genome.fa.s8.2.7.7.80.10.50.1000.139.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  139  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)
45070501--45070543	21	2.0	21	86	0	59	44	46	6	2	1.43
45070717--45070772	15	3.7	15	73	4	51	35	33	26	3	1.74
45070720--45070775	21	2.7	21	82	0	67	35	33	26	3	1.74
45071248--45071447	3	66.7	3	73	5	118	34	30	26	9	1.88
45071250--45071342	36	2.6	36	91	0	150	34	30	26	8	1.86
45071250--45071373	36	3.3	36	84	9	149	33	29	27	9	1.88
45072668--45072694	6	4.5	6	100	0	54	33	0	48	18	1.49
45083490--45083514	1	25.0	1	100	0	50	100	0	0	0	0.00
45083880--45083927	22	2.1	24	92	7	82	33	14	8	43	1.75
45087200--45087261	29	2.1	30	85	8	83	59	3	4	32	1.34
45099718--45099765	21	2.3	21	92	0	78	22	16	14	45	1.84
45103711--45103743	17	1.9	17	93	0	57	6	12	15	66	1.42
45121365--45121410	23	2.0	22	88	12	67	30	0	4	65	1.12
45134796--45134863	21	3.4	21	72	12	70	41	5	4	48	1.47
45134787--45134865	39	2.0	39	95	0	140	41	6	3	48	1.47
45136390--45136425	13	2.8	14	84	16	51	27	25	0	47	1.52
45136377--45136417	18	2.2	19	87	12	59	29	24	0	46	1.53
45136540--45136674	39	3.4	38	73	8	101	28	28	20	23	1.99
45136914--45136952	18	2.1	19	90	4	62	48	10	0	41	1.37
45138273--45138313	12	3.5	12	90	6	66	56	0	0	43	0.99
45139990--45140056	13	5.2	13	83	1	82	50	0	7	41	1.30
45140263--45140347	33	2.8	30	78	15	86	50	1	1	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45146797--45146821	12	2.1	12	100	0	50	64	0	16	20	1.30
45149531--45149577	6	7.8	6	95	0	85	51	31	0	17	1.46
45158446--45158491	16	2.9	15	81	9	56	34	4	6	54	1.46
45168190--45168222	17	1.9	17	93	0	57	66	15	12	6	1.42
45170240--45170275	2	18.0	2	100	0	72	50	0	50	0	1.00
45173425--45173468	5	9.2	5	81	18	58	40	0	0	59	0.98
45173426--45173468	19	2.3	19	92	8	70	41	0	0	58	0.98
45173478--45173519	15	2.7	15	88	3	57	73	2	19	4	1.12
45173569--45173596	4	7.0	4	100	0	56	75	0	25	0	0.81
45174082--45174139	30	1.9	30	89	0	89	41	3	24	31	1.71
45174351--45174382	13	2.5	13	94	0	55	31	0	12	56	1.37
45174484--45174718	50	4.6	50	84	4	283	26	24	28	20	1.99
45174484--45174726	100	2.3	104	87	6	343	25	24	28	20	1.99
45177295--45177333	18	2.2	18	85	0	51	25	2	0	71	0.98
45179347--45179377	2	15.5	2	100	0	62	51	0	48	0	1.00
45188012--45188062	26	2.0	26	92	0	84	33	11	11	43	1.78
45202960--45202999	21	1.9	21	94	0	71	55	10	12	22	1.67
45221341--45221413	23	3.4	22	76	14	71	35	1	0	63	1.04
45221290--45221375	41	2.0	43	82	12	108	38	6	1	53	1.36
45221351--45221492	17	7.7	18	67	22	82	35	3	0	60	1.14
45221351--45221493	10	14.6	9	70	20	76	35	3	0	60	1.14
45221419--45221485	35	2.0	34	82	5	82	35	4	0	59	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45221419--45221493	26	2.8	25	74	9	69	34	4	0	61	1.15
45221545--45221604	31	1.9	31	90	6	95	56	10	1	31	1.42
45225408--45225441	7	4.7	7	85	7	50	26	32	14	26	1.95
45228452--45228523	36	2.0	36	97	0	135	18	34	19	27	1.95
45230665--45230764	50	2.0	50	94	0	173	46	25	6	23	1.75
45235058--45235332	137	2.0	138	91	3	448	48	13	14	24	1.79
45239194--45239254	15	4.0	15	79	10	61	65	3	0	31	1.09
45239194--45239246	23	2.3	23	80	6	63	66	1	0	32	1.03
45246401--45246430	16	1.9	15	93	6	51	86	10	3	0	0.67
45250941--45250979	7	5.4	7	90	3	60	0	0	12	87	0.55
45251520--45251564	19	2.3	20	84	3	56	60	4	2	33	1.29
45251834--45251877	14	3.1	14	96	0	79	54	0	18	27	1.44
45252698--45252728	16	2.0	16	93	6	55	48	0	0	51	1.00
45254561--45254842	41	6.9	41	86	1	307	35	24	15	24	1.94
45254561--45254854	82	3.6	81	82	2	338	35	25	16	23	1.95
45254561--45254854	122	2.4	123	78	7	337	35	25	16	23	1.95
