.96
41238882--41238910	7	4.1	7	100	0	58	13	27	13	44	1.82
41238909--41239088	31	5.8	31	95	0	306	25	28	20	26	1.99
41243040--41243124	42	2.0	42	100	0	170	31	32	16	18	1.94
41243053--41243120	22	3.2	22	61	23	54	30	29	20	19	1.97
41244651--41244981	168	2.0	168	89	1	511	25	27	21	25	1.99
41245652--41245720	28	2.5	28	75	11	70	47	5	2	43	1.42
41253595--41253652	3	19.3	3	100	0	116	65	0	0	34	0.93
41257513--41257802	106	2.7	103	82	8	341	26	9	13	50	1.71
41257513--41257810	107	2.8	106	82	8	340	26	9	13	51	1.70
41261081--41261281	106	1.9	105	82	3	251	27	9	12	50	1.71
41261370--41261689	108	3.0	108	83	4	403	23	13	13	49	1.78
41264330--41264393	30	2.0	31	85	11	85	48	6	12	32	1.66
41265615--41265648	13	2.5	13	90	4	50	64	0	5	29	1.17
41267474--41267533	31	1.9	31	83	6	77	28	15	11	45	1.81
41267526--41268029	267	1.9	266	86	1	713	31	15	14	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41280702--41280745	12	3.7	12	81	6	54	75	0	25	0	0.81
41287346--41287515	92	1.9	90	85	2	232	35	11	10	42	1.75
41295841--41295879	20	2.0	20	85	10	53	33	10	7	48	1.66
41296169--41296222	23	2.3	24	96	3	101	38	0	18	42	1.50
41296184--41296233	23	2.2	23	85	3	66	44	2	18	36	1.61
41302357--41302391	3	11.7	3	100	0	70	65	0	0	34	0.93
41304431--41304476	23	2.0	23	100	0	92	43	26	0	30	1.55
41305529--41305604	30	2.5	31	80	8	84	38	11	6	43	1.68
41310563--41310679	16	6.9	17	72	19	59	57	1	4	36	1.29
41326419--41326584	85	2.0	85	98	0	323	25	15	16	42	1.87
41329651--41329681	15	2.0	16	93	6	55	41	0	6	51	1.27
41335413--41335575	88	1.9	88	97	0	308	39	14	26	19	1.90
41338608--41338639	16	2.0	16	93	0	55	40	18	15	25	1.90
41339393--41339434	16	2.7	16	85	3	59	35	0	0	64	0.94
41343912--41343942	14	2.2	14	100	0	62	51	6	6	35	1.53
41352395--41352424	15	2.0	15	93	0	51	30	0	3	66	1.07
41353679--41353730	28	2.0	26	85	11	70	53	0	3	42	1.19
41355802--41355868	31	2.2	31	78	7	75	25	11	14	47	1.79
41363912--41363946	18	1.9	18	88	11	54	11	0	25	62	1.28
41376225--41376283	30	2.0	30	93	0	100	25	11	15	47	1.79
41377337--41377361	13	1.9	13	100	0	50	8	16	0	76	1.02
41382537--41382575	20	1.9	21	89	5	62	53	10	5	30	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41382972--41382996	12	2.1	12	100	0	50	8	56	20	16	1.65
41384192--41384294	51	2.0	53	88	3	156	33	14	20	32	1.93
41400673--41400724	4	13.0	4	87	0	68	28	3	21	46	1.69
41414683--41414817	39	3.4	39	74	11	116	28	27	20	23	1.99
41416381--41416411	5	6.0	5	92	7	53	61	0	0	38	0.96
41416387--41416451	27	2.4	26	75	14	60	53	3	0	43	1.16
41419218--41419482	130	2.0	131	86	0	370	30	18	18	31	1.95
41419621--41419857	130	1.8	130	86	1	332	25	18	21	34	1.96
41423604--41423635	17	1.9	17	93	6	57	37	9	15	37	1.80
41423666--41423710	21	2.0	22	83	8	56	40	11	4	44	1.60
41425845--41425932	35	2.5	35	72	5	90	19	2	34	44	1.63
41426138--41426177	14	2.9	14	92	0	62	42	35	2	20	1.65
41426157--41426211	20	2.8	21	81	10	62	41	38	5	14	1.69
41426205--41426264	6	9.3	6	82	10	66	33	33	16	16	1.92
41426256--41426289	7	4.9	7	96	0	59	38	17	14	29	1.90
41426256--41426296	14	2.9	14	88	0	64	36	17	14	31	1.90
41426475--41426544	27	2.6	27	86	8	97	18	2	32	45	1.64
41426575--41426616	22	1.9	22	85	0	57	50	4	14	30	1.63
41431641--41431732	31	3.0	30	77	6	94	36	11	8	42	1.73
41431680--41431826	31	4.8	31	78	9	133	40	12	5	42	1.65
