genome.fa.s4.2.7.7.80.10.50.1000.11.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  11  of  235  ( 28198 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)
2954092--2954147	18	3.3	18	80	14	73	21	0	53	25	1.46
2954100--2954261	57	2.8	57	80	0	135	22	3	46	27	1.66
2954237--2954279	18	2.4	18	92	0	68	20	0	53	25	1.46
2968937--2969001	34	1.9	34	100	0	130	46	7	10	35	1.68
2971400--2971446	12	4.0	13	71	23	50	57	0	0	42	0.98
2971422--2971467	24	1.9	24	86	0	65	60	0	0	39	0.97
2976934--2977021	45	2.0	45	97	0	167	34	18	25	22	1.96
2977221--2977245	12	2.1	12	100	0	50	68	0	0	32	0.90
2977544--2977579	18	2.0	18	88	0	54	36	0	2	61	1.11
2977675--2977739	33	1.9	35	81	12	82	27	6	3	63	1.33
2986602--2987014	47	8.7	47	95	1	727	29	30	7	32	1.86
2988205--2988229	13	1.9	13	100	0	50	36	16	16	32	1.90
2992610--2992661	10	5.3	9	84	13	52	11	1	3	82	0.88
2992607--2992661	19	2.8	19	83	10	67	12	1	3	81	0.89
2992607--2992662	15	3.5	15	79	16	51	12	1	3	82	0.88
2992686--2992732	3	15.7	3	100	0	94	34	0	0	65	0.93
2992807--2992867	12	5.1	12	76	5	61	21	8	1	68	1.24
2992807--2992881	12	7.1	10	75	14	55	20	6	1	72	1.15
2994525--2994669	33	4.4	33	79	3	141	35	13	20	31	1.90
2994556--2994690	33	4.1	33	83	2	103	32	15	20	31	1.94
2994556--2994690	66	2.1	65	80	4	146	32	15	20	31	1.94
3002102--3002215	33	3.5	33	85	1	140	33	14	21	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3002102--3002248	33	4.5	34	82	2	124	34	14	21	29	1.94
3004718--3004750	16	2.1	16	100	0	66	57	12	24	6	1.57
3006631--3006670	19	2.1	19	86	9	55	25	20	12	42	1.86
3008084--3008250	35	4.6	35	79	8	174	34	23	10	31	1.89
3008079--3008250	75	2.4	73	81	8	199	34	22	11	31	1.89
3016213--3016362	53	2.9	51	86	3	210	44	17	22	16	1.87
3017525--3018362	176	4.7	176	84	2	1057	31	18	23	27	1.97
3018161--3018254	43	2.1	44	84	3	118	35	14	22	27	1.94
3017537--3018362	354	2.3	354	86	1	1134	30	18	23	27	1.97
3023593--3023630	20	1.9	20	89	10	60	86	2	10	0	0.66
3023593--3023630	10	3.9	10	82	3	51	86	2	10	0	0.66
3024518--3024826	45	6.8	45	72	8	180	31	15	20	32	1.94
3024606--3024859	139	1.8	139	87	1	384	33	15	18	32	1.93
3024606--3024780	94	1.8	96	84	4	239	32	15	19	33	1.93
3025163--3025324	45	3.6	45	75	6	150	30	18	22	29	1.97
3027939--3028102	3	54.7	3	66	18	65	30	6	2	60	1.35
3027941--3027986	23	2.0	23	83	8	58	28	6	0	65	1.17
3028104--3028135	17	1.9	16	93	6	55	34	0	12	53	1.39
3028331--3028447	22	5.5	22	77	13	102	34	2	2	60	1.24
3028333--3028452	44	2.8	44	81	8	140	34	2	3	60	1.27
3028625--3028684	27	2.2	28	87	3	86	36	6	5	51	1.50
3031690--3031912	122	1.8	119	81	6	270	36	15	13	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3035888--3035942	19	3.0	18	78	5	65	20	1	3	74	1.06
3044765--3044790	6	4.3	6	100	0	52	15	0	0	84	0.62
3047443--3047482	18	2.4	17	84	15	57	35	0	5	60	1.19
3052953--3053166	118	1.8	118	88	0	329	29	23	15	30	1.96
3053074--3053318	44	5.5	43	78	10	237	29	23	18	28	1.98
3053063--3053317	133	1.9	133	95	0	465	29	23	18	29	1.97
3065198--3065297	3	33.7	3	76	2	94	61	2	7	30	1.34
3066637--3066666	15	2.0	15	93	0	51	0	10	13	76	1.01
3066967--3067005	18	2.1	19	95	4	71	12	0	10	76	1.01
3084369--3084453	22	3.9	22	92	3	127	32	20	23	23	1.97
3084340--3084442	44	2.3	44	86	5	136	35	18	21	24	1.95
3088688--3088801	57	2.0	57	98	0	219	35	20	19	25	1.96
3088868--3089022	52	3.0	52	81	2	177	29	28	16	25	1.97
3089912--3090036	3	41.0	3	71	9	74	32	4	4	57	1.41
3090453--3090539	28	3.2	27	78	12	81	35	4	5	54	1.45
3090469--3090537	26	2.7	25	76	12	68	34	2	7	55	1.43
