genome.fa.s5.2.7.7.80.10.50.1000.193.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  193  of  208  ( 24913 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)
58820105--58820175	26	2.8	26	82	2	90	35	22	25	16	1.95
58829465--58829514	25	1.9	25	88	8	73	40	8	2	50	1.43
58830072--58830163	41	2.3	40	78	1	94	40	1	7	51	1.38
58832680--58832720	17	2.4	17	87	0	55	46	9	17	26	1.79
58832689--58832722	17	2.0	17	94	0	59	41	8	23	26	1.83
58832936--58832978	14	3.0	14	79	3	50	41	37	6	13	1.72
58836889--58836914	2	13.0	2	100	0	52	50	0	0	50	1.00
58839021--58839066	20	2.3	20	85	7	58	34	6	4	54	1.46
58841035--58841073	21	1.9	21	89	5	62	58	2	2	35	1.25
58841385--58841422	19	2.0	20	89	5	60	60	0	5	34	1.19
58841379--58841449	30	2.4	30	81	11	76	61	0	4	33	1.15
58842330--58842373	22	2.0	21	82	4	52	40	11	0	47	1.39
58843038--58843067	2	15.0	2	100	0	60	50	0	0	50	1.00
58850544--58850626	41	2.0	41	100	0	166	61	7	19	12	1.53
58857578--58857625	21	2.3	21	96	3	89	33	10	16	39	1.83
58859463--58859500	16	2.4	16	90	0	58	44	2	2	50	1.30
58870468--58870504	2	18.5	2	100	0	74	51	0	0	48	1.00
58872212--58872256	24	2.0	24	86	8	67	37	2	0	60	1.09
58873524--58873565	22	2.0	21	81	13	50	54	2	0	42	1.13
58878514--58878551	2	19.0	2	100	0	76	50	0	0	50	1.00
58878702--58878801	50	2.0	49	86	5	139	34	20	26	20	1.96
58878706--58878801	25	3.8	25	75	8	88	34	20	26	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58881006--58881044	19	2.2	19	86	9	55	38	2	2	56	1.27
58886083--58886222	34	4.1	34	83	3	156	31	12	15	40	1.84
58886383--58886464	43	1.9	43	82	0	101	30	23	15	30	1.96
58889874--58889992	60	2.0	60	93	0	202	48	10	9	31	1.68
58889898--58889993	31	3.2	30	70	5	77	46	10	10	32	1.72
58899893--58899982	45	2.0	45	100	0	180	44	4	24	26	1.72
58902589--58902699	53	2.1	53	100	0	222	36	5	7	50	1.53
58906362--58906411	9	5.7	9	79	9	50	26	0	4	70	1.05
58906355--58906412	17	3.4	16	78	19	64	27	0	3	68	1.05
58907828--58907879	2	26.5	2	96	3	97	51	0	0	48	1.00
58908295--58908363	2	34.5	2	100	0	138	50	0	0	49	1.00
58911607--58911674	31	2.3	30	79	5	84	41	13	14	30	1.84
58911749--58911809	29	2.0	29	84	12	79	29	3	21	45	1.67
58914871--58914895	6	4.2	6	100	0	50	0	16	48	36	1.46
58916173--58916227	11	4.9	11	78	12	67	43	1	29	25	1.65
58916085--58916187	40	2.6	40	96	0	188	45	1	22	30	1.63
58916173--58916227	22	2.5	22	85	11	76	43	1	29	25	1.65
58918097--58918145	23	2.1	24	96	3	91	51	4	24	20	1.65
58918153--58918200	23	2.1	23	92	0	78	43	4	25	27	1.72
58919769--58919936	83	2.0	82	83	3	212	29	7	13	49	1.70
58923751--58923935	72	2.6	72	87	1	273	54	15	5	24	1.62
58925067--58925099	15	2.3	15	89	5	50	72	0	24	3	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58930949--58930994	21	2.2	20	84	3	56	45	10	2	41	1.51
58932796--58932853	30	1.9	30	89	0	89	41	3	24	31	1.71
58933065--58933096	13	2.5	13	94	0	55	31	0	12	56	1.37
58933191--58933432	50	4.7	50	85	3	277	27	23	28	20	1.99
58933191--58933440	100	2.4	103	86	5	344	26	23	28	21	1.99
58936941--58936978	18	2.0	19	90	10	60	65	5	0	28	1.14
58939222--58939282	15	4.3	14	78	16	63	42	32	24	0	1.55
58939222--58939294	15	5.3	15	73	15	59	41	35	23	0	1.55
58939323--58939361	18	2.2	18	86	9	53	30	0	43	25	1.55
58939365--58939401	3	12.3	3	88	0	56	29	37	32	0	1.58
58960184--58960237	24	2.2	24	86	0	72	42	0	5	51	1.25
58975272--58975301	10	3.0	10	90	0	51	43	0	0	56	0.99
58977618--58977756	46	3.0	46	87	2	190	29	24	10	35	1.88
58980709--58980775	20	3.1	22	82	10	84	80	5	1	11	0.95
58980721--58980758	14	2.7	14	91	0	58	86	5	0	7	0.69
