genome.fa.s8.2.7.7.80.10.50.1000.53.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  53  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)
14990884--14990919	18	2.1	17	90	10	56	50	16	11	22	1.77
14995421--14995514	41	2.3	41	88	0	143	21	26	26	25	1.99
15009108--15009146	17	2.2	19	86	9	55	28	2	2	66	1.18
15012769--15012813	21	2.0	21	87	8	63	80	6	8	4	1.03
15013249--15013304	6	9.2	6	77	14	53	76	5	16	1	1.05
15013256--15013297	20	2.2	19	87	12	59	78	7	14	0	0.95
15013640--15013836	109	1.8	108	86	3	288	25	18	10	45	1.80
15014308--15014655	44	8.0	44	76	6	316	26	15	28	30	1.96
15014361--15014657	129	2.3	131	88	3	440	26	15	27	30	1.96
15014721--15015173	100	4.5	100	85	3	581	29	21	22	25	1.99
15014746--15015173	50	8.6	50	69	4	236	29	22	22	25	1.99
15014721--15015173	200	2.3	200	87	3	646	29	21	22	25	1.99
15015214--15015906	40	16.3	40	67	14	262	33	21	20	23	1.97
15015182--15015777	129	4.7	128	91	1	948	33	22	20	23	1.97
15015182--15015849	88	7.8	87	69	13	357	34	22	19	23	1.97
15015182--15015777	257	2.3	256	91	1	973	33	22	20	23	1.97
15015538--15015956	213	2.0	215	86	3	594	34	21	19	25	1.96
15015707--15015867	44	3.7	44	72	12	141	33	21	20	24	1.97
15017615--15017653	17	2.2	19	86	9	55	28	2	2	66	1.18
15019476--15019536	24	2.5	24	82	12	79	77	6	6	9	1.13
15019481--15019541	22	2.6	22	82	10	68	75	6	4	13	1.16
15019470--15019576	33	3.3	34	71	13	82	71	5	8	14	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15027135--15027325	50	3.8	50	79	3	197	26	21	29	22	1.99
15029433--15029477	23	2.0	23	95	0	81	40	22	11	26	1.87
15032472--15033035	50	11.4	50	86	5	765	25	20	31	21	1.98
15032734--15032812	39	2.0	39	92	0	131	24	17	37	20	1.93
15032684--15032962	89	3.0	89	83	10	369	24	20	34	20	1.96
15032584--15032962	189	2.0	189	93	0	650	24	20	34	21	1.97
15032534--15033009	239	2.0	238	92	0	781	25	21	33	20	1.97
15034579--15034622	23	1.9	23	90	0	70	40	25	4	29	1.75
15036548--15036593	23	2.0	22	84	16	58	43	2	23	30	1.66
15044786--15045016	29	7.9	29	81	5	243	20	26	14	38	1.92
15044782--15045073	88	3.3	88	84	5	317	23	25	13	37	1.92
15044786--15045073	29	9.8	29	78	3	236	23	25	13	37	1.92
15047330--15047377	23	2.1	23	100	0	96	29	33	8	29	1.86
15051438--15051504	25	2.7	25	78	17	84	28	25	19	26	1.99
15059444--15059472	15	1.9	15	100	0	58	10	34	27	27	1.89
15075610--15075673	30	2.2	29	81	10	76	29	28	6	35	1.82
15075617--15075673	30	1.9	30	85	3	80	29	24	7	38	1.82
15080517--15080780	130	2.0	130	96	0	483	31	17	14	36	1.89
15085327--15085357	16	2.0	16	93	6	55	32	0	9	58	1.31
15090799--15090876	28	2.8	28	81	14	81	28	3	2	65	1.23
15094586--15094628	18	2.7	15	86	13	52	37	4	0	58	1.19
15099968--15100126	85	1.9	85	79	0	183	38	16	17	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15110834--15110897	13	4.9	13	73	7	58	35	9	20	34	1.85
15110838--15110897	26	2.3	25	80	8	75	38	8	20	33	1.82
15111539--15111599	30	2.0	30	100	0	122	32	22	6	37	1.80
15117461--15117503	21	1.9	24	86	13	65	51	0	0	48	1.00
15117649--15117687	11	3.5	11	86	6	53	48	0	5	46	1.24
15119046--15119070	7	3.6	7	100	0	50	16	0	0	84	0.63
15124002--15124091	28	3.3	27	79	13	85	17	26	18	36	1.94
15125752--15125797	23	2.0	23	100	0	92	30	30	13	26	1.93
15132219--15132349	41	3.1	41	79	5	120	32	26	12	27	1.93
15138023--15138125	51	2.0	51	100	0	206	32	5	17	44	1.72
15143848--15143896	26	1.9	26	83	4	64	30	28	14	26	1.95
15143868--15143979	50	2.2	50	83	0	134	34	23	13	28	1.92
15150327--15150520	75	2.6	75	84	0	226	30	3	19	46	1.65
15162932--15162964	17	2.0	17	88	5	50	57	9	0	33	1.30
15163690--15163731	22	1.9	22	90	0	66	21	23	30	23	1.99
