genome.fa.s9.2.7.7.80.10.50.1000.192.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  192  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)
61167504--61167547	17	2.7	16	92	3	70	61	4	0	34	1.16
61169129--61169157	2	14.5	2	100	0	58	51	0	0	48	1.00
61172219--61172280	19	3.3	19	80	8	74	62	0	1	35	1.05
61174881--61174950	23	3.0	23	80	2	86	45	17	8	28	1.77
61195698--61195738	6	6.8	6	97	0	73	17	12	0	70	1.16
61195698--61195745	12	4.0	12	91	0	69	18	12	0	68	1.20
61195698--61195761	18	3.7	18	83	8	71	20	12	0	67	1.23
61197929--61198115	93	2.0	93	93	0	320	29	18	19	32	1.96
61200727--61200777	26	1.9	27	84	4	68	29	9	7	52	1.62
61201532--61201576	4	10.8	4	88	7	63	0	24	0	75	0.80
61201532--61201577	13	3.6	13	88	5	76	0	23	0	76	0.79
61214914--61214946	17	1.9	17	93	0	57	15	12	15	57	1.65
61220420--61220450	15	2.1	15	93	0	53	64	6	0	29	1.18
61235362--61235426	33	2.0	33	100	0	130	33	12	12	41	1.80
61237613--61237661	25	2.0	25	83	0	62	14	26	20	38	1.91
61237743--61237822	25	3.2	24	82	5	81	16	27	21	35	1.94
61239960--61240023	31	2.1	31	96	0	119	35	18	10	34	1.86
61241055--61241180	27	4.7	27	74	2	83	26	23	14	35	1.93
61244182--61244246	24	2.8	23	80	13	80	50	1	0	47	1.10
61245048--61245160	45	2.5	45	92	0	199	34	21	4	39	1.73
61246140--61246245	52	2.0	52	100	0	212	47	16	3	32	1.65
61246602--61246659	22	2.6	22	86	2	89	31	29	0	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61246630--61246744	51	2.3	51	93	0	194	29	24	0	46	1.53
61248440--61248474	18	1.9	18	88	0	52	22	31	8	37	1.85
61251188--61251539	126	2.8	125	86	2	492	33	22	15	28	1.95
61251561--61251607	22	2.0	24	92	8	80	53	34	4	8	1.51
61252018--61252052	16	2.2	16	89	0	52	40	8	5	45	1.58
61252184--61252235	24	2.2	24	92	0	86	55	7	1	34	1.39
61260854--61260973	51	2.4	50	84	5	143	26	20	7	45	1.78
61262757--61262814	27	2.2	25	85	11	73	29	3	6	60	1.39
61264448--61264492	15	2.9	15	81	12	54	68	2	4	24	1.19
61268167--61268212	20	2.4	19	85	7	58	30	8	13	47	1.72
61279263--61279305	21	2.0	21	86	0	59	34	4	11	48	1.60
61280738--61280818	32	2.5	32	83	0	108	29	3	16	50	1.62
61282237--61282279	14	2.9	15	86	10	54	39	13	6	39	1.72
61282401--61282434	17	2.1	17	88	5	52	23	17	5	52	1.66
61286889--61286926	5	7.6	5	100	0	76	39	0	0	60	0.97
61304793--61304836	23	1.9	23	81	9	54	31	4	11	52	1.57
61304877--61304905	2	14.5	2	100	0	58	0	0	48	51	1.00
61305428--61305625	42	4.8	41	87	5	258	29	20	22	27	1.98
61310111--61310171	29	2.1	29	100	0	122	32	22	14	29	1.94
61319307--61319457	50	3.1	49	67	18	127	34	21	20	23	1.97
61319330--61319475	44	3.2	44	68	17	116	33	19	21	25	1.97
61319173--61319730	188	3.0	189	85	2	660	35	18	20	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61319173--61319730	94	5.9	93	80	4	539	35	18	20	25	1.95
61322200--61322347	59	2.5	58	78	5	129	50	12	12	23	1.75
61327806--61327856	23	2.2	23	92	0	84	27	9	21	41	1.84
61328012--61328057	23	2.0	23	100	0	92	8	13	13	65	1.48
61333800--61333825	3	8.7	3	100	0	52	65	0	0	34	0.93
61333824--61333899	3	25.3	3	100	0	152	32	0	0	67	0.91
61336141--61336346	43	4.8	43	85	2	254	25	29	19	25	1.99
61336141--61336346	42	4.9	42	84	3	243	25	29	19	25	1.99
61336141--61336346	85	2.4	85	84	2	261	25	29	19	25	1.99
61336519--61336768	43	5.9	42	83	2	293	24	28	21	26	1.99
61336519--61336760	128	1.9	129	89	0	378	24	27	21	26	1.99
61337144--61337230	43	2.0	43	84	0	111	45	12	10	31	1.76
61341544--61341576	14	2.3	15	94	5	59	36	33	0	30	1.58
61341625--61341661	14	2.6	14	86	0	56	43	29	0	27	1.55
61341946--61342012	4	15.8	4	75	17	55	68	4	1	25	1.17
61341973--61342012	9	4.7	9	81	12	57	67	2	0	30	1.04