45255877--45255985	54	2.0	54	98	0	209	42	11	9	36	1.74
45260874--45260923	23	2.2	23	100	0	100	34	16	16	34	1.90
45261046--45261480	241	1.8	241	95	0	789	34	18	13	33	1.90
45261600--45261736	9	14.6	9	78	8	130	46	21	0	30	1.57
45261611--45261703	48	1.9	48	95	0	168	45	22	0	32	1.53
45261613--45261721	48	2.3	46	87	7	150	45	23	0	29	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45267738--45267870	43	3.1	41	86	6	167	25	27	21	25	2.00
45268693--45268743	25	2.1	24	85	7	68	47	3	1	47	1.32
45270317--45270371	28	2.0	26	86	6	74	49	1	5	43	1.36
45270488--45270539	25	2.0	26	88	3	79	59	0	1	38	1.08
45270488--45270543	26	2.2	26	87	6	78	57	0	1	41	1.09
45275056--45275082	7	3.9	7	100	0	54	55	0	0	44	0.99
45276065--45276099	18	1.9	18	88	0	52	22	17	14	45	1.84
45279034--45279224	47	3.9	47	82	5	186	24	16	28	30	1.97
45279072--45279242	93	1.8	93	82	6	211	24	15	28	31	1.96
45288060--45288085	3	8.7	3	100	0	52	34	0	0	65	0.93
45290907--45291017	47	2.4	47	78	6	127	36	21	15	27	1.93
45292480--45292531	26	2.1	25	85	7	70	73	3	0	23	1.00
45298446--45298544	50	2.0	49	97	0	180	32	18	31	17	1.93
45298964--45299012	24	2.1	23	88	3	71	40	4	2	53	1.32
45307874--45307913	21	1.9	21	84	0	53	5	15	2	77	1.04
45313969--45314075	53	2.0	54	94	1	189	14	13	20	51	1.76
45314190--45314309	60	2.0	60	98	0	231	40	10	22	27	1.86
45314199--45314295	30	3.2	32	61	21	80	39	10	20	29	1.86
45320528--45320555	14	2.0	14	100	0	56	42	14	14	28	1.84
45324091--45324143	22	2.4	22	100	0	106	37	9	3	49	1.53
45328901--45329023	62	2.0	62	91	0	201	43	21	6	27	1.77
45329178--45329220	10	4.4	10	82	11	54	58	2	0	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45335323--45335394	13	5.5	13	85	6	101	29	9	23	37	1.87
45339827--45339871	21	2.1	21	84	8	56	44	0	6	48	1.29
45341065--45341127	31	2.0	31	81	6	74	4	44	0	50	1.23
45348333--45348458	63	2.0	63	98	0	243	38	16	15	29	1.90
45357599--45357665	17	4.0	16	78	14	64	46	1	2	49	1.26
45357685--45357748	17	3.6	17	76	14	67	45	3	0	51	1.17
45357772--45357853	9	9.8	9	70	18	61	53	1	1	43	1.16
45357776--45357854	39	2.0	39	90	4	124	55	1	1	41	1.16
45357772--45357861	17	4.9	17	75	20	74	53	1	1	44	1.15
45357843--45357966	63	2.0	63	88	4	187	43	4	3	49	1.37
45357943--45357976	17	2.0	17	100	0	68	41	0	0	58	0.98
45357946--45358016	36	2.0	35	83	5	90	47	0	1	50	1.09
45358033--45358092	13	4.7	13	75	19	54	50	0	0	50	1.00
45358149--45358182	17	2.0	17	100	0	68	58	0	0	41	0.98
45358159--45358282	63	2.0	63	88	4	187	49	3	4	43	1.37
45358267--45358353	17	4.7	17	72	20	68	45	1	1	51	1.16
45358271--45358349	39	2.0	39	90	4	124	41	1	1	55	1.16
45358272--45358353	9	9.8	9	70	18	61	43	1	1	53	1.16
45358377--45358526	17	8.6	17	67	19	78	49	2	4	43	1.37
45358367--45358440	9	8.3	9	75	10	55	51	0	2	45	1.15
45358463--45358527	35	1.9	33	84	12	87	47	3	1	47	1.27
45358864--45358899	17	2.2	17	90	5	56	41	2	0	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45359065--45359132	34	2.0	35	88	8	104	39	0	1	58	1.07
45359019--45359132	17	6.1	18	72	18	90	42	0	1	54	1.16
45359194--45359232	19	2.0	20	85	5	53	38	5	0	56	1.22
45361828--45361857	6	5.0	6	95	0	51	46	0	33	20	1.51
45364952--45364996	20	2.2	20	100	0	90	35	17	13	33	1.89
45372836--45372884	23	2.1	23	88	7	73	65	12	6	16	1.45
45377813--45377857	22	2.0	23	87	12	67	33	2	6	57	1.37
45384477--45384519	21	2.0	21	86	8	61	53	2	0	44	1.13
45384576--45384634	27	2.1	28	84	9	77	49	0	1	49	1.11
45384907--45385151	20	12.2	20	72	15	132	43	13	6	37	1.68

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