genome.fa.s23.2.7.7.80.10.50.1000.164.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  164  of  167  ( 19959 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)
54392824--54393200	50	7.5	50	90	0	585	26	21	15	36	1.93
54392851--54393200	100	3.5	100	99	0	684	27	21	15	36	1.93
54395345--54395515	93	1.8	93	93	0	297	28	28	21	22	1.99
54395340--54395512	46	3.7	46	78	13	201	29	27	20	22	1.99
54398321--54398414	6	15.3	6	71	16	68	50	18	14	17	1.79
54398305--54398361	24	2.4	24	87	0	78	50	15	14	19	1.77
54398335--54398414	31	2.6	31	91	0	124	50	18	15	16	1.79
54398534--54398626	27	3.5	26	86	5	123	38	21	21	18	1.93
54398534--54398641	27	4.0	27	83	5	78	38	21	22	17	1.93
54398534--54398641	54	2.0	53	81	1	126	38	21	22	17	1.93
54399179--54399241	27	2.4	27	74	12	67	38	25	19	17	1.93
54399223--54399542	27	11.9	27	90	2	484	24	20	20	35	1.96
54399535--54399703	27	6.3	27	75	8	130	31	8	21	38	1.83
54399696--54399819	27	4.6	27	82	1	133	31	8	21	38	1.83
54399588--54399826	54	4.5	53	79	5	230	31	8	21	38	1.84
54399615--54399819	107	1.9	107	83	4	261	32	8	20	39	1.82
54399743--54399835	26	3.5	25	74	10	78	34	7	20	37	1.81
54402866--54403333	3	157.3	3	69	11	191	61	2	6	29	1.34
54403116--54403229	34	3.2	36	72	17	105	68	0	6	24	1.18
54403169--54403217	25	2.0	25	84	8	64	69	2	6	22	1.21
54413825--54413889	30	2.2	30	91	0	103	24	4	13	56	1.56
54417521--54417566	14	3.1	16	78	15	53	15	4	15	65	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54418687--54418731	22	2.0	22	83	12	56	35	6	20	37	1.79
54432393--54432485	45	2.1	45	83	0	114	16	24	36	22	1.94
54433314--54433355	20	2.1	20	90	0	66	33	11	4	50	1.60
54440373--54440426	19	2.7	19	81	13	56	57	1	0	40	1.09
54457903--54457958	6	9.7	6	82	5	62	19	1	0	78	0.84
54458168--54458208	16	2.5	16	96	4	73	19	12	7	60	1.54
54459802--54459871	30	2.3	30	80	0	77	25	34	28	11	1.91
54459821--54459889	30	2.3	30	92	0	111	18	36	31	13	1.89
54463032--54463147	29	4.0	29	77	8	112	26	28	15	29	1.96
54469576--54469613	19	2.0	19	94	0	67	31	18	21	28	1.97
54475114--54475146	12	2.8	12	90	0	57	9	18	48	24	1.76
54476704--54476728	13	1.9	13	100	0	50	36	0	8	56	1.29
54478190--54478253	21	3.1	21	72	4	76	31	25	32	10	1.90
54478184--54478272	41	2.2	41	89	4	135	34	22	30	12	1.91
54478684--54478744	31	2.0	30	96	0	104	18	31	29	19	1.95
54478725--54478837	43	2.6	43	88	0	163	15	30	30	23	1.95
54479568--54479612	20	2.2	20	92	0	72	64	6	0	28	1.19
54482683--54482717	18	1.9	18	88	0	52	68	0	0	31	0.90
54484354--54484396	11	3.8	11	79	14	52	2	16	2	79	0.95
54484352--54484390	18	2.1	19	86	13	55	2	15	2	79	0.95
54484362--54484405	22	2.0	23	90	4	72	4	20	0	75	0.98
54484363--54484412	22	2.3	22	86	6	66	4	22	0	74	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54491373--54491480	26	4.2	26	93	0	189	32	7	24	36	1.83
54494475--54494526	26	2.0	26	100	0	104	19	42	11	26	1.85
54499106--54499345	10	25.4	9	67	19	82	62	5	1	31	1.26
54499106--54499193	18	5.0	18	71	18	53	65	1	2	30	1.12
54499122--54499201	28	2.9	29	83	10	96	65	2	1	31	1.14
54499107--54499203	27	3.6	27	80	13	101	65	2	2	29	1.15
54499858--54499917	24	2.5	24	81	10	68	33	1	3	61	1.22
54500316--54500350	17	2.1	17	94	0	61	37	20	5	37	1.76
54506100--54506141	22	1.9	22	90	0	66	38	2	16	42	1.61
54513067--54513114	5	9.0	5	82	8	51	16	2	0	81	0.79
54513065--54513120	23	2.4	23	88	8	78	21	1	0	76	0.87
54513070--54513110	14	2.9	15	82	10	50	14	2	0	82	0.76
54513076--54513109	17	1.9	17	94	5	59	17	0	0	82	0.67
54515960--54515999	18	2.3	17	83	8	53	15	40	25	20	1.90
54516672--54516781	26	4.2	26	96	0	193	32	5	25	36	1.79
