genome.fa.s8.2.7.7.80.10.50.1000.153.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  153  of  190  ( 22705 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)
44639532--44639580	25	2.0	25	87	0	71	20	22	20	36	1.95
44640239--44640295	23	2.5	23	100	0	114	36	7	14	42	1.72
44644000--44644278	51	5.5	50	75	6	240	24	17	26	31	1.97
44644050--44644280	51	4.5	51	78	11	242	23	17	27	31	1.97
44643995--44644280	101	2.8	101	91	1	448	24	17	26	31	1.97
44644202--44644282	26	3.2	26	66	22	62	23	14	28	33	1.94
44644290--44644416	43	3.0	42	76	14	152	23	18	23	33	1.97
44651442--44651502	18	3.4	18	73	13	72	36	9	18	36	1.84
44651440--44651509	35	2.0	35	100	0	140	34	11	17	37	1.85
44651893--44651967	24	3.0	25	78	5	73	24	16	14	45	1.84
44654854--44654893	20	2.1	18	86	9	53	45	5	0	50	1.23
44655353--44655399	23	2.0	23	100	0	94	40	29	4	25	1.75
44662176--44662202	2	13.5	2	100	0	54	48	0	0	51	1.00
44662760--44662810	4	12.8	4	100	0	102	49	25	0	25	1.51
44664834--44664881	25	1.9	25	95	0	87	41	10	10	37	1.74
44664840--44664896	25	2.3	25	81	6	71	45	14	10	29	1.78
44674280--44674307	9	3.1	9	100	0	56	57	10	0	32	1.33
44674250--44674450	59	3.1	68	84	13	307	45	8	4	40	1.57
44674439--44674480	16	2.6	16	92	0	66	42	7	2	47	1.43
44674454--44674515	23	2.7	23	82	2	72	48	1	1	48	1.21
44679475--44679499	2	12.5	2	100	0	50	48	0	0	52	1.00
44679620--44679775	41	3.8	41	94	0	258	23	29	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44683638--44683697	29	2.1	29	90	0	93	33	28	5	33	1.79
44684332--44684392	20	3.0	20	76	7	61	39	1	4	54	1.32
44687328--44687404	29	2.6	29	83	4	91	48	14	11	25	1.78
44687465--44687505	19	2.2	19	100	0	82	24	14	14	46	1.82
44687874--44687935	31	2.0	31	96	0	115	27	29	25	17	1.98
44691229--44691340	48	2.3	48	93	0	188	35	7	7	50	1.57
44691278--44691445	62	2.7	61	88	1	246	35	5	8	50	1.57
44691771--44691922	62	2.4	62	81	8	155	26	9	39	24	1.85
44693885--44693937	27	2.0	28	82	10	67	71	9	1	16	1.21
44696523--44696621	41	2.4	41	91	1	155	24	25	11	39	1.88
44698092--44698154	31	2.0	32	84	3	83	11	33	31	23	1.90
44701003--44701062	27	2.2	26	85	8	84	30	21	31	16	1.96
44701012--44701068	27	2.1	27	96	0	105	31	24	28	15	1.96
44701782--44701866	40	2.1	40	80	4	91	48	10	2	38	1.51
44702253--44702286	16	2.1	17	89	10	54	5	2	20	70	1.21
44702298--44702362	28	2.4	27	81	2	76	49	4	10	35	1.58
44704313--44704389	35	2.2	35	97	0	145	40	3	10	45	1.57
44706939--44707014	37	2.1	37	100	0	152	36	15	15	31	1.90
44716592--44716643	24	2.2	24	85	0	68	40	1	7	50	1.42
44721015--44721066	24	2.2	24	85	0	68	38	3	7	50	1.50
44722024--44722174	58	2.6	59	80	3	169	41	15	17	25	1.89
44727921--44727976	26	2.1	27	86	3	78	39	3	5	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44736421--44736478	28	2.1	27	83	3	71	65	0	0	34	0.93
44737131--44737221	35	2.7	33	77	12	96	31	1	1	65	1.06
44738140--44738223	40	2.2	37	81	16	91	30	3	7	58	1.42
44738199--44738237	18	2.0	20	85	9	55	20	5	10	64	1.44
44738598--44738629	5	6.4	5	100	0	64	62	0	0	37	0.95
44738614--44738711	43	2.2	44	80	5	108	45	3	5	45	1.40
44745617--44745668	24	2.2	24	85	0	68	34	5	9	50	1.59
44751808--44751860	25	2.2	24	86	3	70	35	24	24	15	1.94
44752166--44752191	12	2.2	12	100	0	52	42	23	0	34	1.54
44753341--44753409	30	2.3	30	92	0	111	27	34	17	20	1.95
44753517--44753566	25	2.1	23	82	14	57	56	26	4	14	1.56
44755776--44755877	47	2.2	47	90	0	159	31	13	21	33	1.92
44758141--44758172	16	1.9	16	93	6	55	71	0	0	28	0.86
44759919--44760059	11	12.8	11	68	23	75	53	2	2	42	1.25
44759920--44760037	16	7.1	16	69	18	71	52	1	2	43	1.25