3102303--3102328	12	2.2	12	100	0	52	69	7	0	23	1.14
3102330--3102373	6	7.2	6	82	14	54	79	0	18	2	0.83
3103459--3103582	64	1.9	64	86	3	178	32	18	13	35	1.90
3103609--3103814	45	4.7	45	65	14	115	26	17	27	28	1.98
3103606--3104443	131	6.4	131	90	1	1227	28	17	26	28	1.97
3104002--3104338	45	7.7	45	65	12	153	28	17	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3107315--3107794	132	3.7	132	87	1	642	26	19	19	33	1.96
3123678--3123710	13	2.6	13	90	4	50	39	0	12	48	1.40
3127013--3127055	22	1.9	23	90	4	70	34	11	39	13	1.82
3131828--3131904	5	14.8	5	75	20	61	18	3	1	76	1.01
3131829--3131904	14	4.9	15	76	14	66	18	3	1	76	1.01
3131826--3131884	6	9.7	6	76	10	57	16	3	1	77	0.98
3134790--3134822	13	2.6	13	90	4	50	39	0	12	48	1.40
3135641--3135681	18	2.2	19	86	4	57	48	4	0	46	1.23
3142103--3142261	27	5.9	27	77	14	132	35	20	23	20	1.96
3142121--3142261	54	2.6	54	86	2	194	36	22	22	18	1.95
3143875--3143982	26	4.2	26	93	0	189	36	24	7	32	1.83
3148209--3148470	39	6.7	40	87	7	337	25	22	27	24	2.00
3157436--3157738	40	7.7	40	90	4	404	25	21	27	25	1.99
3157436--3157771	119	2.8	119	83	7	357	26	21	27	25	1.99
3161418--3161443	13	2.0	13	100	0	52	53	30	0	15	1.42
3162491--3162516	9	2.9	9	100	0	52	80	0	7	11	0.89
3164498--3164605	26	4.2	26	93	0	189	30	6	26	36	1.82
3166092--3166144	26	2.0	25	82	13	63	35	22	15	26	1.93
3168076--3168112	19	2.0	19	89	5	58	40	0	5	54	1.24
3173290--3173360	33	2.2	32	82	9	83	28	5	4	61	1.37
3173321--3173490	25	6.6	26	70	13	118	29	5	4	60	1.41
3173314--3173429	52	2.2	55	80	13	136	31	4	6	57	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3178242--3178295	26	2.1	26	96	0	99	40	18	12	27	1.87
3184329--3184649	44	7.0	44	77	8	246	33	17	19	28	1.95
3184331--3184641	45	6.7	45	77	7	230	33	18	20	28	1.96
3184336--3184680	186	1.9	183	80	5	399	33	18	20	28	1.96
3191973--3192043	33	2.2	32	82	9	83	28	5	4	61	1.37
3192004--3192177	27	6.5	26	75	12	149	29	4	5	59	1.41
3191999--3192147	52	2.8	52	79	14	164	30	4	5	59	1.41
3192103--3192166	30	2.1	30	88	2	92	32	6	3	57	1.39
3192004--3192147	25	5.5	26	77	11	136	30	4	5	59	1.42
3192243--3193194	140	7.0	140	83	6	1023	26	18	23	31	1.98
3192691--3193196	126	3.9	126	79	9	559	27	19	21	31	1.97
3192268--3193194	266	3.4	265	84	4	1016	26	18	23	31	1.98
3193475--3193556	7	11.9	7	74	7	60	18	2	35	43	1.63
3194710--3194792	35	2.4	35	97	0	157	14	43	21	20	1.87
3206404--3206489	35	2.4	35	90	7	138	18	17	18	45	1.86
3206533--3207063	111	4.8	105	75	12	300	26	21	13	37	1.91
3206391--3207109	259	2.8	257	79	9	672	25	20	15	37	1.92
3206392--3207102	38	19.5	35	77	9	509	25	21	15	37	1.92
3207049--3207152	38	2.7	38	84	1	118	25	25	18	31	1.97
3211714--3212142	146	2.9	145	88	4	587	32	13	15	38	1.86
3213624--3213743	41	3.0	40	87	3	116	36	20	22	20	1.95
3213647--3213743	41	2.4	40	94	1	167	38	21	21	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3213817--3213860	21	2.0	22	91	4	72	18	0	38	43	1.50
3213828--3213881	28	1.9	28	85	7	74	20	1	40	37	1.63
3214090--3214133	21	2.1	21	91	0	70	29	2	34	34	1.70
3214447--3214495	15	3.5	15	71	21	52	18	51	0	30	1.47
3214444--3214496	26	2.0	26	96	0	97	20	47	0	32	1.51
3217318--3217347	14	2.2	13	94	5	51	50	0	13	36	1.42
3217418--3217969	183	3.0	183	98	0	1068	27	15	15	42	1.87
3218170--3218198	15	1.9	15	100	0	58	24	6	20	48	1.74
3219024--3219138	30	3.4	30	69	24	95	30	5	2	61	1.31
3218946--3219178	72	3.3	72	96	2	429	29	6	4	60	1.40

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