genome.fa.s11.2.7.7.80.10.50.1000.163.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  163  of  210  ( 25152 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)
49133949--49134025	32	2.4	32	80	6	84	18	35	24	22	1.96
49135286--49135369	41	2.0	43	90	4	136	54	17	10	16	1.70
49137837--49137879	22	2.0	22	90	0	68	9	13	27	48	1.73
49137969--49138263	42	7.0	42	81	5	303	31	20	21	27	1.98
49138695--49138785	21	4.3	21	81	2	101	3	40	21	34	1.70
49138695--49138773	21	3.7	21	86	3	104	2	40	22	34	1.68
49144252--49144522	9	32.1	9	71	14	175	29	2	20	46	1.64
49144250--49144469	25	8.7	25	81	3	235	30	2	21	45	1.66
49144245--49144485	16	14.4	16	71	13	134	29	2	21	46	1.64
49144250--49144507	50	5.3	50	80	8	266	29	2	20	46	1.65
49144245--49144507	75	3.6	75	82	7	303	29	2	20	47	1.64
49144388--49144502	41	2.8	40	85	5	124	31	2	19	46	1.63
49144454--49144519	25	2.6	25	87	0	96	31	1	13	53	1.49
49144770--49144830	17	3.5	18	69	22	58	52	4	0	42	1.23
49144703--49145057	87	4.0	86	81	10	418	48	4	3	42	1.42
49144918--49144950	15	2.2	15	94	0	57	54	3	3	39	1.31
49144965--49145109	52	3.0	46	90	9	154	46	4	5	44	1.46
49144965--49145026	21	3.0	21	70	23	51	48	4	4	41	1.46
49144984--49145109	52	2.4	52	100	0	252	46	3	4	45	1.43
49145026--49145107	24	3.2	24	67	29	71	43	3	6	46	1.46
49144807--49145244	229	1.9	229	98	0	849	48	4	5	41	1.46
49145147--49145179	15	2.2	15	94	0	57	54	3	3	39	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49146563--49146615	25	2.2	24	83	10	63	33	1	41	22	1.65
49147148--49147196	22	2.2	22	96	0	89	34	30	4	30	1.76
49147801--49148193	189	2.1	189	90	2	612	27	20	21	30	1.98
49155142--49155390	50	4.8	50	84	4	291	20	28	23	26	1.99
49155141--49155390	100	2.4	104	87	5	346	20	28	23	26	1.99
49155485--49155515	13	2.4	13	94	0	53	54	12	0	32	1.38
49155728--49155785	30	1.9	30	89	0	89	31	24	3	41	1.71
49158709--49159262	276	2.0	276	97	0	1045	39	17	15	27	1.90
49160666--49160696	15	2.1	15	93	0	53	45	0	3	51	1.17
49161270--49161312	21	2.0	21	100	0	86	23	13	30	32	1.93
49166620--49166688	32	2.2	32	86	0	93	60	1	2	34	1.20
49166677--49166710	14	2.5	13	90	4	50	79	0	0	20	0.73
49175441--49175500	3	20.3	3	82	3	77	63	3	3	30	1.27
49177199--49178171	44	22.8	40	70	14	305	25	24	20	29	1.99
49177157--49178166	131	7.9	127	73	10	401	25	24	20	30	1.99
49177323--49178171	131	6.6	128	77	8	670	25	24	19	29	1.99
49177361--49178185	174	4.8	174	93	2	1351	25	24	19	29	1.99
49182508--49183047	44	12.4	43	79	3	467	26	25	20	28	1.99
49182760--49183009	131	1.9	131	90	1	394	26	24	20	28	1.99
49182508--49183047	175	3.1	175	92	1	890	26	25	20	28	1.99
49183207--49183400	44	4.5	44	70	8	155	30	20	18	31	1.96
49183107--49183528	129	3.3	129	88	3	593	29	21	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49183290--49183486	44	4.5	44	69	14	115	29	20	18	31	1.96
49185569--49185644	37	2.1	37	100	0	152	15	23	18	42	1.89
49185650--49185684	13	2.7	13	91	8	54	0	22	0	77	0.78
49185780--49185836	20	2.8	20	84	10	73	8	3	8	78	1.05
