genome.fa.s20.2.7.7.80.10.50.1000.123.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  123  of  186  ( 22216 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)
40725235--40725334	50	2.0	50	98	0	191	29	16	17	38	1.91
40725698--40725926	114	2.0	114	94	0	404	34	12	14	39	1.83
40725959--40726037	28	2.8	28	88	0	113	32	10	26	30	1.89
40734192--40734238	10	4.7	10	89	7	69	25	8	2	63	1.34
40740571--40740632	10	4.8	13	72	21	51	29	3	0	67	1.06
40740592--40740623	15	2.1	16	88	11	50	37	0	0	62	0.95
40740714--40740886	75	2.3	75	82	3	204	33	33	9	23	1.87
40749070--40749190	45	2.7	45	85	0	161	22	22	15	39	1.91
40766040--40766221	91	2.0	91	98	0	355	24	26	21	27	1.99
40770482--40770789	150	2.1	150	98	0	598	30	23	14	32	1.94
40771568--40771742	27	6.4	27	83	3	172	29	27	15	27	1.96
40781179--40781705	126	4.2	126	89	1	799	27	21	17	33	1.96
40781763--40781989	96	2.3	98	84	5	282	40	16	1	41	1.58
40781983--40782027	15	2.8	17	83	10	67	51	22	0	26	1.49
40788139--40788182	19	2.1	21	84	12	56	34	20	15	29	1.94
40792281--40792314	16	2.1	16	88	0	50	50	14	17	17	1.79
40799824--40800049	112	2.0	112	97	0	425	35	22	14	27	1.93
40802630--40802660	16	1.9	16	93	0	53	29	16	12	41	1.85
40804578--40804618	21	2.0	21	90	0	64	19	29	21	29	1.98
40807416--40807446	16	1.9	16	93	0	53	29	16	12	41	1.85
40809159--40809214	23	2.4	23	93	0	94	46	23	10	19	1.81
40811411--40811458	25	1.9	25	86	0	69	2	37	2	58	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40814115--40814160	19	2.3	20	96	3	85	47	17	10	23	1.79
40814144--40814181	14	2.7	14	87	0	58	39	15	5	39	1.70
40818673--40818727	25	2.2	25	100	0	110	23	25	12	38	1.90
40823518--40823575	20	2.7	22	78	7	57	34	1	29	34	1.68
40824206--40824327	61	2.0	61	81	0	145	30	15	18	36	1.92
40826543--40826598	27	2.1	27	86	0	76	37	12	21	28	1.90
40839262--40839290	5	5.8	5	100	0	58	17	0	0	82	0.66
40842104--40842182	39	2.0	40	80	11	92	51	5	1	41	1.31
40843261--40843331	35	2.0	35	100	0	142	19	14	22	43	1.87
40843734--40843778	22	2.0	22	84	16	58	42	0	11	46	1.39
40846118--40846165	19	2.5	20	83	10	55	56	0	6	37	1.25
40849198--40849226	13	2.1	14	93	6	51	27	3	20	48	1.66
40856678--40856716	15	2.6	15	91	0	69	30	17	20	30	1.96
40860956--40861064	37	2.9	37	95	0	191	26	31	19	22	1.98
40861294--40861464	47	3.6	48	88	4	251	28	28	9	33	1.88
40865570--40865799	48	5.0	48	72	16	198	28	25	19	27	1.98
40866734--40866923	38	4.9	38	85	3	202	31	25	21	22	1.98
40869268--40869293	13	2.0	13	100	0	52	30	0	7	61	1.24
40870669--40870874	40	5.2	40	92	0	333	22	22	25	29	1.99
40878360--40878408	26	1.9	24	84	12	62	24	6	0	69	1.11
40881477--40881654	27	6.6	27	83	3	205	26	15	28	29	1.96
40881478--40881633	82	1.9	81	88	3	233	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40881474--40881654	82	2.2	81	83	2	229	27	15	27	29	1.96
40891887--40892064	27	6.6	27	83	3	205	26	15	28	29	1.96
40891888--40892043	82	1.9	81	88	3	233	26	15	28	29	1.96
40891884--40892064	82	2.2	81	83	2	229	27	15	27	29	1.96
40902124--40902238	27	4.3	26	87	5	149	36	22	23	17	1.95
40902124--40902238	54	2.1	54	90	3	178	36	22	23	17	1.95
40903284--40903445	26	6.2	26	96	0	297	37	25	4	32	1.78
40904411--40904444	14	2.4	14	90	0	50	44	11	29	14	1.81
40904801--40905007	53	3.8	53	76	4	182	37	17	24	20	1.94
40910271--40910477	53	3.8	53	74	8	177	36	18	24	20	1.95
40911174--40911565	198	2.0	198	95	0	712	39	8	16	34	1.80
40913284--40913331	11	4.6	10	82	7	60	68	6	8	16	1.35
40916549--40916627	41	1.9	41	97	0	149	32	18	12	35	1.89
40916549--40916615	22	3.2	22	67	26	63	32	20	11	34	1.90
40918013--40918150	48	2.9	48	90	2	197	26	30	18	24	1.98