41431681--41431826	30	4.8	30	76	14	129	40	12	5	41	1.66
41431683--41431837	61	2.6	61	80	10	165	40	14	5	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41439319--41439360	8	5.5	8	83	11	52	50	30	0	19	1.48
41439319--41439360	22	1.9	22	95	0	75	50	30	0	19	1.48
41446544--41446613	36	2.0	35	86	8	97	70	5	4	20	1.26
41450193--41450236	21	2.1	21	91	0	70	29	20	29	20	1.98
41463436--41463474	18	2.1	18	85	4	51	48	2	0	48	1.15
41467520--41467587	34	2.0	35	82	5	86	48	1	0	50	1.10
41468191--41468221	3	10.3	3	100	0	62	32	67	0	0	0.91
41470515--41470552	18	2.1	18	85	9	51	13	15	2	68	1.32
41471616--41471641	12	2.2	12	100	0	52	30	0	23	46	1.53
41476373--41476409	4	9.8	4	85	11	51	48	21	0	29	1.50
41478450--41478543	47	2.0	47	100	0	188	25	10	29	34	1.90
41478366--41478627	131	2.0	131	98	0	506	27	10	28	33	1.90
41478497--41478651	84	1.8	84	100	0	310	27	10	27	34	1.89
41482094--41482188	42	2.3	42	81	0	109	48	11	6	33	1.65
41482877--41482915	3	13.0	3	91	0	51	38	35	25	0	1.56
41482868--41482915	15	3.2	15	81	0	60	37	35	25	2	1.68
41482857--41482916	27	2.2	27	88	5	86	41	35	21	1	1.63
41486768--41486800	6	5.5	6	92	0	57	48	18	3	30	1.63
41487486--41487539	28	1.9	28	92	0	90	35	11	14	38	1.82
41487487--41487547	28	2.2	28	87	0	86	36	9	14	39	1.80
41488295--41488347	22	2.3	24	74	6	56	35	3	18	41	1.69
41500511--41500563	11	4.6	11	76	17	54	32	1	13	52	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41505147--41505224	15	5.2	15	70	11	70	42	7	23	26	1.81
41505141--41505234	30	3.1	30	95	1	161	41	6	25	26	1.79
41509810--41509917	15	7.2	15	69	12	87	43	7	23	25	1.79
41509803--41509917	30	3.8	30	97	0	203	44	6	23	25	1.78
41512359--41512432	34	2.2	34	90	4	114	54	9	9	27	1.63
41512369--41512436	34	2.0	34	100	0	136	50	11	8	29	1.69
41513578--41513602	4	6.2	4	100	0	50	48	0	0	52	1.00
41517090--41517131	20	2.1	20	95	0	75	14	28	40	16	1.88
41530228--41530306	24	3.3	24	68	12	72	21	12	8	56	1.63
41530585--41530610	4	6.5	4	100	0	52	53	0	0	46	1.00
41530833--41530911	31	2.5	31	87	0	104	41	13	21	22	1.89
41540182--41540239	27	2.1	28	93	3	100	46	13	8	31	1.74
41556199--41556239	21	2.0	21	86	9	59	58	0	2	39	1.11
41558946--41559006	31	2.0	30	90	3	95	39	1	8	50	1.42
41559862--41559919	19	3.1	19	87	9	75	56	8	0	34	1.30
41561203--41561259	29	2.0	29	96	0	105	47	5	21	26	1.71
41566894--41566947	23	2.6	19	74	23	54	55	0	0	44	0.99
41566898--41566945	23	2.1	23	92	7	80	58	0	0	41	0.98
41567125--41567165	14	2.9	15	78	10	50	68	9	4	17	1.35
41574090--41574251	56	2.9	56	83	4	193	40	16	16	25	1.89
41575062--41575114	17	3.1	17	74	15	56	22	0	3	73	0.99
41575919--41575945	14	1.9	14	100	0	54	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41576605--41576673	31	2.2	31	84	0	93	43	11	8	36	1.72
41580330--41580381	24	2.2	24	89	0	77	55	9	1	32	1.43
41587467--41587499	6	5.5	6	96	0	57	51	12	33	3	1.54
41588227--41588283	30	1.9	30	82	7	71	35	0	1	63	1.05
41593481--41593518	5	7.6	5	100	0	76	36	0	0	63	0.95
41596599--41596671	28	2.8	26	79	8	85	42	2	21	32	1.67
41602193--41602288	43	2.2	43	88	3	149	30	28	17	23	1.97
41607379--41607446	16	4.2	16	94	0	118	27	0	36	35	1.58
41607427--41607536	45	2.6	41	78	9	116	32	5	29	32	1.80
41607662--41607703	15	2.7	16	82	14	52	52	2	0	45	1.13

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