61341979--61342026	21	2.3	20	79	10	53	64	4	2	29	1.23
61341951--61342021	22	3.1	22	78	11	79	66	5	2	25	1.27
61342090--61342116	13	2.1	13	100	0	54	37	29	14	18	1.91
61356122--61356173	15	3.3	15	76	7	59	21	1	0	76	0.87
61356100--61356173	32	2.4	31	82	15	82	18	4	2	74	1.10
61356230--61356327	22	4.6	21	69	20	69	33	2	3	61	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61356234--61356281	18	2.5	19	86	13	71	31	0	4	64	1.12
61368731--61369239	44	11.7	45	68	18	215	30	20	22	26	1.98
61368773--61369240	173	2.7	173	83	4	511	30	20	22	27	1.98
61368867--61369151	84	3.3	84	74	10	279	29	19	23	27	1.98
61368639--61369065	217	2.0	217	90	0	683	29	20	22	26	1.99
61368948--61369239	89	3.4	86	71	12	247	31	20	21	26	1.98
61368867--61369185	84	3.7	83	73	12	261	29	20	22	28	1.98
61368640--61369139	217	2.3	217	85	2	598	29	20	22	27	1.99
61368640--61369239	217	2.8	217	82	6	567	30	20	22	27	1.98
61370349--61370383	16	2.2	16	89	0	52	17	0	0	82	0.66
61370364--61370389	7	3.7	7	100	0	52	11	0	0	88	0.52
61370349--61370407	23	2.5	23	83	2	64	20	1	0	77	0.85
61370465--61370561	21	4.6	21	68	18	67	34	2	3	60	1.24
61370469--61370517	18	2.5	20	80	19	66	32	0	4	63	1.13
61370835--61370883	25	2.0	25	96	4	91	20	8	8	63	1.48
61370841--61370893	25	2.2	25	86	3	72	18	7	7	66	1.41
61372541--61372595	29	1.9	29	88	3	85	30	34	21	12	1.91
61372507--61372879	105	3.6	103	91	3	568	30	29	19	19	1.97
61380102--61380472	105	3.6	103	93	2	609	30	29	20	19	1.97
61380808--61380864	30	1.9	30	85	3	80	31	22	7	38	1.81
61394456--61394514	31	1.9	31	92	0	100	22	18	8	50	1.73
61394744--61394801	22	2.8	20	72	10	62	34	3	22	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61395214--61395274	31	2.0	31	83	0	77	54	8	13	24	1.66
61395578--61395624	2	23.5	2	95	0	85	48	0	0	51	1.00
61396811--61396846	18	2.1	17	89	5	54	58	16	16	8	1.61
61405775--61405799	12	2.1	12	100	0	50	28	32	8	32	1.86
61404942--61406614	854	2.0	854	99	0	3310	23	20	23	32	1.98
61407637--61407841	51	4.1	50	81	5	234	26	16	27	29	1.97
61407753--61407834	26	3.2	26	64	27	66	25	14	28	31	1.95
61407648--61407841	102	1.9	101	85	3	264	26	17	26	29	1.97
61407841--61407928	45	2.0	45	90	4	142	27	17	21	34	1.95
61412410--61412454	22	2.0	22	100	0	90	35	17	8	37	1.81
61415275--61415563	51	5.7	51	79	6	320	29	26	15	28	1.96
61415271--61415559	152	1.9	152	83	5	379	29	26	15	28	1.96
61415276--61415563	101	2.8	102	91	3	422	29	27	15	27	1.96
61416937--61416967	11	2.8	11	90	0	53	67	0	0	32	0.91
61419509--61419621	45	2.5	45	92	0	181	38	22	21	17	1.93
61419507--61419657	45	3.1	50	77	13	152	38	21	21	19	1.94
61419604--61419631	6	4.7	6	100	0	56	50	14	17	17	1.79
61419834--61419918	40	2.2	40	82	6	102	41	20	5	32	1.76
61421969--61422217	50	4.8	50	85	3	291	20	28	23	26	1.99
61421968--61422217	100	2.4	104	87	5	346	21	28	23	26	1.99
61422311--61422341	13	2.4	13	94	0	53	54	12	0	32	1.38
61422554--61422611	30	1.9	30	89	0	89	31	24	3	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61423704--61423735	14	2.3	14	100	0	64	59	12	0	28	1.34
61423902--61423946	9	5.1	9	81	5	56	48	2	0	48	1.13
61425381--61425430	12	4.2	12	75	14	59	54	6	6	34	1.50
61425707--61425749	7	6.1	7	77	0	50	27	48	0	23	1.51
61425707--61425749	21	2.0	21	90	0	68	27	48	0	23	1.51
61425765--61425802	14	2.7	15	84	12	53	42	28	0	28	1.56
61425958--61426013	24	2.3	24	87	0	85	60	0	1	37	1.07
61426075--61426105	7	4.3	7	95	4	53	29	58	0	12	1.35
61426075--61426112	14	2.6	15	87	8	60	31	52	0	15	1.43
61426101--61426141	21	2.0	20	90	4	64	39	39	0	21	1.54

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