genome.fa.s25.2.7.7.80.10.50.1000.125.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  125  of  297  ( 35593 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)
43926252--43926293	15	2.7	16	82	14	52	45	0	2	52	1.13
43926243--43926284	15	2.9	15	82	10	52	47	0	0	52	1.00
43926419--43926528	45	2.6	43	79	11	120	32	29	5	32	1.80
43926509--43926608	16	6.2	16	91	0	164	35	36	0	29	1.58
43929300--43929329	11	2.7	11	94	0	51	56	3	0	40	1.16
43929344--43929403	9	6.0	10	73	13	52	55	3	0	41	1.16
43929555--43929593	20	2.0	20	84	0	51	64	0	7	28	1.21
43929662--43929751	23	3.7	23	80	14	101	61	4	3	31	1.32
43929645--43929751	25	4.3	25	76	18	100	58	4	5	30	1.41
43929851--43929876	3	8.7	3	100	0	52	65	0	0	34	0.93
43929927--43929975	3	17.0	3	79	8	57	65	2	2	30	1.15
43929927--43929962	17	2.1	17	94	0	63	66	0	0	33	0.92
43930077--43930323	3	81.7	3	67	18	95	62	4	6	26	1.38
43934466--43934494	11	2.6	11	100	0	58	27	0	0	72	0.85
43934616--43934674	31	1.9	31	92	0	100	55	11	5	27	1.56
43935158--43935206	22	2.3	20	83	13	62	53	4	0	42	1.20
43936142--43936229	28	3.0	28	80	6	86	48	10	11	29	1.72
43937831--43937857	6	4.5	6	100	0	54	14	0	37	48	1.45
43943337--43943383	21	2.4	19	80	16	51	23	4	14	57	1.55
43943922--43943966	21	2.2	21	84	11	58	33	4	2	60	1.29
43944059--43944103	22	2.0	22	83	8	56	26	8	4	60	1.46
43947978--43948038	32	1.9	31	83	12	79	39	13	3	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43948816--43948851	15	2.3	16	90	4	56	44	11	0	44	1.39
43949998--43950048	18	2.8	18	72	16	52	62	5	0	31	1.19
43950065--43950097	3	10.7	3	93	6	57	66	0	0	33	0.92
43950003--43950093	35	2.5	35	80	8	85	60	6	1	31	1.29
43955571--43955626	20	2.7	19	78	10	58	58	1	3	35	1.26
43955571--43955617	19	2.5	19	86	6	60	63	2	4	29	1.25
43965123--43965150	6	4.7	6	100	0	56	67	32	0	0	0.91
43967280--43967352	19	3.8	19	80	3	83	10	20	21	46	1.81
43967274--43967364	39	2.3	39	96	0	164	10	21	23	43	1.84
43967274--43967418	20	7.2	20	72	7	107	11	22	22	43	1.85
43967349--43967418	21	3.4	20	71	13	61	11	22	22	42	1.85
43967691--43967757	21	3.2	21	64	19	59	38	2	14	43	1.61
43967685--43967766	41	2.0	41	100	0	164	39	2	14	43	1.59
43969856--43969881	13	2.0	13	100	0	52	84	0	0	15	0.62
43974578--43974602	12	2.1	12	100	0	50	84	0	0	16	0.63
43975717--43975742	13	2.0	13	100	0	52	15	23	23	38	1.92
43981681--43981751	25	2.8	26	80	4	83	39	15	23	21	1.91
43984220--43984251	8	3.9	8	95	4	55	15	0	0	84	0.63
43987992--43988027	18	2.0	18	100	0	72	38	5	11	44	1.63
43996199--43996273	20	3.9	19	71	25	59	48	4	0	48	1.20
43998377--43998422	20	2.2	22	88	7	69	45	0	0	54	0.99
43998426--43998472	15	3.3	14	80	11	51	48	0	2	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43998431--43998460	15	1.9	16	93	6	53	56	0	3	40	1.16
43998499--43998555	15	3.5	15	73	17	60	50	1	0	47	1.11
44002469--44002610	43	3.3	43	84	2	189	31	30	15	21	1.95
44002833--44002869	18	2.1	18	100	0	74	51	5	10	32	1.60
44006007--44006036	15	2.0	15	100	0	60	40	13	20	26	1.89
44006707--44006819	7	15.9	7	67	15	54	38	38	0	23	1.55
44006710--44006796	15	6.1	14	70	19	65	37	40	0	21	1.54
44006859--44006931	14	4.8	15	73	14	69	45	27	1	26	1.62
44007095--44007296	41	4.9	41	87	3	282	20	25	22	32	1.98
44011806--44011858	3	17.7	3	100	0	106	67	0	0	32	0.91
44016130--44016163	17	2.1	15	89	10	50	73	2	23	0	0.97
44018601--44018634	17	2.1	15	89	10	50	73	2	23	0	0.97
44029064--44029109	21	2.2	21	100	0	92	39	8	17	34	1.80
44029504--44029574	27	2.6	27	76	8	74	42	1	1	54	1.17
44030051--44030107	25	2.2	26	78	15	64	63	3	5	28	1.33
44030053--44030106	26	2.1	25	83	10	65	62	3	5	27	1.34
