genome.fa.s23.2.7.7.80.10.50.1000.17.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  17  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)
5127347--5127387	17	2.2	20	87	12	61	58	0	14	26	1.37
5127457--5127495	5	7.2	5	83	16	51	56	0	17	25	1.41
5127480--5127517	18	2.1	19	85	5	51	44	0	23	31	1.54
5127541--5127610	32	2.1	32	86	5	95	64	2	14	18	1.41
5127541--5127610	16	4.2	16	80	8	79	64	2	14	18	1.41
5127541--5127620	17	4.6	17	73	17	67	62	2	13	21	1.43
5127541--5127620	16	4.6	18	77	13	69	62	2	13	21	1.43
5127616--5127648	6	5.8	6	89	10	52	54	0	27	18	1.44
5130213--5130540	91	3.7	89	81	4	390	51	14	7	26	1.68
5130697--5130903	112	1.8	112	81	6	258	31	20	17	29	1.96
5140606--5140652	23	2.0	25	87	8	71	57	17	4	21	1.56
5142601--5142649	24	2.0	24	96	0	89	42	6	16	34	1.73
5144368--5144438	37	1.9	37	97	0	133	29	14	30	25	1.94
5145355--5145403	21	2.3	22	79	13	57	51	0	2	46	1.12
5157645--5157677	3	11.0	3	93	0	57	30	33	0	36	1.58
5157634--5157694	9	6.8	9	80	12	63	22	34	1	40	1.64
5162751--5162865	62	1.9	60	84	8	153	48	2	2	46	1.30
5162843--5162900	17	3.5	17	77	17	77	48	1	0	50	1.11
5162872--5162917	19	2.6	18	79	6	58	56	0	0	43	0.99
5166971--5167290	133	2.4	133	91	1	509	31	21	17	29	1.96
5167185--5168090	266	3.4	260	86	6	1103	27	22	20	29	1.98
5167282--5168090	133	6.1	133	90	2	1167	27	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5167282--5168090	399	2.0	400	90	1	1284	27	22	20	29	1.98
5167700--5167951	44	5.7	43	68	15	129	28	23	19	28	1.98
5169542--5169582	6	7.3	6	84	13	52	2	9	0	87	0.62
5169542--5169582	11	3.8	11	87	3	57	2	9	0	87	0.62
5170076--5170129	28	2.0	27	82	7	65	0	16	11	72	1.12
5174436--5174488	27	2.0	25	82	7	61	66	7	15	11	1.44
5174806--5174874	16	4.3	16	90	0	111	37	7	33	21	1.81
5174854--5174943	45	2.0	44	93	6	155	26	4	31	37	1.76
5174854--5174959	45	2.5	43	85	13	141	29	3	31	35	1.75
5175102--5175257	17	10.5	15	65	30	61	54	2	1	41	1.22
5175107--5175140	17	2.0	17	100	0	68	58	0	0	41	0.98
5175224--5175257	17	2.0	17	100	0	68	58	0	0	41	0.98
5175087--5175459	117	3.3	116	92	5	586	51	3	1	43	1.29
5175290--5175329	20	2.0	21	85	5	55	60	5	0	35	1.19
5175297--5175376	28	2.8	28	81	11	92	56	1	0	42	1.07
5175191--5175409	43	5.3	41	68	23	131	51	4	1	42	1.29
5175419--5175482	32	2.0	32	81	0	74	48	3	0	48	1.17
5179207--5179313	53	2.0	54	98	1	207	58	14	20	5	1.56
5182306--5182448	67	2.1	67	98	0	277	48	10	14	25	1.76
5185410--5185558	48	2.9	51	73	17	132	51	3	3	41	1.35
5188206--5188249	20	2.2	20	88	4	63	34	0	0	65	0.93
5188292--5188374	25	3.2	25	78	13	80	55	3	2	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5197321--5197399	40	2.0	40	97	0	149	41	0	16	41	1.48
5197321--5197381	20	3.2	18	65	17	50	44	0	16	39	1.48
5197559--5197703	75	1.9	75	86	5	195	22	20	22	33	1.97
5212185--5212224	17	2.6	15	88	11	55	65	0	5	30	1.14
5212232--5212310	4	20.0	4	70	21	51	70	1	24	3	1.11
5212237--5212306	30	2.5	28	84	11	90	71	1	24	2	1.08
5216560--5216698	3	45.0	3	72	14	79	62	2	5	30	1.28
5220632--5220767	49	2.8	48	76	6	148	26	29	19	25	1.98
5226621--5226693	26	2.8	26	87	2	94	38	16	5	39	1.72
5230494--5230522	13	2.1	14	93	6	51	17	6	0	75	1.01
5232964--5233041	31	2.5	31	89	0	111	20	11	16	51	1.75
5236839--5236895	28	2.0	28	83	6	71	50	3	0	45	1.18
5238285--5238417	56	2.3	57	83	8	173	40	0	3	54	1.23
5238366--5238431	27	2.4	28	75	12	66	42	0	3	54	1.15
5238379--5238435	25	2.2	26	84	6	71	42	0	3	54	1.17
