genome.fa.s9.2.7.7.80.10.50.1000.184.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  184  of  226  ( 27023 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)
58764209--58764631	151	2.8	151	87	7	587	41	4	9	44	1.57
58764588--58764663	30	2.4	32	84	4	102	42	6	5	46	1.52
58765763--58765864	41	2.5	40	82	1	114	38	15	20	25	1.92
58765754--58765882	40	3.2	39	75	6	105	42	17	18	20	1.89
58765939--58766237	41	7.3	40	80	10	261	18	19	31	30	1.96
58765938--58766237	82	3.7	80	79	9	322	18	19	31	30	1.96
58765938--58766237	123	2.4	121	84	10	369	18	19	31	30	1.96
58767099--58767151	21	2.5	22	84	12	74	24	0	41	33	1.55
58766757--58767247	272	1.8	265	85	5	691	29	2	25	42	1.68
58767257--58767291	18	1.9	18	88	0	52	31	0	25	42	1.55
58767661--58767856	83	2.4	83	77	5	200	28	16	19	35	1.93
58767737--58767891	83	1.9	83	81	0	193	29	14	20	36	1.91
58768087--58768124	13	2.8	14	92	8	69	81	5	7	5	0.98
58769129--58769190	12	5.4	12	70	18	60	50	12	0	37	1.41
58769126--58769200	21	3.4	21	65	22	55	48	14	1	36	1.53
58769151--58769376	9	24.9	9	66	22	82	46	17	1	34	1.58
58769126--58769225	33	3.2	32	78	13	109	49	15	1	35	1.51
58769127--58769227	12	9.2	12	68	24	55	49	13	0	35	1.49
58769749--58769802	19	2.9	18	83	10	65	38	1	0	59	1.08
58771545--58771578	16	2.1	16	88	0	50	35	0	2	61	1.11
58771650--58771917	43	6.3	42	83	3	259	25	20	28	25	1.99
58771667--58771910	86	2.8	85	86	1	317	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58771675--58771939	129	2.1	129	83	2	327	27	20	27	24	1.99
58771667--58771939	86	3.2	85	82	8	311	27	20	27	24	1.99
58773458--58773521	23	2.9	23	86	6	96	46	40	1	10	1.48
58775597--58775630	16	2.1	16	94	0	59	47	0	0	52	1.00
58776213--58776246	16	2.1	17	88	5	52	35	0	5	58	1.22
58784211--58784263	24	2.2	24	89	0	79	33	1	9	54	1.43
58786961--58787092	25	5.5	25	69	25	74	59	0	4	36	1.18
58787037--58787092	27	2.1	26	86	3	76	55	0	5	39	1.23
58787035--58787092	26	2.2	25	82	8	71	55	0	5	39	1.22
58787062--58787115	21	2.8	19	83	8	65	61	0	1	37	1.07
58787081--58787146	29	2.3	29	84	5	89	63	1	0	34	1.04
58787099--58787135	19	1.9	19	88	0	56	70	2	0	27	1.01
58787081--58787146	10	6.8	10	70	17	50	63	1	0	34	1.04
58793119--58793162	18	2.4	18	92	0	70	40	45	2	11	1.53
58793203--58793231	6	4.8	6	100	0	58	65	17	0	17	1.27
58793305--58793380	9	8.4	9	88	0	107	25	11	23	39	1.89
58793305--58793380	27	2.8	27	89	0	125	25	11	23	39	1.89
58796255--58796305	23	2.2	23	89	0	75	33	9	13	43	1.77
58817398--58817459	25	2.4	25	91	2	97	22	20	8	48	1.76
58817540--58817829	50	5.7	50	82	6	282	23	29	20	26	1.99
58819163--58819228	31	2.2	30	78	5	71	42	33	7	16	1.77
58819122--58819239	33	3.6	33	77	6	132	42	36	6	14	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58823171--58823285	44	2.6	44	84	9	146	28	27	18	25	1.98
58824588--58824650	33	1.9	33	86	0	90	36	14	31	17	1.90
58825083--58825113	16	1.9	16	93	0	53	45	0	16	38	1.47
58825512--58825702	104	1.8	104	88	0	292	37	19	17	25	1.94
58828384--58828422	18	2.2	17	86	13	53	33	0	20	46	1.51
58828527--58828555	8	3.6	8	100	0	58	24	13	27	34	1.93
58828642--58828717	23	3.3	23	96	0	143	21	21	26	31	1.98
58830562--58830604	17	2.5	17	96	0	77	32	37	11	18	1.87
58835267--58835327	30	2.0	30	100	0	122	45	34	0	19	1.51
58850486--58851173	364	1.9	364	94	0	1225	29	24	27	18	1.98
58857038--58857430	69	5.7	69	80	1	365	37	24	21	17	1.94
58857039--58857430	207	1.9	207	83	1	507	37	24	21	17	1.94
58857420--58857525	53	2.0	53	87	3	151	38	16	21	22	1.93
58858876--58860027	582	2.0	582	91	0	1856	29	26	18	24	1.98
58865006--58865033	7	4.0	7	100	0	56	71	0	0	28	0.86
