genome.fa.s9.2.7.7.80.10.50.1000.167.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  167  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)
53244853--53244888	17	2.1	17	94	0	63	25	19	5	50	1.69
53252607--53252768	41	4.0	41	91	0	270	29	22	26	21	1.99
53288268--53288390	51	2.4	50	83	4	140	33	23	14	28	1.94
53288303--53288404	50	2.0	51	83	9	129	33	22	13	30	1.93
53308875--53308995	43	2.7	44	81	7	147	25	28	2	43	1.67
53309047--53309194	42	3.5	42	87	4	208	27	15	24	32	1.95
53309058--53309236	84	2.1	84	82	8	213	29	16	23	30	1.96
53312979--53313045	35	1.9	35	100	0	134	19	20	19	40	1.92
53317561--53317624	31	2.1	31	93	0	110	23	23	3	50	1.64
53317584--53317667	44	1.9	43	90	2	132	22	21	3	52	1.62
53324370--53324424	19	2.8	20	80	5	67	41	14	25	18	1.88
53335618--53335723	20	5.3	20	72	8	81	14	32	15	38	1.87
53335602--53335760	40	4.0	40	86	0	219	15	32	15	37	1.89
53339348--53339438	38	2.4	37	89	3	137	29	24	14	31	1.94
53340293--53340358	22	3.2	22	64	27	63	31	1	21	45	1.61
53340154--53340369	39	5.5	39	92	2	353	28	3	22	45	1.69
53357995--53358038	23	2.0	22	82	8	54	36	4	18	40	1.71
53358505--53358788	90	3.2	90	79	9	319	36	14	24	24	1.93
53358476--53358788	30	10.4	30	83	2	256	37	14	24	23	1.92
53358533--53358819	60	4.8	59	77	5	238	37	14	22	25	1.92
53358557--53358818	30	8.7	30	82	2	122	37	14	22	25	1.92
53358529--53358819	90	3.2	89	78	5	273	37	14	23	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53359104--53359172	30	2.3	30	85	5	86	23	20	33	23	1.97
53376103--53376158	20	2.8	20	78	10	69	41	16	28	14	1.87
53382036--53382092	30	1.9	30	92	0	96	40	8	22	28	1.84
53382416--53382501	45	1.9	45	92	0	145	26	16	22	34	1.95
53387561--53387617	30	1.9	30	92	7	98	36	5	24	33	1.78
53387848--53387957	51	2.2	50	83	6	132	23	17	25	33	1.96
53387968--53388056	45	2.0	45	93	0	151	24	17	23	33	1.96
53400299--53400390	37	2.5	37	84	5	114	29	23	15	31	1.95
53401108--53401323	39	5.5	39	97	0	405	28	2	23	45	1.67
53405515--53405763	56	4.7	55	75	13	220	28	21	26	24	1.99
53405515--53405812	50	5.8	50	75	11	237	28	21	25	24	1.99
53415097--53415271	51	3.5	50	77	3	163	30	26	17	25	1.97
53420601--53420777	51	3.5	51	74	12	184	31	29	16	23	1.96
53423114--53423355	50	4.7	50	83	4	245	26	20	28	24	1.99
53423117--53423306	100	1.8	104	85	6	271	26	18	29	25	1.98
53425271--53425485	39	5.5	39	89	0	331	28	3	21	46	1.67
53430658--53430853	40	4.8	40	72	14	164	25	20	23	30	1.98
53430617--53430953	126	2.7	126	90	1	548	24	20	23	31	1.98
53430614--53430939	44	7.7	43	70	15	169	24	20	22	32	1.98
53431057--53431671	131	4.7	131	89	2	842	25	23	20	30	1.98
53431211--53431542	44	7.6	44	67	6	154	24	25	20	30	1.99
53432802--53432837	14	2.4	16	90	9	58	11	22	0	66	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53433656--53433720	29	2.4	27	87	7	87	10	10	6	72	1.28
53433677--53433749	34	2.2	33	78	7	76	9	8	8	73	1.24
53435382--53435552	50	3.4	49	85	3	200	20	27	23	28	1.99
53442841--53443022	50	3.6	50	84	1	186	21	29	20	28	1.98
53448457--53448638	101	1.8	101	83	0	247	26	18	26	28	1.98
53448457--53448639	50	3.7	49	77	4	177	26	18	26	28	1.98
53456675--53456720	24	1.9	24	90	0	74	32	23	13	30	1.93
53458367--53458543	45	4.0	45	83	4	207	22	13	26	37	1.91
53469606--53469713	42	2.6	42	87	0	162	19	24	37	19	1.94
53476563--53476602	21	1.9	21	89	0	62	42	0	5	52	1.23
53477776--53477809	17	2.0	17	88	0	50	23	0	5	70	1.09
53478117--53478163	15	2.9	17	84	12	55	53	6	4	36	1.46
53480669--53480837	28	6.0	28	79	10	148	56	6	17	19	1.63
53480669--53480819	56	2.7	56	80	9	175	56	6	17	19	1.62
53480745--53480819	27	2.8	27	89	6	107	56	6	18	18	1.63
