genome.fa.s23.2.7.7.80.10.50.1000.12.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  12  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)
3941817--3941897	40	2.0	40	100	0	162	29	17	14	38	1.90
3943744--3943834	36	2.5	36	80	7	112	36	9	9	43	1.71
3943726--3943836	18	6.2	18	77	6	91	35	11	10	42	1.76
3944010--3944036	6	4.5	6	100	0	54	48	14	18	18	1.82
3944162--3944201	20	2.0	20	90	9	64	40	12	5	42	1.64
3944169--3944218	15	3.0	15	83	16	55	40	14	2	44	1.56
3945254--3945321	16	4.1	16	70	21	50	45	5	1	47	1.36
3951273--3951313	8	4.8	9	81	6	50	21	2	0	75	0.92
3951284--3951315	8	4.0	8	91	0	55	28	0	0	71	0.86
3951285--3951316	16	2.0	16	100	0	64	31	0	0	68	0.90
3954663--3954695	14	2.3	15	89	5	50	45	0	0	54	0.99
3955516--3955558	15	2.8	15	78	3	50	65	2	0	32	1.06
3960409--3960443	18	2.0	17	88	5	52	45	0	0	54	0.99
3960397--3960668	144	1.9	147	94	3	487	47	2	3	46	1.34
3960553--3960587	18	2.0	17	88	5	52	45	0	0	54	0.99
3960749--3960843	45	2.1	45	88	1	138	32	27	5	34	1.79
3960822--3960854	16	2.1	16	94	0	57	30	36	0	33	1.58
3960835--3960877	21	2.0	21	95	0	77	34	37	0	27	1.57
3961120--3961176	28	2.0	29	83	10	73	66	3	1	28	1.18
3973601--3973626	2	13.0	2	100	0	52	50	0	0	50	1.00
3983270--3983317	16	3.1	15	90	6	69	64	2	2	31	1.16
3983266--3983321	24	2.3	24	81	6	69	66	1	1	30	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3983266--3983317	8	6.5	8	82	8	61	65	1	1	30	1.14
3983559--3983694	25	5.6	25	68	17	72	56	3	5	34	1.39
3983480--3983629	25	5.6	27	71	12	96	54	5	8	32	1.52
3984183--3984315	30	4.7	30	74	16	140	24	3	48	24	1.65
3984203--3984305	51	2.0	51	90	0	161	26	1	48	23	1.61
3984218--3984325	51	2.1	51	79	5	121	31	2	44	21	1.66
3992604--3992679	38	2.0	38	97	0	143	34	11	28	25	1.91
3994685--3994729	17	2.8	16	83	6	54	42	20	13	24	1.87
3995587--3995637	26	2.0	26	84	3	68	64	3	0	31	1.11
3995599--3995647	26	2.0	24	88	8	71	63	6	0	30	1.19
3997518--3998585	534	2.0	534	99	0	2118	18	23	27	31	1.97
4002583--4002721	71	2.0	71	95	0	251	28	12	28	29	1.94
4003449--4003509	16	3.9	16	78	4	61	55	14	0	29	1.40
4003449--4003492	15	2.9	15	79	3	52	56	11	0	31	1.35
4004914--4004955	15	2.9	15	78	3	50	71	2	2	23	1.10
4011658--4011697	19	2.1	19	90	0	62	32	27	12	27	1.93
4011630--4011726	47	2.0	48	88	2	142	31	22	17	27	1.97
4019065--4019125	25	2.3	25	76	15	61	59	3	4	32	1.35
4019079--4019129	25	2.1	24	85	10	68	56	3	7	31	1.46
4019065--4019139	28	2.8	26	73	20	66	56	4	6	33	1.44
4019483--4019552	27	2.6	26	77	20	65	64	0	5	30	1.17
4019628--4019661	15	2.3	15	90	5	52	64	0	5	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4021486--4021622	67	2.0	67	87	0	193	54	2	8	35	1.45
4040841--4040873	17	2.0	17	94	5	59	36	15	0	48	1.45
4041154--4041523	46	8.0	46	92	1	510	21	24	14	40	1.90
4051284--4051321	19	2.0	19	100	0	76	36	10	15	36	1.82
4061397--4061423	14	1.9	14	100	0	54	25	0	0	74	0.83
4061392--4061425	14	2.3	15	85	10	52	23	0	0	76	0.79
4070929--4070957	15	1.9	15	100	0	58	13	34	17	34	1.89
4071312--4071470	85	1.9	85	93	0	273	25	18	15	40	1.89
4071958--4071982	13	1.9	13	100	0	50	48	16	0	36	1.46
4078672--4078724	26	2.0	26	100	0	106	37	11	15	35	1.83
4082681--4082709	15	1.9	15	100	0	58	13	34	17	34	1.89
4083239--4083290	27	1.9	27	96	0	95	44	3	19	32	1.69
4083447--4083480	12	2.8	12	90	0	50	26	0	2	70	1.01
4089786--4089850	19	2.9	23	84	13	75	67	6	0	26	1.13
4092178--4092202	11	2.3	11	100	0	50	44	0	0	56	0.99