58866764--58866807	14	3.1	14	93	0	70	22	0	43	34	1.54
58869981--58870067	19	4.5	19	76	11	79	26	1	2	70	1.07
58869983--58870065	20	4.2	19	77	10	69	25	1	2	71	1.06
58870876--58870930	26	2.2	25	87	9	76	34	1	1	61	1.17
58870945--58870999	18	3.1	18	84	10	60	38	0	5	56	1.23
58870951--58870999	19	2.7	18	84	9	55	34	0	6	59	1.22
58880660--58880706	17	2.7	17	75	15	51	14	27	0	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58882768--58882843	30	2.6	29	83	6	100	59	0	2	38	1.12
58882828--58882860	9	3.7	9	95	0	57	66	0	3	30	1.06
58882828--58882869	19	2.3	18	87	4	57	66	0	4	28	1.12
58883172--58883267	27	3.6	25	78	16	79	33	1	2	63	1.13
58883171--58883291	9	13.8	9	71	17	69	30	0	2	66	1.11
58883221--58883279	10	6.0	10	78	9	59	30	0	3	66	1.08
58883172--58883291	8	13.8	8	69	17	55	30	0	2	66	1.10
58883414--58883632	89	2.4	90	81	7	255	36	9	18	36	1.83
58884911--58885436	286	1.8	289	81	7	658	35	15	11	38	1.83
58894232--58894275	11	3.9	11	82	5	52	34	0	2	63	1.07
58895974--58896119	57	2.5	57	85	8	188	29	21	26	21	1.99
58896184--58896318	67	2.0	67	92	0	225	21	17	32	28	1.96
58905514--58905587	36	2.1	36	100	0	148	41	13	21	22	1.88
58908727--58908801	29	2.6	29	91	6	118	29	6	2	61	1.35
58908843--58908914	16	4.5	16	67	23	53	20	0	15	63	1.30
58911205--58911245	6	6.8	6	82	0	55	21	43	31	2	1.66
58911215--58911249	18	1.9	18	100	0	70	25	40	28	5	1.78
58911804--58911904	48	2.1	48	90	1	159	52	11	5	29	1.62
58916593--58916672	27	3.0	26	90	5	133	27	32	23	16	1.96
58916651--58916787	42	3.5	42	75	17	166	32	26	18	22	1.97
58916649--58916824	75	2.3	75	93	0	298	32	26	19	22	1.97
58934315--58934417	41	2.5	41	90	3	154	26	23	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58934639--58934758	37	3.2	37	70	17	111	38	20	5	36	1.74
58936058--58936087	13	2.4	12	89	10	51	43	23	3	30	1.70
58938590--58938695	42	2.5	43	84	3	142	33	26	16	23	1.96
58938625--58938818	43	4.6	43	75	8	164	32	27	14	25	1.94
58944267--58944316	26	1.9	26	91	4	75	56	0	0	44	0.99
58944439--58944469	16	1.9	16	100	0	62	58	9	6	25	1.54
58944598--58945013	119	3.5	120	92	2	685	42	2	4	49	1.38
58944719--58944753	18	2.0	17	88	5	52	45	0	0	54	0.99
58944842--58944897	15	3.8	15	81	13	64	44	0	1	53	1.11
58944851--58944897	16	3.0	16	78	12	53	46	0	2	51	1.13
58945156--58945244	44	2.0	44	85	8	119	34	28	5	31	1.80
58945225--58945270	16	2.9	16	90	3	76	19	32	6	41	1.77
58947976--58948033	27	2.1	28	87	3	82	31	8	25	34	1.86
58952557--58952614	27	2.1	28	87	3	82	29	5	25	39	1.77
58952562--58952620	27	2.1	28	84	3	75	30	5	25	38	1.77
58954081--58954121	21	1.9	22	90	5	66	36	36	2	24	1.69
58954086--58954143	21	2.8	21	81	7	64	39	37	0	22	1.54
58954137--58954173	15	2.5	15	83	16	51	45	29	0	24	1.53
58954190--58954248	14	4.2	14	77	0	55	44	30	0	25	1.55
58954534--58954709	74	2.3	76	85	5	232	27	20	19	32	1.97
58955426--58955469	22	2.0	21	83	12	54	40	0	0	59	0.98
58967572--58967610	17	2.4	16	83	8	51	2	10	0	87	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58968629--58968684	17	3.3	16	76	18	60	75	0	3	21	0.96
58968621--58968681	12	5.6	11	83	11	65	73	0	4	21	1.01
58983693--58983934	43	5.8	43	78	12	227	24	29	17	28	1.98
58983766--58983836	37	1.9	37	91	0	115	15	26	23	33	1.95
58983724--58983878	80	2.0	78	85	5	213	21	28	20	29	1.98
58983701--58983921	122	1.8	122	84	5	304	23	28	18	28	1.98
58984207--58984293	43	2.0	43	81	0	102	42	10	12	34	1.77
58987950--58987989	21	1.9	21	89	0	62	45	37	0	17	1.49
58987971--58988119	7	21.1	7	76	6	79	47	26	1	24	1.60
58987981--58988042	21	3.0	22	92	4	94	46	27	0	25	1.53

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226