genome.fa.s9.2.7.7.80.10.50.1000.148.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  148  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)
48780822--48780873	9	5.8	9	80	11	54	0	11	3	84	0.74
48780813--48780884	31	2.4	29	86	6	90	0	13	2	83	0.76
48780816--48780865	15	3.3	15	83	8	66	0	12	2	86	0.67
48780816--48780885	15	4.4	17	77	15	60	0	12	4	82	0.80
48780813--48780884	29	2.4	29	84	11	83	0	13	2	83	0.76
48792461--48792506	24	2.0	23	82	4	56	56	0	0	43	0.99
48801852--48801931	20	3.8	22	73	6	60	40	20	27	12	1.88
48803543--48803599	25	2.3	25	84	6	71	54	10	24	10	1.66
48803565--48803598	10	3.4	10	87	0	50	50	8	29	11	1.69
48804066--48804219	79	1.9	79	82	0	191	40	15	12	31	1.84
48807095--48807149	28	2.0	28	88	0	83	27	23	21	27	1.99
48807511--48807586	27	2.8	27	85	0	80	21	18	22	38	1.94
48807539--48807828	27	10.7	27	80	10	274	20	18	17	42	1.89
48810466--48810582	28	4.2	28	82	4	141	29	21	23	25	1.99
48810999--48811503	27	18.7	27	79	8	485	20	19	17	43	1.88
48816037--48816093	28	2.0	30	86	6	82	47	5	21	26	1.71
48817067--48817667	297	2.0	298	98	0	1177	28	16	19	35	1.93
48824802--48826078	597	2.1	594	92	1	2160	33	16	15	34	1.91
48826670--48826726	28	2.0	28	100	0	114	31	28	15	24	1.96
48828278--48828341	20	3.2	20	77	6	67	50	0	6	43	1.27
48828278--48828330	19	2.7	20	82	2	63	50	0	5	43	1.25
48833780--48833976	98	2.0	98	92	0	331	39	22	9	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48834832--48834888	17	3.2	17	85	12	62	64	0	1	33	1.04
48834848--48834919	17	4.5	17	78	19	75	70	0	1	27	0.95
48834883--48834911	13	2.2	13	100	0	58	72	0	0	27	0.85
48834866--48834934	30	2.3	30	85	5	86	69	1	2	26	1.11
48836278--48836400	44	2.8	44	76	13	135	26	26	19	27	1.99
48836431--48837036	132	4.6	132	94	0	1032	30	24	17	27	1.97
48836660--48836969	44	7.0	44	63	10	148	31	24	16	28	1.96
48841909--48842105	98	2.0	98	93	0	340	38	22	9	29	1.85
48842901--48842947	11	4.5	11	78	10	62	70	0	2	27	0.99
48842903--48842941	20	2.0	20	94	0	69	74	0	2	23	0.94
48844069--48844101	14	2.4	14	94	0	57	18	21	27	33	1.96
48850196--48850235	18	2.2	18	86	13	55	62	7	17	12	1.52
48850210--48850243	6	5.7	6	86	13	52	67	2	17	11	1.34
48854708--48855006	90	3.3	90	84	3	345	26	15	25	32	1.95
48854708--48855015	45	6.8	44	85	3	285	26	15	25	32	1.96
48856441--48856478	18	2.2	17	86	13	51	34	0	21	44	1.52
48863311--48863348	18	2.2	17	86	13	51	34	0	21	44	1.52
48863574--48863672	23	4.3	23	93	0	171	24	21	24	30	1.99
48868492--48868516	9	2.8	9	100	0	50	80	0	0	20	0.72
48868702--48868768	26	2.6	26	100	0	134	35	11	11	40	1.79
48869776--48869812	18	2.1	18	90	10	58	62	5	2	29	1.31
48871004--48871038	18	1.9	18	94	0	61	71	0	8	20	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48872676--48872802	43	3.0	43	79	3	139	29	22	15	31	1.95
48872669--48873216	44	12.3	44	77	5	399	29	17	18	35	1.94
48872774--48873216	89	4.9	89	75	7	385	28	16	18	36	1.93
48872764--48873173	226	1.8	225	84	2	563	29	16	18	36	1.92
48878580--48878844	129	2.1	128	80	7	288	28	21	21	29	1.98
48878685--48879456	219	3.5	219	90	0	1213	25	25	21	27	1.99
48893859--48893994	40	3.4	40	78	6	132	38	22	20	18	1.94
48894030--48894232	41	5.0	41	96	0	352	24	21	24	29	1.99
48894197--48894299	52	2.0	52	88	3	154	18	23	30	28	1.98
48894846--48894878	7	4.7	7	92	0	57	3	0	54	42	1.15
48894825--48894892	21	3.2	21	74	17	61	13	0	45	41	1.43
48895492--48895548	27	2.1	27	100	0	114	57	3	17	21	1.54
48900500--48900542	23	1.9	22	85	4	59	32	0	11	55	1.36
48900707--48901044	43	7.9	42	88	1	417	25	19	29	25	1.99
48900707--48901044	86	3.9	86	89	1	491	25	19	29	25	1.99
48900707--48901041	129	2.6	129	89	0	501	25	20	30	24	1.98