40925453--40925522	33	2.1	33	97	0	131	11	38	28	21	1.88
40925453--40925509	20	3.2	20	63	31	56	12	36	31	19	1.89
40927242--40927530	96	3.0	96	80	7	316	28	28	17	25	1.98
40927252--40927519	144	1.8	145	89	6	427	26	29	18	26	1.98
40927245--40927534	48	6.0	47	81	7	253	27	28	17	25	1.98
40929315--40929492	27	6.6	27	84	3	205	29	28	15	26	1.96
40929336--40929491	82	1.9	81	88	3	233	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40934122--40934286	43	3.9	43	83	7	194	33	26	20	20	1.96
40936903--40936948	22	2.1	22	100	0	92	30	32	23	13	1.93
40939793--40939970	27	6.6	27	84	3	205	29	28	15	26	1.96
40939814--40939969	82	1.9	81	88	3	233	29	28	15	26	1.96
40941829--40941879	22	2.3	22	96	0	93	49	27	7	15	1.72
40944154--40944196	16	2.8	15	86	6	59	20	0	2	76	0.89
40944153--40944197	14	3.1	14	82	17	56	24	0	2	73	0.95
40945862--40945911	23	2.2	23	81	0	55	20	28	18	34	1.95
40946019--40946090	25	2.9	25	80	0	81	20	23	19	36	1.95
40959563--40959593	16	1.9	16	93	0	53	41	0	22	35	1.54
40964463--40964496	17	1.9	18	88	5	52	50	5	5	38	1.51
40976494--40976525	7	4.6	7	100	0	64	31	0	53	15	1.43
40982249--40982552	47	6.4	47	91	1	437	27	29	8	34	1.86
40986744--40986799	26	2.2	26	96	0	103	37	26	5	30	1.79
40991571--40992150	290	2.0	290	98	0	1115	37	23	17	21	1.94
40993627--40993724	49	2.0	49	94	2	171	30	25	15	28	1.96
40995680--40995912	128	1.8	128	84	1	324	28	19	16	35	1.93
40997174--40997320	52	2.8	52	91	0	231	17	32	29	20	1.95
40999159--40999196	20	1.9	20	88	0	58	44	15	5	34	1.69
41028142--41028187	24	1.9	24	90	0	74	32	17	19	30	1.95
41028584--41028860	48	5.8	48	96	0	491	34	5	28	31	1.81
41033005--41033082	27	2.9	27	84	3	95	32	14	28	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41037668--41037723	24	2.3	24	81	0	67	16	32	3	48	1.63
41039070--41039177	43	2.5	42	82	5	137	30	15	22	31	1.95
41046628--41046748	42	2.9	41	81	7	145	30	14	24	29	1.95
41046908--41046939	15	2.1	15	100	0	64	18	25	28	28	1.98
41048480--41048739	68	4.0	64	74	15	226	30	16	28	25	1.96
41051017--41051050	17	2.0	17	100	0	68	17	5	47	29	1.71
41060932--41061079	73	2.0	73	100	0	296	52	10	27	9	1.67
41061888--41061970	41	2.0	41	88	4	123	33	2	14	49	1.56
41065443--41065481	17	2.3	17	90	0	60	69	2	2	25	1.14
41065936--41065960	8	3.1	8	100	0	50	76	0	0	24	0.80
41068491--41068567	33	2.3	34	80	11	86	32	2	5	59	1.33
41077947--41078011	27	2.4	27	79	5	69	35	16	24	23	1.95
41078821--41078890	25	2.8	25	91	0	104	27	27	21	24	1.99
41081911--41082023	55	2.1	55	94	0	199	38	16	30	14	1.88
41082680--41082789	56	2.0	56	83	0	139	31	12	13	41	1.82
41085071--41085248	89	2.0	89	95	1	322	34	17	15	32	1.91
41086393--41086487	27	3.5	27	81	5	111	41	22	8	28	1.83
41086492--41086553	27	2.3	27	94	0	106	35	22	6	35	1.80
41086599--41086698	27	3.7	26	83	2	119	40	23	11	26	1.87
41086656--41086797	27	5.3	27	89	0	212	33	19	21	25	1.97
41087196--41087254	6	9.7	6	77	17	59	18	15	16	49	1.80
41095052--41095230	89	2.0	89	89	4	272	34	16	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41097021--41097073	26	2.0	26	96	0	97	30	22	5	41	1.77
41098457--41099341	40	22.1	40	96	1	1530	23	23	27	25	2.00
41106689--41107186	40	12.5	40	94	2	715	23	23	27	25	2.00
41109152--41109223	37	1.9	37	97	0	135	38	16	20	23	1.92
41112899--41112966	34	2.0	34	91	0	109	38	30	20	10	1.86
41113785--41113819	6	5.8	6	86	0	52	17	5	0	77	0.96
41115596--41115722	61	2.1	61	79	5	132	25	29	20	24	1.99
41117488--41117521	18	1.9	18	94	5	61	17	32	23	26	1.97
41121115--41121300	40	4.7	40	84	5	207	26	20	26	26	1.99
41127368--41127463	40	2.5	40	82	3	124	37	36	13	12	1.83

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