44760749--44760788	14	2.9	14	84	0	53	32	7	17	42	1.77
44760772--44760811	20	2.0	20	90	0	62	27	10	12	50	1.72
44760757--44760823	34	1.9	35	90	3	109	31	8	13	46	1.74
44760751--44760827	14	5.0	15	71	20	52	32	9	15	42	1.78
44760802--44760889	33	2.7	32	75	15	90	26	10	19	44	1.82
44760969--44760994	11	2.4	11	100	0	52	53	19	7	19	1.68
44763332--44763379	25	2.0	24	87	4	69	75	10	8	6	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44767369--44767568	41	4.9	41	90	3	314	16	18	28	37	1.92
44767369--44767593	82	2.7	80	86	6	283	15	19	28	37	1.91
44767373--44767633	123	2.1	123	83	6	316	17	19	25	37	1.93
44768006--44768083	16	5.0	16	70	16	65	25	1	23	50	1.57
44768010--44768090	23	3.5	23	72	22	80	23	1	25	49	1.58
44768101--44768141	22	1.9	21	85	14	57	19	0	24	56	1.42
44772256--44772313	29	2.0	29	100	0	116	31	24	3	41	1.71
44777902--44777989	43	2.0	43	97	0	167	26	19	26	28	1.99
44784808--44784918	40	2.8	40	87	1	152	31	22	25	20	1.98
44785399--44785493	49	1.9	50	80	4	113	20	0	31	48	1.50
44785453--44785499	14	3.3	15	82	8	62	25	0	29	44	1.54
44787076--44787320	122	2.0	122	91	1	402	32	21	16	29	1.95
44789160--44789190	15	2.0	16	93	6	55	51	0	6	41	1.27
44789208--44789420	43	5.0	43	83	3	243	25	17	29	27	1.98
44789208--44789420	85	2.5	84	84	6	268	25	17	29	27	1.98
44789750--44789789	14	2.9	14	84	0	53	32	7	17	42	1.77
44789772--44789811	20	2.0	20	85	0	53	32	12	12	42	1.80
44789759--44789824	35	1.9	34	90	3	105	31	10	15	42	1.81
44790963--44791007	18	2.5	18	100	0	90	42	0	57	0	0.98
44791260--44791289	15	1.9	16	93	6	53	43	0	0	56	0.99
44793369--44793397	2	14.5	2	100	0	58	51	0	0	48	1.00
44796090--44796128	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44807849--44807891	22	2.0	22	90	0	68	18	11	11	58	1.63
44819226--44819273	24	2.0	24	87	0	69	41	18	27	12	1.86
44819307--44819366	26	2.3	25	86	8	84	36	21	26	15	1.93
44823728--44823772	23	2.0	23	81	0	54	22	0	15	62	1.33
44826124--44826165	21	2.0	21	85	0	57	35	16	2	45	1.61
44828683--44828754	29	2.5	29	95	0	126	26	12	18	43	1.85
44837385--44837506	23	5.3	23	94	0	199	21	21	27	30	1.98
44853022--44853063	22	1.9	22	85	0	57	52	4	11	30	1.59
44855243--44855288	23	2.1	22	88	8	67	52	0	4	43	1.21
44856208--44856261	23	2.4	23	84	3	65	22	27	18	31	1.97
44859473--44859765	50	5.8	50	90	0	442	20	30	22	26	1.98
44863477--44863616	46	3.0	45	84	4	172	35	18	7	39	1.78
44872375--44872419	21	2.0	23	83	8	58	28	2	4	64	1.25
44876757--44876906	72	2.1	72	86	2	203	22	21	24	32	1.98
44877849--44877891	14	3.1	14	90	3	61	18	2	30	48	1.60
44877852--44877897	21	2.2	20	85	11	58	17	2	32	47	1.60
44878485--44878724	115	2.1	116	88	1	367	29	18	20	32	1.96
44878586--44879115	261	2.0	260	91	3	861	27	17	20	33	1.96
44879748--44879791	21	2.1	21	100	0	88	38	13	13	34	1.84
44881359--44881643	34	8.1	34	75	7	255	33	9	3	53	1.52
44881359--44881595	68	3.5	68	94	1	395	33	9	3	53	1.49
44881536--44881633	43	2.3	43	94	0	169	31	7	5	56	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44881618--44881676	23	2.4	25	83	11	86	33	6	1	57	1.35
44881854--44882005	18	8.4	18	72	8	87	50	12	3	32	1.58
44881860--44881980	9	13.4	9	74	10	113	48	15	3	32	1.61
44881874--44882030	27	5.6	27	73	12	138	50	12	4	32	1.60
44881978--44882014	14	2.7	14	95	4	67	56	0	8	35	1.29
44882175--44882291	42	2.7	42	85	5	146	29	23	22	25	1.99
44882962--44883005	22	2.0	22	86	8	63	0	29	0	70	0.88
44885360--44885445	22	3.9	22	87	0	118	29	25	13	31	1.94
44894820--44894919	23	4.3	22	72	20	62	53	2	4	41	1.31
44895015--44895061	25	1.9	25	86	4	69	42	4	0	53	1.20

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