48901915--48901967	18	3.1	17	74	15	56	71	1	7	18	1.19
48902192--48902242	24	2.2	23	86	10	68	54	5	15	23	1.63
48903155--48903196	17	2.5	17	84	3	50	11	19	52	16	1.74
48903542--48903788	44	5.6	43	78	4	190	28	20	18	33	1.96
48903676--48903807	44	3.0	44	83	4	167	28	17	18	34	1.94
48903544--48903785	132	1.8	132	81	3	290	28	20	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48903807--48904128	44	7.2	44	76	7	306	27	20	18	34	1.96
48903826--48904128	89	3.4	88	81	5	315	27	20	18	33	1.96
48904596--48904631	16	2.2	16	95	0	63	25	5	5	63	1.38
48905830--48905867	18	2.1	19	95	5	69	42	10	0	47	1.38
48906112--48906156	20	2.2	20	84	0	54	42	13	4	40	1.64
48907689--48907730	13	3.2	14	80	16	54	61	0	4	33	1.17
48907696--48907730	12	2.8	12	91	4	52	65	0	5	28	1.15
48913288--48913325	20	1.9	19	85	15	51	73	7	10	7	1.24
48913290--48913339	26	2.0	25	84	11	66	76	6	10	8	1.17
48914116--48914188	24	3.0	24	74	7	85	38	8	10	42	1.70
48914306--48914475	56	3.1	54	93	4	295	49	14	11	24	1.77
48914488--48914527	3	13.7	3	94	5	73	67	0	32	0	0.91
48922282--48922320	18	2.2	18	86	9	53	61	7	17	12	1.54
48923080--48923113	12	2.8	12	95	0	59	58	2	5	32	1.37
48934433--48935705	586	2.2	585	88	2	1830	32	16	16	35	1.91
48939702--48939756	16	3.4	16	84	0	56	32	32	1	32	1.69
48939715--48939771	16	3.6	16	90	0	78	35	35	0	29	1.58
48951073--48951130	27	2.1	27	90	0	89	77	6	5	10	1.11
48951101--48951157	19	2.9	19	75	12	62	71	5	7	15	1.25
48951079--48951182	46	2.3	44	76	15	113	75	4	6	13	1.17
48953356--48953568	44	4.8	44	90	6	317	28	17	24	29	1.97
48953356--48953603	88	2.8	88	83	8	249	29	17	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48953356--48953603	132	1.9	132	83	6	324	29	17	23	29	1.97
48953494--48953899	219	1.9	219	85	4	577	28	21	23	26	1.99
48953713--48953809	44	2.2	44	86	0	131	30	19	21	27	1.98
48953815--48954097	88	3.2	87	76	5	275	28	22	25	23	1.99
48953821--48954140	176	1.8	176	80	6	389	28	22	25	23	1.99
48953604--48954488	395	2.3	395	85	4	1173	28	22	24	24	2.00
48954091--48954216	44	2.9	44	78	5	141	30	19	23	26	1.98
48954219--48955077	260	3.3	263	85	3	1135	25	25	25	23	2.00
48954219--48955077	348	2.5	347	85	3	1172	25	25	25	23	2.00
48954756--48955070	44	7.2	44	64	15	157	24	25	25	24	2.00
48954219--48955091	88	10.0	88	86	3	1093	26	25	25	23	2.00
48955695--48955727	15	2.2	15	100	0	66	57	0	0	42	0.98
48968420--48970106	44	38.8	44	70	7	790	29	21	23	25	1.99
48968365--48969722	87	15.6	88	77	4	1074	30	21	22	25	1.99
48968600--48970107	131	11.5	132	78	4	1367	29	22	23	25	1.99
48968403--48970020	218	7.4	217	78	4	1528	29	21	23	25	1.99
48968681--48969684	523	1.9	523	88	1	1519	30	21	22	25	1.99
48968428--48970107	87	19.3	87	79	6	906	29	21	23	25	1.99
48969688--48970129	173	2.5	174	91	0	688	29	22	23	24	1.99
48970170--48970366	44	4.5	44	73	11	172	31	21	20	26	1.98
48970168--48970496	129	2.6	127	81	4	351	32	20	21	26	1.97
48971974--48972014	13	3.2	12	83	10	55	39	0	2	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48974408--48974447	18	2.2	18	86	13	55	62	7	17	12	1.52
48978566--48979171	44	13.6	45	76	8	458	29	19	17	33	1.95
48979638--48979672	16	2.2	16	100	0	70	28	5	5	60	1.43
48980063--48980104	13	3.4	13	83	9	61	61	0	7	30	1.22
48981516--48981546	9	3.4	9	90	0	53	25	12	22	38	1.90
48981598--48981634	18	2.1	18	94	0	65	51	13	5	29	1.63
48985860--48987948	624	3.4	624	97	0	3826	33	15	16	33	1.91
48988927--48988961	2	17.5	2	100	0	70	48	0	0	51	1.00
48989306--48989377	10	7.3	10	79	1	74	55	0	5	38	1.23
48989307--48989377	20	3.6	20	80	1	90	54	0	5	39	1.24

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