44030085--44030126	21	2.0	21	86	9	59	69	0	4	26	1.08
44031920--44031957	18	2.1	18	100	0	76	57	0	0	42	0.98
44033715--44033789	25	3.0	26	73	15	84	26	5	4	64	1.33
44033717--44033838	50	2.4	50	84	4	156	27	8	3	61	1.40
44033798--44033878	26	3.1	26	81	8	85	33	4	2	59	1.32
44033882--44033913	6	5.5	6	92	7	57	12	0	0	87	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44033987--44034115	26	5.0	26	77	11	77	27	5	6	59	1.45
44034005--44034115	26	4.3	26	79	8	109	27	5	5	61	1.40
44042164--44042214	16	3.4	16	73	15	63	62	5	7	23	1.44
44042163--44042223	29	2.1	28	93	3	104	67	4	6	21	1.33
44043041--44043087	19	2.3	20	76	20	53	38	4	17	40	1.69
44043390--44043464	29	2.4	30	78	19	82	42	1	5	50	1.33
44044893--44044989	18	5.4	18	77	0	86	32	12	17	37	1.87
44044878--44044974	36	2.7	36	83	0	95	34	15	17	32	1.91
44044896--44044989	36	2.6	36	79	3	118	34	12	17	36	1.87
44048928--44048973	24	1.9	24	82	8	58	43	13	8	34	1.74
44061928--44061997	28	2.5	28	90	4	106	27	12	27	32	1.93
44064981--44065046	32	2.1	32	97	0	123	34	7	16	40	1.77
44066534--44066614	30	2.7	30	92	0	126	23	24	7	44	1.79
44067538--44067580	17	2.6	16	82	13	52	39	0	0	60	0.97
44068028--44068192	63	2.6	63	99	0	321	30	20	9	40	1.84
44069667--44069965	161	1.9	162	89	0	474	27	16	17	38	1.91
44071108--44071682	162	3.6	162	83	0	675	27	17	17	37	1.92
44073994--44074030	18	2.1	18	89	0	56	51	13	8	27	1.69
44074079--44074170	30	3.0	30	84	7	123	20	43	0	35	1.52
44075763--44075838	30	2.5	31	82	8	102	36	1	2	59	1.20
44082655--44082708	24	2.2	24	100	0	108	31	25	0	42	1.55
44083181--44083271	24	3.5	24	77	21	101	29	28	0	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44083201--44083586	32	12.1	32	95	3	706	30	27	0	40	1.60
44085594--44086262	162	4.1	162	92	0	1014	28	19	16	36	1.93
44095210--44095496	148	1.9	148	91	1	468	28	17	16	38	1.91
44096639--44097053	162	2.5	162	83	1	506	28	17	17	35	1.93
44098090--44098151	26	2.3	27	78	13	67	66	0	8	25	1.19
44099330--44099355	13	2.0	13	100	0	52	7	0	30	61	1.24
44100146--44100931	216	3.7	201	81	10	517	33	20	16	28	1.95
44100321--44101088	72	10.5	72	92	3	1088	32	19	16	31	1.94
44114096--44114121	13	2.0	13	100	0	52	7	0	30	61	1.24
44115557--44115669	56	2.0	57	94	1	201	23	13	32	30	1.93
44116936--44116990	27	2.0	27	96	0	101	58	9	14	18	1.62
44117126--44117266	12	11.3	12	68	12	61	56	0	12	30	1.41
44117528--44117580	25	2.1	26	86	10	74	60	3	1	33	1.26
44117582--44117625	20	2.2	20	100	0	88	65	0	0	34	0.93
44117605--44117699	28	3.1	28	63	23	66	57	5	2	34	1.33
44117952--44117994	22	2.0	22	86	9	61	62	0	4	32	1.15
44118056--44118092	19	1.9	19	94	0	65	48	10	18	21	1.78
44120141--44120206	13	5.1	13	74	7	62	39	25	4	30	1.76
44122046--44122125	41	2.0	41	90	7	128	31	22	18	27	1.97
44122378--44122423	18	2.6	17	90	10	74	41	13	10	34	1.79
44130775--44130814	20	2.0	20	90	0	62	47	2	0	50	1.14
44134518--44134575	26	2.2	26	93	0	98	36	24	5	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44135485--44135542	15	3.7	15	80	8	71	39	5	3	51	1.41
44135476--44135614	32	4.1	32	72	13	134	43	6	4	46	1.49
44135476--44135528	17	3.2	17	76	10	65	45	5	1	47	1.37
44135476--44135614	55	2.7	49	74	16	163	43	6	4	46	1.49
44135562--44135600	17	2.3	17	100	0	78	53	5	0	41	1.23
44135607--44135640	14	2.6	13	90	9	52	47	0	0	52	1.00
44136261--44136318	27	2.1	27	83	0	71	70	1	3	24	1.12
44138000--44138051	24	2.2	23	82	6	59	21	7	11	59	1.56
44146426--44146495	35	2.0	35	91	0	113	31	8	5	54	1.54
44159156--44159216	12	5.1	12	78	7	61	14	26	13	45	1.81

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297