15170644--15170828	100	1.8	100	94	3	327	33	16	11	38	1.84
15170978--15171038	22	2.7	22	89	2	86	50	1	1	45	1.21
15171014--15171053	16	2.5	16	91	0	62	50	2	7	40	1.44
15171126--15171151	9	2.9	9	100	0	52	34	0	7	57	1.27
15171042--15171251	68	3.1	68	95	1	379	40	4	8	45	1.56
15171194--15171221	9	3.1	9	100	0	56	32	0	10	57	1.33
15171911--15171942	15	2.2	15	94	5	57	53	6	3	37	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15178206--15178268	24	2.6	24	94	0	108	23	25	6	44	1.77
15188215--15188260	22	2.1	22	100	0	92	32	13	32	21	1.92
15192286--15192330	22	2.0	22	100	0	90	26	22	24	26	2.00
15193831--15194068	33	6.8	33	69	22	146	21	19	27	31	1.97
15193724--15194031	103	3.0	103	94	1	512	22	19	26	31	1.97
15197413--15197602	27	7.0	27	83	5	107	20	15	21	42	1.89
15197427--15197602	54	3.3	53	84	1	226	19	17	19	43	1.88
15197426--15197602	81	2.2	81	84	0	237	19	16	20	43	1.88
15202766--15202798	3	11.0	3	100	0	66	66	0	0	33	0.92
15202858--15202892	16	2.3	16	90	9	56	82	0	17	0	0.66
15204009--15204101	18	4.7	18	73	22	80	47	1	27	23	1.59
15203997--15204081	42	2.0	42	95	0	152	44	3	28	23	1.70
15204007--15204065	21	2.8	20	71	28	52	47	3	27	22	1.67
15204060--15204121	32	1.9	33	83	9	83	46	1	25	25	1.62
15206136--15206188	2	26.5	2	100	0	106	50	0	0	49	1.00
15206871--15206912	16	2.5	17	76	7	50	40	0	0	59	0.97
15208157--15208197	2	21.0	2	95	5	75	48	0	0	51	1.00
15208469--15208607	24	5.7	24	74	12	95	32	20	28	18	1.97
15208469--15208632	49	3.4	48	75	9	129	33	20	26	19	1.96
15208978--15209019	21	2.0	21	85	0	57	42	23	0	33	1.55
15213289--15213336	21	2.3	21	76	16	55	62	2	0	35	1.07
15216329--15216393	33	2.0	33	96	0	121	33	9	26	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15217470--15217520	24	2.1	24	85	7	68	49	1	3	45	1.32
15217516--15217627	60	1.9	57	82	8	136	43	3	2	50	1.33
15217797--15217831	16	2.2	16	94	0	61	31	31	0	37	1.58
15218515--15218562	22	2.2	22	85	7	62	39	2	0	58	1.10
15219893--15219925	10	3.4	10	87	8	50	42	0	27	30	1.56
15222934--15222980	25	1.9	25	86	4	69	14	25	21	38	1.92
15223055--15223105	27	2.0	27	84	7	70	19	25	21	33	1.97
15223144--15223221	24	3.2	25	73	12	81	19	30	17	32	1.95
15226005--15226057	27	2.0	27	84	0	70	30	30	13	26	1.94
15226073--15226161	45	2.0	45	90	0	142	31	26	17	23	1.97
15227369--15227406	19	2.0	19	94	0	67	44	0	23	31	1.54
15227369--15227404	10	3.7	10	85	7	56	47	0	25	27	1.52
15233012--15233076	20	3.3	20	70	12	62	55	7	16	20	1.65
15233001--15233081	39	2.1	39	92	0	135	53	6	19	20	1.67
15233446--15233479	9	3.9	9	88	3	52	0	8	2	88	0.62
15233919--15233956	17	2.2	17	86	9	51	44	2	2	50	1.30
15233926--15233970	21	2.1	21	84	8	56	42	2	4	51	1.34
15234689--15234885	98	2.0	98	95	0	358	28	11	24	36	1.90
15236600--15236686	11	8.4	11	71	21	71	58	0	2	39	1.11
15236631--15236694	30	2.1	30	94	0	110	60	0	1	37	1.06
15236611--15236740	38	3.3	38	91	3	197	62	0	2	35	1.08
15236585--15236724	11	12.6	11	68	20	69	59	0	2	37	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15238598--15238628	6	5.2	6	100	0	62	83	0	16	0	0.64
15245013--15245189	59	2.9	58	85	5	219	43	2	2	51	1.26
15246991--15247032	2	21.0	2	100	0	84	50	0	0	50	1.00
15251938--15252011	19	3.5	21	75	13	62	33	8	17	40	1.79
15251953--15252011	23	2.6	23	79	10	59	33	6	18	40	1.77
15254920--15254958	20	2.0	20	94	0	69	30	10	30	28	1.90
15254899--15255093	66	2.9	66	86	0	282	32	14	22	31	1.93
15255057--15255134	22	3.6	22	79	6	72	29	12	24	33	1.92
15259569--15259641	37	2.0	37	97	0	137	19	9	12	58	1.60
15259579--15259642	18	3.5	18	68	4	56	21	9	9	59	1.57

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