genome.fa.s8.2.7.7.80.10.50.1000.121.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  121  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)
36456548--36456666	50	2.4	49	76	6	132	59	2	0	36	1.17
36458073--36458143	15	4.6	14	72	23	54	63	0	2	33	1.09
36458043--36458144	35	2.9	35	95	2	179	63	0	2	33	1.09
36461693--36461750	30	1.9	30	85	3	80	43	8	13	34	1.75
36467454--36467618	43	3.9	42	80	6	152	32	26	17	24	1.97
36469981--36470022	17	2.4	18	80	8	50	33	2	11	52	1.51
36491523--36491553	16	1.9	16	93	0	53	6	3	41	48	1.45
36491931--36491980	2	25.5	2	79	4	57	50	8	0	42	1.32
36491931--36491980	6	8.5	6	95	2	66	50	8	0	42	1.32
36492237--36492267	2	15.5	2	100	0	62	51	0	0	48	1.00
36493216--36493329	19	5.8	19	87	5	147	37	9	14	37	1.80
36493221--36493315	40	2.4	40	94	3	167	37	10	14	36	1.81
36493216--36493329	59	1.9	58	87	1	165	37	9	14	37	1.80
36495078--36495274	98	2.0	98	95	0	358	27	9	24	37	1.87
36497871--36497940	23	2.9	23	83	10	79	22	24	21	31	1.98
36498124--36498162	20	2.0	20	84	0	51	35	7	15	41	1.76
36502172--36502196	2	12.5	2	100	0	50	52	0	0	48	1.00
36507839--36508047	92	2.3	90	84	9	262	45	3	3	46	1.39
36508101--36508311	66	3.4	63	69	21	192	42	3	6	48	1.44
36508070--36508355	120	2.4	120	94	3	488	43	2	4	48	1.39
36508184--36508218	18	2.0	17	88	5	52	45	0	0	54	0.99
36508304--36508338	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36508292--36508607	156	2.0	157	95	0	571	47	5	3	43	1.42
36508460--36508494	18	2.0	17	88	5	52	45	0	0	54	0.99
36508460--36508517	16	3.6	16	78	21	52	44	0	1	53	1.10
36508730--36508766	17	2.2	17	90	4	58	35	37	2	24	1.70
36508976--36509024	3	16.3	3	100	0	98	32	0	0	67	0.91
36509193--36509240	24	2.0	25	87	4	71	50	6	6	37	1.53
36509807--36509856	25	2.0	26	96	4	93	70	0	2	28	0.99
36509813--36509860	7	6.3	7	77	17	51	77	0	2	20	0.88
36511110--36511344	60	3.9	60	75	11	194	42	11	4	41	1.61
36511096--36511328	30	7.8	28	72	11	151	44	11	4	39	1.60
36517100--36517169	30	2.3	31	82	2	88	34	11	14	40	1.82
36520316--36520368	26	2.0	26	100	0	106	43	3	22	30	1.71
36527595--36527634	19	2.1	19	90	9	64	45	5	5	45	1.47
36530583--36530611	12	2.3	13	94	5	51	0	3	13	82	0.79
36532636--36532670	16	2.2	17	90	10	56	77	2	0	20	0.90
36534134--36534609	89	5.3	89	71	14	314	31	20	16	32	1.95
36534128--36534612	45	10.8	44	74	9	345	30	20	16	32	1.95
36541655--36541850	110	1.8	107	86	3	284	33	19	16	30	1.94
36544254--36544732	44	11.0	44	72	8	262	25	22	21	30	1.99
36544471--36544641	90	1.9	90	84	2	227	25	23	21	29	1.99
36556577--36556772	110	1.8	107	84	3	266	34	19	15	31	1.93
36557069--36557109	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36557239--36557336	2	49.5	2	87	2	126	47	2	4	45	1.33
36557358--36557390	17	1.9	17	88	11	50	57	0	3	39	1.14
36557807--36557965	22	7.3	22	67	21	86	61	0	2	35	1.09
36557827--36557915	11	8.5	11	83	7	71	56	0	2	41	1.12
36557805--36557932	61	2.1	60	84	7	170	60	0	1	37	1.06
36557801--36557874	11	6.9	11	86	7	100	56	0	1	41	1.07
36563497--36563546	26	1.9	26	83	0	64	20	16	22	42	1.89
36563607--36563660	24	2.2	24	83	6	65	16	22	22	38	1.93
36571299--36571537	26	9.6	26	69	9	83	18	25	21	33	1.96
36571440--36571493	24	2.2	24	83	0	63	14	25	25	33	1.95
36574614--36574748	3	44.7	3	76	10	114	33	3	2	60	1.30
36575117--36575509	124	3.2	124	92	0	669	29	19	21	29	1.97
36578608--36579692	21	50.7	21	79	11	978	25	0	28	45	1.57
36578653--36579692	42	24.1	42	81	8	1092	25	0	28	45	1.57
36578829--36578902	22	2.9	27	78	15	86	25	0	28	45	1.53
36579495--36579548	27	2.0	27	85	7	74	22	0	35	42	1.54