5238439--5238507	27	2.3	32	80	14	85	53	0	0	46	1.00
5244883--5244907	7	3.6	7	100	0	50	0	44	0	56	0.99
5245621--5245663	21	2.0	21	82	8	52	53	2	2	41	1.26
5246153--5246210	22	2.6	22	94	0	98	29	55	3	12	1.53
5250066--5250142	38	2.0	38	100	0	154	32	18	15	33	1.92
5252452--5252484	15	2.3	15	89	5	50	72	12	0	15	1.12
5253283--5253328	24	1.9	24	86	0	65	23	4	2	69	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253290--5253328	12	3.2	13	86	13	57	23	5	0	71	1.05
5253394--5253433	3	13.3	3	100	0	80	32	0	0	67	0.91
5254504--5254544	11	3.7	11	80	0	55	19	14	9	56	1.66
5255166--5255226	30	2.0	30	90	0	95	26	6	11	55	1.59
5255306--5255345	18	2.2	18	86	8	55	17	0	15	67	1.23
5255347--5255380	12	2.8	12	90	0	50	67	0	0	32	0.91
5260466--5260695	78	2.9	78	93	1	381	30	22	14	32	1.94
5260660--5260797	40	3.5	40	84	0	168	36	22	11	29	1.90
5266570--5266794	46	4.9	46	88	0	306	40	13	24	22	1.90
5267075--5267107	17	2.0	17	94	5	59	48	0	15	36	1.45
5268870--5268913	9	5.1	9	84	15	58	43	0	31	25	1.55
5269576--5269613	7	5.1	7	90	9	58	81	2	0	15	0.80
5271353--5271384	2	16.0	2	100	0	64	0	50	0	50	1.00
5279220--5279458	88	2.8	86	81	5	225	31	12	13	43	1.81
5279289--5279451	88	1.9	87	90	1	263	30	11	14	43	1.81
5281662--5281714	23	2.2	23	83	6	61	54	3	5	35	1.42
5282036--5282069	3	11.3	3	100	0	68	67	0	0	32	0.91
5284750--5284783	16	2.1	16	94	0	59	35	5	11	47	1.65
5289414--5289443	7	4.1	7	91	8	51	86	0	13	0	0.57
5292923--5292967	17	2.9	16	78	21	51	57	0	0	42	0.98
5296425--5296462	7	5.7	7	84	9	53	44	26	2	26	1.67
5296420--5296468	14	3.6	14	76	17	59	44	26	2	26	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296665--5296743	39	2.0	39	85	4	106	56	10	1	31	1.40
5298792--5298836	6	7.3	6	80	5	54	46	0	0	53	1.00
5298799--5298877	24	3.7	23	76	19	89	40	1	2	55	1.21
5298776--5298840	18	3.6	18	81	4	76	47	0	0	52	1.00
5303217--5303280	29	2.2	29	86	2	85	64	4	4	26	1.33
5311485--5312597	558	2.0	558	95	0	2023	30	15	22	31	1.95
5314259--5314306	21	2.3	22	89	7	73	66	2	2	29	1.14
5319587--5319621	18	1.9	18	94	0	61	28	22	17	31	1.96
5321427--5321500	36	2.1	36	86	0	103	29	24	20	25	1.99
5322242--5322415	42	4.1	43	87	0	226	31	28	18	21	1.97
5323061--5324043	23	43.0	23	68	12	373	37	24	6	32	1.79
5323492--5323794	131	2.3	133	86	5	407	37	24	5	32	1.78
5323237--5324043	46	17.7	46	72	11	536	38	24	5	31	1.78
5323629--5323873	91	2.7	91	89	1	357	36	24	6	32	1.82
5323738--5324022	142	2.0	143	90	0	455	38	24	6	30	1.80
5323902--5323958	22	2.5	23	77	2	62	45	24	1	28	1.63
5324068--5324124	7	8.4	7	88	7	73	17	0	40	42	1.49
5326546--5326642	41	2.4	41	81	6	99	41	22	14	21	1.89
5327012--5327067	28	2.0	28	89	6	87	48	23	0	28	1.51
5327004--5327045	21	1.9	23	85	9	61	45	26	0	28	1.54
5327042--5327087	21	2.2	21	84	0	56	52	21	0	26	1.47
5327239--5327319	38	2.2	36	84	8	101	25	2	25	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5334070--5334180	40	2.8	40	78	4	109	37	16	18	27	1.92
5336614--5336744	46	2.8	48	78	14	157	21	19	29	29	1.98
5340587--5340643	25	2.2	25	84	3	69	10	40	14	35	1.80
5341199--5341260	23	2.7	23	87	2	90	46	1	9	41	1.46
5341943--5342063	9	13.6	9	77	5	111	47	17	0	34	1.54
5341953--5342000	17	2.8	17	83	3	60	50	10	2	37	1.49
5342121--5342152	7	4.6	7	100	0	64	31	12	15	40	1.85
5347793--5347881	21	4.2	21	80	7	90	20	1	29	49	1.56
5347790--5348024	7	33.0	7	71	9	73	22	1	28	46	1.60
5347815--5348055	64	3.6	63	77	13	218	23	0	27	47	1.57

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