4094978--4095014	19	1.9	19	88	0	56	70	0	2	27	1.01
4098320--4098361	18	2.3	18	87	0	57	69	7	2	21	1.25
4099286--4099352	31	2.2	31	97	0	125	22	19	5	52	1.67
4100871--4100916	23	2.0	23	95	0	83	28	8	23	39	1.84
4105444--4105469	11	2.4	11	100	0	52	26	26	19	26	1.99
4106207--4106283	30	2.6	28	78	11	82	49	1	7	41	1.40
4109133--4109176	22	2.0	22	100	0	88	45	4	22	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109229--4109366	69	2.0	69	95	0	249	36	13	23	26	1.91
4113135--4113168	16	2.1	16	88	0	50	70	0	2	26	1.01
4118334--4118401	26	2.4	29	79	15	72	39	0	4	55	1.20
4128136--4128162	7	3.9	7	100	0	54	0	0	25	74	0.83
4130852--4130890	18	2.2	17	86	13	53	33	0	20	46	1.51
4131116--4131213	23	4.3	23	90	2	162	20	21	26	31	1.98
4131118--4131206	45	2.0	45	95	0	160	19	22	26	31	1.97
4142063--4142102	20	2.0	21	85	5	55	27	12	2	57	1.48
4141992--4142107	3	38.7	3	71	10	76	28	9	1	60	1.38
4142270--4142316	15	3.3	15	77	17	55	23	6	2	68	1.24
4142258--4142316	27	2.2	27	81	0	64	27	6	1	64	1.28
4142247--4142295	21	2.3	21	78	0	62	28	6	0	65	1.16
4142270--4142322	27	2.0	27	92	0	88	22	5	1	69	1.19
4142386--4142451	18	3.6	18	82	13	73	31	7	1	59	1.35
4142540--4142577	15	2.5	15	86	0	58	34	5	0	60	1.19
4159264--4159308	21	2.2	20	84	4	54	42	15	0	42	1.47
4161650--4161682	16	2.0	17	88	5	50	63	0	12	24	1.28
4164474--4164521	16	3.1	15	90	6	69	64	2	2	31	1.16
4164470--4164525	24	2.3	24	81	6	69	66	1	1	30	1.12
4164470--4164521	8	6.5	8	82	8	61	65	1	1	30	1.14
4164673--4164737	25	2.8	24	83	6	80	52	6	7	33	1.55
4164763--4164819	25	2.3	25	84	0	69	59	1	3	35	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4164750--4164823	31	2.6	27	76	14	76	60	2	2	33	1.25
4164853--4164898	25	1.9	25	86	8	69	60	0	4	34	1.16
4165380--4165515	30	4.5	30	88	1	177	21	3	47	27	1.67
4166084--4166128	14	3.3	14	90	3	65	66	4	11	17	1.38
4166119--4166328	73	2.9	72	86	5	289	30	23	20	25	1.99
4166256--4166618	89	4.1	89	93	0	582	34	19	18	27	1.95
4166187--4166759	178	3.4	169	85	8	749	32	21	19	27	1.97
4166523--4166695	75	2.3	76	86	2	240	32	19	17	30	1.95
4166675--4166709	14	2.5	14	100	0	70	57	5	20	17	1.60
4180280--4180344	25	2.7	25	88	6	91	52	4	7	35	1.51
4180274--4180446	25	6.6	26	71	12	88	57	2	6	33	1.39
4180365--4180498	25	5.6	25	71	11	93	58	2	3	35	1.28
4180974--4181108	30	4.5	30	87	1	166	21	4	48	25	1.69
4181450--4181527	33	2.4	32	80	4	102	37	2	0	60	1.11
4183982--4184260	46	6.1	46	93	0	434	22	22	15	39	1.91
4188539--4188587	18	2.7	18	78	9	55	18	4	8	69	1.30
4195238--4195262	9	2.8	9	100	0	50	0	0	12	88	0.53
4195922--4195951	14	2.1	14	100	0	60	26	6	0	66	1.16
4200777--4200823	3	16.0	3	88	4	69	68	0	2	29	1.02
4202943--4203119	86	2.0	87	91	1	284	26	23	23	27	2.00
4202974--4203115	44	3.3	43	68	18	114	28	22	24	24	2.00
4210051--4210094	19	2.3	20	84	7	56	40	11	20	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4222317--4222341	10	2.5	10	100	0	50	0	8	8	84	0.79
4222340--4222370	11	2.7	11	95	5	53	25	0	3	70	1.02
4224117--4224179	18	3.5	18	80	0	72	39	11	11	38	1.76
4224233--4224294	32	1.9	32	100	0	124	40	35	16	8	1.78
4225141--4225185	19	2.4	19	84	0	54	11	15	0	73	1.10
4225336--4225368	13	2.4	14	95	5	59	57	0	0	42	0.98
4225332--4225416	34	2.3	38	73	20	92	51	2	0	45	1.13
4225338--4225381	22	2.0	22	82	8	54	56	2	0	40	1.11
4225355--4225408	18	2.9	18	81	10	56	51	3	0	44	1.19
4234333--4234378	23	2.0	23	100	0	92	17	13	17	52	1.75

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