36580914--36580939	7	3.7	7	100	0	52	57	15	0	26	1.38
36581107--36581144	20	1.9	20	84	10	51	55	7	2	34	1.43
36582568--36582637	2	35.0	2	75	11	63	45	8	0	45	1.34
36583211--36583293	27	3.1	27	78	3	105	38	9	7	44	1.65
36583238--36583281	15	3.2	15	69	24	51	45	2	4	47	1.35
36583202--36583281	26	3.0	26	78	3	106	42	6	6	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36592191--36592225	14	2.5	15	86	13	56	31	11	0	57	1.34
36592199--36592224	7	3.7	7	100	0	52	26	11	0	61	1.30
36593019--36593077	28	2.1	29	83	3	75	44	13	18	23	1.86
36595090--36595136	24	2.0	24	83	8	60	61	6	2	29	1.32
36597099--36597354	104	2.5	104	81	1	289	34	15	19	29	1.93
36602934--36602972	21	1.9	20	84	5	51	20	2	25	51	1.60
36604084--36604155	9	8.4	9	79	14	73	0	20	0	79	0.74
36604081--36604155	33	2.2	35	88	4	109	0	20	0	80	0.72
36604083--36604155	26	2.9	26	86	8	89	0	20	0	79	0.73
36604080--36604150	23	3.1	23	77	16	76	0	19	0	80	0.72
36604227--36604304	28	2.8	29	83	11	101	0	32	0	67	0.90
36604243--36604296	16	3.6	16	82	7	60	0	29	0	70	0.88
36604227--36604299	35	2.1	35	82	10	87	0	31	0	68	0.90
36604230--36604299	16	4.4	16	71	16	56	0	31	0	68	0.90
36604556--36604595	12	3.4	11	86	10	53	2	5	7	85	0.83
36604810--36604901	28	3.2	29	82	11	111	46	4	15	33	1.65
36606229--36606283	26	2.2	25	83	3	65	27	1	5	65	1.25
36606839--36606899	27	2.3	25	76	15	68	39	13	1	45	1.53
36608564--36608588	12	2.1	12	100	0	50	68	0	8	24	1.16
36609100--36609139	12	3.1	12	89	10	53	70	7	12	10	1.35
36613787--36613845	3	19.7	3	100	0	118	32	0	0	67	0.91
36626661--36626876	18	12.2	18	67	13	110	43	10	15	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36626715--36626872	35	4.5	35	77	14	146	44	10	15	29	1.80
36626715--36626876	71	2.3	71	88	2	254	43	10	14	30	1.79
36626718--36626876	36	4.5	36	78	12	161	44	10	15	29	1.80
36626980--36627092	18	6.3	18	79	5	131	44	11	14	30	1.80
36626980--36627092	35	3.2	36	82	3	131	44	11	14	30	1.80
36627594--36627623	14	2.1	14	93	0	51	0	16	0	83	0.65
36627590--36627632	19	2.3	18	85	14	61	0	16	0	83	0.64
36628336--36628411	29	2.6	31	78	16	81	39	2	17	40	1.63
36628546--36629484	150	6.1	153	84	4	1000	35	21	16	26	1.95
36628567--36629487	75	12.1	76	80	6	836	35	21	16	26	1.95
36637353--36637602	17	14.2	17	69	14	141	43	10	13	32	1.78
36637388--36637602	17	12.2	18	70	14	146	44	11	13	30	1.79
36637353--36637602	35	7.1	34	72	11	114	43	10	13	32	1.78
36637437--36637602	71	2.4	71	88	1	253	45	10	12	31	1.76
36637720--36637808	20	4.7	20	71	18	75	41	8	15	33	1.79
36637811--36637847	19	1.9	19	100	0	74	43	10	10	35	1.75
36638874--36638958	28	3.0	28	83	6	100	40	1	23	35	1.63
36638866--36638959	29	3.2	29	82	11	113	38	1	22	38	1.61
36638846--36638959	29	3.9	29	76	12	108	38	3	22	35	1.72
36639304--36639502	94	2.1	94	85	3	267	33	20	19	27	1.96
36639346--36639537	50	4.0	51	70	14	145	32	19	19	27	1.97
36639216--36639700	44	10.6	44	70	14	225	31	20	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36641504--36641529	12	2.2	12	100	0	52	15	0	0	84	0.62
36642013--36642071	30	1.9	31	83	10	77	62	0	16	20	1.32
36642998--36643150	63	2.4	63	91	0	234	16	20	26	35	1.94
36643001--36643193	63	3.0	61	83	9	201	19	22	24	33	1.97
36643782--36643829	15	3.0	17	74	20	50	39	0	22	37	1.55
36646139--36646471	54	6.0	55	67	16	190	30	23	16	28	1.97
36646172--36646506	171	2.0	170	95	1	609	28	23	17	30	1.97
36646431--36646695	105	2.5	105	85	4	318	28	18	18	33	1.95
36650576--36650626	24	2.1	24	92	0	84	60	5	13	19	1.53
36650887--36650961	2	38.0	2	86	7	100	49	1	1	48	1.18

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