genome.fa.s8.2.7.7.80.10.50.1000.160.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  160  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)
46625479--46625512	15	2.2	16	89	5	52	44	11	2	41	1.56
46633332--46633362	9	3.4	9	90	0	53	25	12	22	38	1.90
46633416--46633452	9	4.1	9	92	0	65	45	13	10	29	1.77
46633665--46633722	30	1.9	30	82	6	73	17	34	1	46	1.58
46642108--46642147	21	1.9	21	89	0	62	30	15	2	52	1.55
46643008--46643539	172	3.0	172	64	14	445	30	17	9	41	1.82
46643009--46643717	352	2.0	352	96	0	1319	31	17	9	41	1.81
46643944--46644042	23	4.3	23	77	0	117	31	24	19	25	1.98
46645474--46645513	17	2.4	17	91	0	62	32	7	15	45	1.74
46645905--46646043	25	5.6	25	79	5	120	33	18	25	21	1.96
46646623--46646676	27	2.0	27	96	0	99	33	20	7	38	1.80
46648957--46649029	28	2.6	28	91	0	110	31	12	27	28	1.93
46649754--46649937	23	7.8	22	76	9	134	27	13	16	42	1.86
46649722--46649993	70	3.8	70	87	4	368	27	11	18	41	1.85
46659399--46659533	17	7.4	17	64	14	63	50	11	3	34	1.57
46659393--46659558	37	4.5	37	93	2	264	50	12	4	33	1.60
46659456--46659516	20	3.2	20	68	13	65	44	14	6	34	1.72
46661954--46661995	20	2.1	20	95	0	75	64	2	4	28	1.26
46664702--46664916	50	4.3	49	77	5	191	34	18	27	19	1.95
46664687--46664905	74	2.9	74	81	5	235	34	17	27	19	1.95
46664723--46664922	25	8.0	25	73	7	165	35	19	27	18	1.95
46664687--46664916	75	3.1	73	80	5	237	34	18	28	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46669695--46669721	14	1.9	14	100	0	54	66	3	0	29	1.09
46670094--46670220	51	2.5	50	86	10	168	61	0	3	35	1.12
46670078--46670229	41	3.8	40	86	4	189	59	0	2	38	1.12
46670078--46670180	11	9.9	11	72	18	69	56	0	1	41	1.10
46673844--46673893	25	2.0	25	84	0	64	30	50	18	2	1.58
46674841--46674886	21	2.2	21	88	0	65	56	17	21	4	1.58
46677815--46677849	6	5.8	6	93	0	52	77	5	0	17	0.96
46681519--46681561	21	2.0	21	100	0	86	18	27	18	34	1.95
46683120--46683163	22	2.0	22	82	8	54	72	9	4	13	1.24
46683333--46683368	18	2.1	18	89	5	56	66	2	8	22	1.31
46684514--46684554	17	2.4	17	88	8	57	9	2	14	73	1.19
46684993--46685438	45	9.9	45	73	8	271	28	23	16	31	1.96
46685100--46685438	44	7.6	44	74	9	208	29	23	16	31	1.96
46684956--46685182	96	2.4	96	80	5	246	31	22	15	30	1.95
46685100--46685347	89	2.8	88	81	4	284	30	22	16	30	1.96
46686904--46687089	100	1.8	104	82	6	245	23	28	20	26	1.99
46686855--46687101	50	4.8	50	80	6	221	23	26	21	28	1.99
46696365--46696458	46	2.0	46	95	0	170	34	8	27	29	1.87
46696773--46696811	2	19.5	2	100	0	78	48	0	0	51	1.00
46719376--46719497	23	5.3	23	87	0	181	21	21	27	30	1.98
46719378--46719497	46	2.6	46	94	0	204	20	21	27	30	1.98
46722080--46722133	27	2.0	26	82	10	65	25	3	20	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46724233--46724258	2	13.0	2	100	0	52	50	0	0	50	1.00
46744852--46744898	18	2.6	18	93	0	76	25	0	8	65	1.20
46748710--46748883	43	4.0	43	82	4	217	31	25	16	26	1.97
46748712--46748880	87	2.0	86	88	5	252	31	24	15	27	1.96
46751912--46752193	124	2.3	124	84	6	356	32	17	15	34	1.92
46752112--46752286	82	2.1	85	81	5	205	38	16	13	31	1.88
46752394--46752577	7	26.3	7	71	10	83	39	36	1	22	1.62
46752573--46752598	7	3.7	7	100	0	52	15	57	0	26	1.38
46752601--46752709	57	1.9	57	81	3	130	45	28	1	23	1.63
46752681--46752722	15	2.9	14	93	6	75	45	33	0	21	1.52
46752767--46752809	22	2.0	22	90	0	68	9	13	27	48	1.73
46752884--46753176	42	7.0	42	89	4	405	32	21	20	25	1.97
46753622--46753690	21	3.3	21	79	0	75	2	40	21	34	1.68
46759566--46759603	9	4.3	9	86	6	60	36	0	15	47	1.46
46759570--46759606	17	2.2	17	95	0	65	35	0	13	51	1.41