54523268--54523301	16	2.2	16	89	5	52	52	8	5	32	1.56
54531287--54531369	41	2.0	41	100	0	166	24	21	9	44	1.82
54537094--54537163	35	2.0	35	88	2	106	34	12	21	31	1.91
54542399--54542455	28	2.0	28	100	0	114	31	0	14	54	1.40
54543706--54543982	36	7.7	36	83	0	295	38	16	12	31	1.86
54543706--54543988	108	2.6	107	85	1	352	39	16	12	31	1.86
54544890--54544920	14	2.2	14	94	0	53	41	12	3	41	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54545371--54545418	9	5.1	10	76	20	50	35	0	2	62	1.07
54545361--54545427	27	2.4	27	83	13	84	29	1	1	67	1.09
54545361--54545509	30	5.2	28	72	15	76	30	1	2	65	1.14
54545407--54545470	31	2.0	32	82	8	78	25	0	3	71	1.00
54545346--54545496	29	5.4	27	70	20	80	29	1	2	65	1.17
54545504--54545553	27	1.9	25	84	15	66	32	2	0	66	1.03
54547495--54547531	3	12.3	3	100	0	74	32	0	0	67	0.91
54569794--54570023	37	6.0	37	85	9	293	26	22	15	36	1.93
54569940--54570208	46	5.6	46	84	10	322	29	22	13	34	1.92
54569983--54570202	52	4.3	52	86	8	308	29	22	12	35	1.91
54569940--54570208	98	2.7	98	91	0	439	29	22	13	34	1.92
54585462--54585685	48	4.7	48	76	10	185	27	20	29	23	1.99
54585467--54585781	141	2.2	140	82	8	370	27	18	28	25	1.98
54586073--54586118	19	2.4	19	88	0	65	21	8	23	45	1.80
54590504--54590588	44	1.9	44	92	0	143	31	10	17	40	1.84
54590505--54590579	21	3.5	21	71	20	64	29	10	17	42	1.83
54592195--54592250	21	2.6	21	94	2	94	39	19	17	23	1.92
54593188--54593221	17	2.0	18	88	11	54	50	0	8	41	1.34
54594755--54594821	29	2.3	29	89	5	100	37	13	25	23	1.92
54594755--54595060	60	5.1	61	71	13	210	39	13	25	22	1.90
54594839--54595030	90	2.1	90	84	3	244	39	12	26	21	1.89
54594755--54595062	30	10.4	30	73	11	172	39	12	25	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54599332--54599436	40	2.6	40	93	0	183	21	19	28	30	1.97
54599291--54599456	40	4.2	40	80	3	129	25	21	24	28	1.99
54600929--54601187	40	6.5	40	90	2	389	27	25	22	25	2.00
54600929--54601187	119	2.2	120	90	2	407	27	25	22	25	2.00
54604845--54604908	18	3.3	18	70	19	56	29	6	7	56	1.52
54604836--54604919	41	2.0	41	93	0	141	27	10	8	53	1.64
54605012--54605136	62	2.0	62	98	0	241	31	14	10	44	1.79
54612861--54612923	25	2.5	24	89	5	90	31	28	17	22	1.96
54613340--54613440	43	2.4	43	94	1	177	41	25	1	30	1.67
54616694--54616862	79	2.1	79	82	3	205	26	20	27	26	1.99
54616638--54616860	40	5.6	39	80	8	200	26	21	26	25	1.99
54623610--54623646	12	3.0	13	80	11	51	64	0	21	13	1.27
54625705--54625783	40	2.0	40	80	14	92	18	27	16	36	1.93
54631277--54631331	23	2.4	23	84	9	76	70	5	3	20	1.22
54631277--54631331	11	4.8	12	80	10	62	70	5	3	20	1.22
54632234--54632303	21	3.3	20	82	11	79	78	2	17	1	0.94
54632245--54632303	5	11.4	5	77	16	59	79	1	16	1	0.89
54632249--54632297	27	1.9	25	84	12	64	79	2	16	2	0.92
54632245--54632304	15	3.9	16	82	10	72	78	1	18	1	0.92
54632349--54632379	12	2.6	12	100	0	62	45	12	16	25	1.83
54632382--54632463	30	2.7	31	79	5	96	64	1	20	13	1.34
54635216--54635391	88	2.0	88	96	0	325	40	15	19	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54637155--54637198	21	2.1	21	83	8	54	63	2	9	25	1.35
54644949--54645073	5	24.0	5	71	26	75	0	19	4	75	1.03
54644967--54645067	20	5.7	20	68	25	91	0	19	4	75	0.99
54644973--54645084	34	3.3	34	84	10	167	0	18	5	75	0.98
54645984--54646036	11	4.7	11	88	2	79	18	1	5	73	1.12
54648506--54648550	14	3.3	14	84	6	65	37	0	13	48	1.42
54649715--54649758	10	4.0	11	85	11	63	75	6	2	15	1.12
54649718--54649764	11	4.3	11	81	7	60	80	6	2	10	0.96
54649718--54649759	12	3.7	12	90	6	61	80	4	2	11	0.95
54649739--54649772	17	1.9	18	88	5	52	76	5	5	11	1.14

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