58980728--58980781	26	2.1	26	83	13	67	81	5	1	11	0.93
58982775--58982819	2	22.5	2	100	0	90	51	0	0	48	1.00
58984032--58984066	2	17.5	2	100	0	70	48	0	0	51	1.00
58988946--58988994	24	2.0	24	96	0	89	32	10	4	53	1.54
58989282--58989332	12	4.2	12	94	0	66	25	7	25	41	1.82
58989290--58989340	4	12.8	4	95	0	84	25	3	25	45	1.71
59002908--59002936	14	2.0	15	93	6	51	75	10	0	13	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59005220--59005262	16	2.7	15	78	7	50	67	2	0	30	1.03
59006389--59006451	32	2.0	32	96	3	119	42	15	9	31	1.79
59007346--59007394	18	2.7	18	79	17	57	77	2	8	12	1.07
59008198--59008541	50	6.9	50	66	5	158	25	21	21	30	1.98
59008191--59008542	100	3.5	100	82	3	431	25	21	21	30	1.99
59008657--59009050	45	8.8	45	85	3	456	31	24	16	27	1.97
59008664--59009062	135	3.0	136	82	6	524	30	24	16	28	1.96
59010113--59010151	17	2.3	17	86	0	51	5	20	0	74	1.01
59010102--59010159	30	1.9	30	86	6	82	3	18	0	77	0.91
59010106--59010155	24	2.2	22	89	7	73	4	18	0	78	0.91
59010122--59010157	17	2.1	17	94	0	63	2	16	0	80	0.83
59010599--59010651	21	2.6	19	79	8	61	11	3	5	79	1.03
59010634--59010668	14	2.5	14	95	0	61	0	0	17	82	0.66
59017922--59018180	45	5.8	45	80	0	259	30	18	18	32	1.95
59017922--59018178	90	2.9	90	80	3	302	31	18	17	32	1.94
59019747--59019797	22	2.2	24	86	10	72	45	5	21	27	1.75
59020095--59020135	19	2.1	20	86	4	57	68	4	7	19	1.32
59020109--59020150	20	2.1	20	82	8	50	66	4	2	26	1.23
59020937--59021024	22	3.9	22	76	10	61	38	17	23	20	1.93
59020959--59021036	25	3.2	25	82	5	90	38	17	24	19	1.93
59023401--59023442	19	2.2	19	87	8	59	71	2	0	26	0.98
59026901--59026925	2	12.5	2	100	0	50	0	52	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59035983--59036065	43	1.9	43	85	0	112	24	18	16	40	1.90
59043576--59043635	26	2.3	26	80	5	68	33	8	21	36	1.84
59043595--59043632	13	2.9	13	88	0	58	28	10	21	39	1.86
59044634--59044663	13	2.3	13	100	0	60	40	43	0	16	1.48
59044804--59044853	9	5.4	9	77	13	57	22	10	26	42	1.84
59047237--59047270	16	2.2	15	89	5	50	55	0	0	44	0.99
59047335--59047393	30	2.0	30	83	6	75	47	10	10	32	1.71
59050634--59050853	107	2.1	107	93	0	377	27	16	18	37	1.92
59059468--59059544	13	5.9	13	77	6	75	31	9	22	37	1.85
59059468--59059544	26	3.0	26	79	7	93	31	9	22	37	1.85
59061594--59061768	72	2.4	71	83	6	235	53	13	6	26	1.64
59062190--59062237	18	2.7	18	96	0	87	39	12	12	35	1.81
59064329--59064367	19	2.1	19	85	0	51	53	20	23	2	1.57
59064339--59064404	31	2.1	31	85	0	87	48	27	19	4	1.68
59064370--59064423	25	2.2	25	86	0	72	48	24	24	3	1.67
59064398--59064446	19	2.5	19	86	3	71	46	20	30	2	1.62
59065439--59065810	120	3.1	119	89	1	552	18	20	29	31	1.96
59079835--59079859	12	2.1	12	100	0	50	24	8	24	44	1.80
59090221--59090376	76	2.1	76	92	2	260	35	9	8	46	1.68
59096507--59096616	38	2.8	39	76	6	107	32	24	19	23	1.97
59096507--59096616	41	2.8	38	78	6	105	32	24	19	23	1.97
59098531--59098594	31	2.1	31	85	5	85	57	4	0	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59098530--59098607	30	2.6	30	82	8	86	57	5	0	37	1.21
59101640--59101757	25	4.8	25	78	3	114	34	22	25	17	1.96
59101640--59101757	50	2.4	50	85	1	148	34	22	25	17	1.96
59104010--59104055	11	3.8	12	76	18	51	65	2	2	30	1.16
59103933--59104058	61	2.1	60	79	11	132	58	3	3	34	1.32
59119552--59119586	18	2.0	17	94	5	61	0	14	0	85	0.59
59119558--59119587	15	1.9	16	93	6	53	0	13	0	86	0.57
59131399--59131446	25	1.9	25	87	8	71	72	6	12	8	1.26
59131400--59131458	25	2.3	26	82	8	68	74	3	13	8	1.17
59131520--59131557	17	2.2	17	86	9	51	39	10	21	28	1.86

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