genome.fa.s8.2.7.7.80.10.50.1000.37.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  37  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)
10555161--10555202	17	2.5	17	84	3	59	33	4	9	52	1.55
10557440--10557989	291	1.9	291	88	1	843	35	14	15	34	1.87
10559266--10559308	22	1.9	23	85	4	61	39	9	2	48	1.48
10563690--10563730	19	2.2	19	86	8	57	12	7	2	78	1.06
10564612--10564668	6	8.7	7	88	11	54	31	1	0	66	1.02
10564627--10564669	3	14.3	3	100	0	86	34	0	0	65	0.93
10564972--10565243	131	2.1	131	95	0	481	37	14	14	33	1.87
10565769--10565808	19	2.2	18	86	4	53	15	5	17	62	1.49
10570799--10571457	44	14.7	43	70	16	201	32	20	20	27	1.97
10570801--10571036	87	2.7	89	83	7	288	30	20	22	27	1.98
10570803--10571056	132	1.9	132	81	9	304	31	19	22	25	1.98
10570973--10571286	137	2.3	137	86	2	445	33	18	19	28	1.95
10572253--10572285	5	6.6	5	100	0	66	21	0	0	78	0.75
10573201--10573237	3	12.3	3	100	0	74	35	0	0	64	0.94
10573541--10573813	131	2.1	131	97	0	510	37	14	14	33	1.87
10582764--10582803	14	2.8	14	88	11	55	7	7	0	85	0.76
10583309--10583354	2	23.5	2	95	4	85	50	0	0	50	1.00
10586393--10586432	19	2.1	19	86	9	55	42	2	0	55	1.13
10588311--10588405	40	2.4	38	88	8	145	37	23	21	17	1.94
10588439--10588629	41	4.7	41	92	0	292	23	20	25	30	1.98
10588889--10588925	14	2.6	14	91	0	56	21	0	32	45	1.52
10588974--10589006	14	2.3	15	94	5	59	30	0	33	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10589139--10589186	7	7.0	7	80	4	53	16	2	43	37	1.60
10589139--10589186	13	3.5	13	80	5	51	16	2	43	37	1.60
10589136--10589183	20	2.3	20	75	3	51	18	2	41	37	1.63
10589225--10589270	14	3.3	14	87	0	65	21	0	45	32	1.52
10589225--10589262	7	5.4	7	87	0	58	18	0	47	34	1.49
10589225--10589270	21	2.2	21	84	0	56	21	0	45	32	1.52
10591934--10591971	19	2.0	19	85	10	51	5	0	26	68	1.11
10598299--10598483	46	4.0	46	94	0	325	34	9	27	28	1.88
10601821--10601886	25	2.6	25	85	9	80	19	16	6	57	1.60
10605013--10605528	132	3.9	131	86	3	621	28	18	24	28	1.98
10605567--10605711	50	2.9	49	79	8	157	31	25	19	23	1.98
10605810--10605979	43	3.9	44	75	6	175	26	18	30	25	1.98
10605816--10606016	88	2.3	88	92	0	339	26	18	29	25	1.98
10605830--10606040	88	2.4	88	87	1	253	28	17	28	25	1.97
10607952--10607990	13	3.0	14	89	10	57	74	0	5	20	1.01
10610333--10610359	6	4.5	6	100	0	54	18	0	0	81	0.69
10611545--10611584	21	1.9	21	84	0	53	35	2	2	60	1.24
10611720--10611751	17	1.9	17	93	6	57	50	0	9	40	1.35
10613439--10613534	47	2.0	47	97	0	183	15	18	22	42	1.88
10613520--10613575	21	2.8	21	86	10	73	14	26	19	39	1.90
10615717--10615748	2	16.5	2	93	6	57	53	0	0	46	1.00
10618128--10618284	42	3.6	42	82	6	170	47	8	11	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10618151--10618228	23	3.5	22	71	15	63	50	8	8	32	1.65
10618320--10618471	43	3.4	45	75	10	143	53	14	4	26	1.60
10625689--10625734	5	9.2	5	83	9	58	17	6	0	76	1.00
10629901--10630362	61	7.6	60	74	12	363	32	7	17	42	1.78
10629901--10630337	31	14.4	31	75	12	320	32	7	17	42	1.78
10629900--10630337	92	4.8	92	89	3	620	31	7	17	42	1.78
10637107--10637205	48	2.1	48	92	0	162	11	23	3	62	1.42
10639236--10639266	3	10.3	3	100	0	62	32	35	0	32	1.58
10646032--10646122	45	2.0	44	87	6	130	31	4	28	35	1.77
10646287--10646321	18	2.0	17	88	5	52	54	0	0	45	0.99
10646421--10646462	15	2.7	16	82	14	52	52	2	0	45	1.13
10646181--10646487	154	2.0	156	95	1	555	45	2	4	47	1.37
10646430--10646471	15	2.9	15	82	10	52	52	0	0	47	1.00
10646419--10646716	120	2.5	121	92	3	494	50	5	3	41	1.39
10646531--10646586	15	4.1	14	76	14	55	57	1	0	41	1.09