46760229--46760265	13	2.9	13	88	4	58	37	5	2	54	1.38
46760383--46760460	34	2.3	34	95	0	138	43	6	0	50	1.28
46763018--46763095	39	2.0	38	82	7	95	34	21	16	26	1.95
46764285--46764396	40	2.8	40	74	8	95	19	24	23	33	1.97
46767280--46767320	20	2.0	20	85	0	55	58	2	2	36	1.24
46783107--46783209	51	2.0	51	100	0	206	33	11	17	36	1.86
46789126--46789155	10	3.0	10	95	0	51	60	3	0	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46804327--46804379	27	2.0	26	88	3	79	26	11	26	35	1.90
46810665--46810733	22	3.1	22	85	0	93	18	21	17	42	1.90
46812467--46812519	16	3.3	16	86	0	79	39	3	32	24	1.73
46812501--46812589	44	2.0	46	91	4	146	26	5	30	37	1.80
46812501--46812606	39	2.5	44	82	11	123	29	4	30	35	1.78
46812778--46812807	15	1.9	16	93	6	53	50	6	0	43	1.28
46812752--46812942	56	3.3	55	73	17	190	52	4	1	41	1.30
46812871--46812903	16	2.0	17	94	5	59	60	0	0	39	0.97
46812732--46812965	118	2.0	120	94	3	420	52	4	1	41	1.32
46813376--46813405	15	1.9	16	93	6	53	50	6	0	43	1.28
46813368--46813938	102	5.6	102	73	15	373	48	4	2	44	1.35
46813596--46813635	13	3.2	13	89	3	55	55	0	2	42	1.13
46813597--46813630	16	2.2	15	89	5	50	58	0	2	38	1.13
46813628--46813860	44	5.2	44	68	20	176	45	4	2	47	1.36
46813589--46813921	91	3.7	91	93	2	534	46	4	2	46	1.35
46815764--46816053	45	6.4	45	87	1	411	41	20	17	20	1.91
46815995--46816080	39	2.3	39	83	4	113	39	20	17	22	1.92
46816485--46816530	22	2.1	22	100	0	92	28	32	13	26	1.93
46820470--46820514	23	2.0	22	95	4	81	57	4	24	13	1.54
46824830--46824868	16	2.4	16	100	0	78	66	0	23	10	1.22
46824915--46824946	17	1.9	16	93	6	55	75	3	0	21	0.95
46831216--46831361	42	3.5	42	80	1	141	17	19	17	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46840191--46840230	6	6.7	6	88	0	62	17	52	17	12	1.74
46843873--46843909	15	2.5	15	100	0	74	48	16	0	35	1.46
46843911--46843958	8	6.0	8	97	0	87	22	0	0	77	0.78
46843912--46843969	24	2.4	24	88	5	82	25	1	0	72	0.94
46845599--46845810	44	4.5	44	78	15	219	28	24	15	32	1.95
46845597--46845805	51	4.3	51	83	10	265	28	24	14	32	1.95
46845599--46845810	95	2.2	94	90	0	334	28	24	15	32	1.95
46849179--46849238	30	2.0	31	86	3	86	40	0	40	20	1.52
46849450--46849486	9	4.1	9	92	0	65	29	10	13	45	1.77
46850112--46850173	31	2.0	31	96	0	115	32	9	14	43	1.78
46850719--46850743	11	2.3	11	100	0	50	92	8	0	0	0.40
46850803--46850836	15	2.3	15	89	0	50	20	0	5	73	1.04
46864881--46865040	45	3.6	45	97	0	302	26	9	47	16	1.77
46871123--46871172	17	2.9	17	77	13	50	58	0	0	42	0.98
46871964--46872023	30	2.0	30	100	0	120	46	10	20	23	1.80
46872147--46872193	3	15.7	3	100	0	94	65	0	0	34	0.93
46881677--46881730	24	2.2	25	75	24	62	38	5	5	50	1.49
46887814--46887967	73	2.1	73	88	0	236	23	24	29	22	1.99
46888178--46888293	54	2.1	54	91	0	187	24	25	28	22	1.99
46889369--46889464	24	4.0	24	68	6	68	33	20	29	16	1.95
46889336--46889474	25	5.6	24	71	3	89	31	18	30	18	1.95
46891921--46891995	25	2.9	25	76	20	75	74	1	21	2	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46891930--46891968	16	2.5	16	87	4	53	79	2	17	0	0.84
46894955--46895012	30	1.9	30	100	0	116	36	6	25	31	1.83
46897561--46897599	2	19.5	2	100	0	78	51	0	0	48	1.00
46899982--46900029	20	2.4	20	85	0	69	60	6	0	33	1.22
46903990--46904153	42	3.9	43	85	5	217	34	17	23	25	1.96
46903991--46904187	42	4.6	42	84	2	216	33	18	21	26	1.96
46903991--46904187	85	2.3	85	84	1	243	33	18	21	26	1.96
46904037--46904212	42	4.1	43	82	6	144	31	20	20	27	1.97
46904636--46904683	12	4.2	12	74	15	57	0	41	20	37	1.53
46904648--46904713	21	3.1	21	88	0	96	1	43	21	33	1.62

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