53494192--53494224	2	16.5	2	100	0	66	51	0	0	48	1.00
53500952--53500980	2	14.5	2	100	0	58	48	0	0	51	1.00
53510682--53511035	126	2.8	126	92	0	573	28	15	22	33	1.94
53514083--53514251	37	4.4	38	63	19	91	44	7	8	39	1.63
53514069--53514304	116	2.0	116	95	0	418	44	9	8	37	1.68
53514333--53514523	21	8.4	22	75	17	99	27	0	27	45	1.54
53514372--53514434	29	2.2	29	100	0	126	25	0	30	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53514309--53514500	95	2.0	95	93	2	332	27	0	27	44	1.58
53514404--53514530	66	2.0	64	95	3	227	29	0	23	47	1.52
53514351--53514607	44	5.8	43	75	21	207	27	0	27	45	1.54
53514547--53514884	23	13.6	23	71	26	198	28	0	25	44	1.60
53514617--53514757	29	5.1	29	82	10	179	27	1	26	44	1.63
53514460--53514757	103	2.8	101	84	11	354	28	0	26	44	1.59
53514607--53514858	52	4.8	53	73	21	201	28	1	25	44	1.62
53514750--53514805	21	2.6	22	94	5	105	25	0	26	48	1.52
53514880--53514992	25	4.7	25	72	18	96	44	12	2	40	1.56
53514880--53515036	70	2.3	69	92	2	253	46	12	2	38	1.55
53514960--53515045	43	2.0	45	86	4	122	51	12	1	34	1.48
53515468--53515502	18	1.9	18	94	0	61	34	8	31	25	1.86
53516154--53516178	7	3.6	7	100	0	50	60	12	0	28	1.32
53517320--53517435	51	2.3	51	93	0	196	44	1	26	26	1.64
53517407--53517457	22	2.3	22	96	0	93	37	0	33	29	1.58
53517407--53517480	22	3.3	22	85	12	73	40	0	33	25	1.56
53517423--53517480	11	5.2	11	78	17	66	43	0	34	22	1.54
53522458--53522539	42	2.0	42	85	0	110	21	24	15	37	1.93
53530872--53530966	25	3.8	25	94	1	156	29	22	24	24	1.99
53530864--53530979	50	2.4	49	82	4	153	32	21	22	23	1.98
53536144--53536172	14	2.1	14	100	0	58	20	20	20	37	1.94
53537368--53537808	140	3.2	140	80	2	494	27	17	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53537368--53537808	70	6.3	70	79	3	440	27	17	22	33	1.96
53544357--53544395	2	19.5	2	100	0	78	51	0	0	48	1.00
53546522--53546568	2	23.5	2	100	0	94	48	0	0	51	1.00
53546818--53546860	22	2.0	22	90	0	68	9	13	27	48	1.73
53546939--53546998	30	2.0	31	93	3	104	45	21	21	11	1.84
53546970--53547145	42	4.2	42	86	3	228	32	20	20	26	1.97
53546982--53547230	42	5.9	41	79	9	184	30	20	20	28	1.98
53547651--53547690	12	3.3	12	96	0	71	2	40	17	40	1.63
53547646--53547730	21	3.9	22	75	11	77	4	38	18	37	1.72
53551312--53551468	25	6.3	25	83	1	190	29	1	21	47	1.62
53551336--53551521	9	22.2	9	72	14	121	30	2	19	48	1.61
53551337--53551484	16	9.0	16	74	12	115	30	2	20	47	1.61
53551387--53551501	41	2.8	40	88	5	133	31	1	19	47	1.59
53551309--53551475	75	2.2	76	84	6	218	29	2	20	46	1.64
53551352--53551542	25	7.6	24	78	8	102	30	2	17	49	1.59
53551336--53551506	50	3.6	48	75	13	167	29	2	19	47	1.62
53551870--53551930	17	3.5	18	69	22	58	52	4	0	42	1.23
53551799--53552195	87	4.6	85	82	9	457	48	5	4	42	1.44
53552018--53552050	15	2.2	15	94	0	57	54	3	3	39	1.31
53551907--53552292	177	2.2	177	98	0	736	48	5	5	40	1.48
53552065--53552126	21	3.0	21	70	23	51	48	4	4	41	1.46
53552195--53552227	15	2.2	15	94	0	57	54	3	3	39	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53554009--53554057	22	2.2	22	96	0	89	34	30	4	30	1.76
53558141--53558405	46	5.8	46	90	0	422	41	19	13	25	1.88
53558158--53558415	24	11.2	23	67	17	90	42	18	13	25	1.87
53559075--53559227	41	3.8	40	78	8	157	32	28	15	23	1.95
53559075--53559230	81	1.9	82	86	5	226	32	29	14	23	1.95
53559115--53559248	40	3.3	39	80	7	135	32	28	15	23	1.95
53570710--53570739	5	5.8	5	92	7	51	60	0	0	40	0.97
53571522--53571560	2	19.5	2	100	0	78	48	0	0	51	1.00
53586349--53586821	173	2.7	172	85	5	546	28	18	24	28	1.98
53586484--53586771	84	3.4	84	72	13	253	27	19	23	28	1.98

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