10646659--10646939	91	3.0	93	80	11	279	48	3	3	44	1.36
10646732--10646939	91	2.3	91	88	4	285	46	3	3	45	1.39
10650135--10650207	23	3.3	23	66	11	71	47	4	2	45	1.36
10651028--10651054	2	13.5	2	100	0	54	51	0	0	48	1.00
10651248--10651545	116	2.6	116	99	0	587	41	21	10	26	1.84
10652508--10652551	22	2.0	22	82	8	54	59	2	9	29	1.41
10652753--10652795	18	2.3	18	92	4	68	65	4	0	30	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10652763--10652813	26	1.9	27	84	11	70	68	3	1	25	1.17
10652762--10652802	18	2.3	18	86	0	55	73	2	0	24	0.96
10655360--10655397	20	1.9	20	84	10	51	60	15	0	23	1.35
10659214--10659238	13	1.9	13	100	0	50	76	0	8	16	1.02
10659809--10660377	126	4.5	126	84	2	707	30	15	22	30	1.95
10663552--10663818	22	12.1	22	79	5	281	25	0	30	44	1.57
10663552--10663788	43	5.5	43	82	3	287	25	0	29	43	1.58
10663552--10663818	65	4.0	64	83	7	270	25	0	30	44	1.57
10664356--10664397	18	2.3	18	83	0	57	47	7	28	16	1.73
10665194--10665231	20	1.9	20	84	10	51	55	7	2	34	1.43
10666165--10666262	51	1.9	51	85	4	135	43	4	25	26	1.72
10666224--10666300	11	6.9	11	69	24	54	42	2	29	24	1.68
10666226--10666300	22	3.4	21	77	14	71	42	2	30	24	1.68
10669253--10669277	5	5.0	5	100	0	50	80	0	0	20	0.72
10670772--10670814	22	2.0	22	85	0	59	55	9	9	25	1.61
10670821--10670879	22	2.7	22	84	7	68	74	1	11	11	1.15
10671623--10671725	38	2.7	39	88	7	142	15	5	22	56	1.61
10676062--10676096	18	1.9	18	88	0	52	40	14	34	11	1.82
10676941--10676988	25	1.9	25	100	0	96	39	4	8	47	1.53
10677060--10677093	16	2.1	16	94	0	59	50	5	2	41	1.42
10679228--10679268	4	10.2	4	100	0	82	24	0	26	48	1.51
10682033--10682169	43	3.2	41	79	8	141	30	28	14	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10682047--10682183	43	3.2	43	80	1	148	33	27	15	24	1.95
10682496--10682633	66	2.1	66	82	5	163	15	22	17	44	1.85
10686790--10686846	29	2.0	29	100	0	114	31	14	14	40	1.85
10689140--10689170	2	15.5	2	100	0	62	48	0	0	51	1.00
10691175--10691200	9	2.9	9	100	0	52	34	0	19	46	1.50
10691727--10691774	25	1.9	25	95	0	87	56	2	8	33	1.41
10693890--10695259	755	1.8	756	91	4	2296	40	7	8	42	1.64
10695311--10695451	41	3.4	41	89	0	174	17	24	17	40	1.90
10697203--10697259	20	2.8	19	81	5	60	35	0	8	56	1.31
10697708--10697752	20	2.2	21	88	4	65	48	20	4	26	1.68
10698049--10698133	43	2.0	43	90	0	134	40	7	17	35	1.77
10700260--10700311	25	2.1	25	100	0	104	15	3	17	63	1.45
10704685--10704726	20	2.1	20	86	0	57	47	0	7	45	1.30
10709462--10709486	3	8.3	3	100	0	50	68	0	0	32	0.90
10710261--10710286	12	2.2	12	100	0	52	7	15	30	46	1.74
10710464--10710708	41	6.0	41	89	0	391	17	23	30	28	1.97
10710889--10711027	14	9.9	14	67	10	68	21	0	32	45	1.57
10711267--10711305	14	2.7	15	80	11	55	30	0	30	38	1.58
10711324--10711354	7	4.4	7	91	0	53	19	0	48	32	1.49
10711324--10711388	21	3.0	21	75	4	67	23	0	41	35	1.55
10711698--10711734	17	2.2	17	90	0	56	35	0	16	48	1.46
10711819--10711846	14	2.0	14	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10711971--10712214	83	2.9	83	83	1	301	40	14	14	29	1.86
10716639--10716725	43	2.0	43	86	0	120	35	11	10	42	1.75
10717072--10717256	43	4.3	43	90	1	282	24	17	32	25	1.97
10717072--10717252	85	2.1	86	90	1	283	24	18	32	24	1.97
10717568--10717627	29	2.0	32	83	9	81	48	6	26	18	1.72
10719708--10719775	33	2.1	33	97	0	127	50	1	7	41	1.39
10725825--10725861	8	4.8	8	86	6	58	16	0	0	83	0.64
10725825--10725861	15	2.4	16	90	4	58	16	0	0	83	0.64
10727943--10728190	120	2.1	121	95	0	444	33	13	25	27	1.93
10737673--10737719	26	1.9	25	87	12	71	14	17	10	57	1.65

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