49185757--49185847	20	4.3	21	74	17	64	8	8	7	74	1.22
49190458--49190514	18	3.4	17	85	4	62	63	5	1	29	1.27
49190448--49190501	3	18.3	3	78	3	56	61	3	3	31	1.31
49193080--49193114	14	2.6	14	90	4	54	37	0	8	54	1.31
49193800--49193866	21	3.2	21	86	0	80	31	44	0	23	1.54
49193808--49193866	7	8.4	7	86	0	73	32	45	0	22	1.52
49193997--49194179	41	4.5	41	85	2	206	27	26	20	25	1.99
49194019--49194179	81	2.0	81	85	4	218	26	27	21	24	1.99
49194266--49194381	40	2.9	40	93	0	205	20	23	23	32	1.98
49199924--49200047	65	1.9	65	100	0	248	30	23	16	29	1.97
49211668--49211713	13	3.7	13	83	13	53	52	21	8	17	1.71
49211693--49211726	11	3.1	11	91	0	50	58	17	11	11	1.62
49213570--49213616	11	4.5	11	79	12	55	31	0	17	51	1.46
49213577--49213606	15	2.1	14	93	6	51	33	0	16	50	1.46
49215808--49215853	24	1.9	24	95	0	83	41	15	10	32	1.82
49218001--49218045	21	2.0	23	83	8	58	37	4	13	44	1.64
49218216--49218260	23	2.0	23	81	0	54	22	0	15	62	1.33
49221695--49221719	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49226066--49226105	21	1.9	21	100	0	80	20	25	15	40	1.90
49230731--49230819	34	2.6	32	76	15	81	38	13	16	31	1.88
49231516--49231865	113	3.1	112	77	8	395	33	17	20	28	1.95
49231807--49231950	74	1.9	74	82	0	180	33	15	22	29	1.94
49231665--49232464	188	4.1	188	80	9	975	32	16	21	28	1.95
49232197--49232334	74	1.9	74	87	0	204	28	17	23	30	1.97
49232271--49232507	114	2.1	114	81	7	268	32	16	24	27	1.96
49232818--49232851	14	2.3	15	90	5	52	35	0	29	35	1.58
49232881--49232938	21	2.9	21	89	5	93	13	0	51	34	1.42
49232885--49232938	7	8.0	7	83	8	76	12	0	55	31	1.38
49232886--49232964	40	2.0	40	82	0	95	17	0	48	34	1.48
49235504--49235547	18	2.4	19	84	3	54	13	15	13	56	1.67
49235551--49235637	7	12.3	7	90	2	138	2	12	12	72	1.22
49237806--49237857	13	4.0	13	87	9	70	44	9	3	42	1.55
49237825--49237960	53	2.6	53	87	4	211	38	10	5	45	1.63
49238105--49238355	9	28.8	9	70	12	166	45	19	3	31	1.67
49238264--49238363	25	4.0	25	75	12	87	46	18	3	33	1.64
49240776--49240887	42	2.7	42	91	2	181	23	22	23	31	1.99
49242059--49242355	150	2.0	150	94	0	524	37	13	6	43	1.70
49243121--49243179	22	2.7	22	72	15	59	42	0	6	50	1.28
49243766--49243846	40	2.0	40	100	0	162	43	14	17	24	1.87
49246370--49246455	40	2.1	42	82	4	104	41	18	6	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49250541--49250589	22	2.2	22	78	7	55	55	2	2	40	1.23
49250648--49250680	11	3.0	11	83	16	50	78	9	12	0	0.95
49252182--49252222	2	20.5	2	100	0	82	48	0	0	51	1.00
49252787--49252852	32	2.1	32	94	0	114	37	12	10	39	1.77
49267665--49267741	35	2.2	36	88	4	120	51	15	3	28	1.61
49267709--49267777	27	2.5	28	81	6	79	52	20	2	24	1.60
49280243--49280282	21	1.9	21	84	0	53	50	0	0	50	1.00
49290232--49290278	21	2.2	22	88	3	69	48	14	6	29	1.69
49291366--49291403	14	2.6	14	84	15	51	39	0	2	57	1.12
49295864--49295953	40	2.2	40	76	5	92	34	21	23	21	1.97
49295991--49296338	113	3.1	111	86	5	464	27	24	21	27	1.99
49299388--49299440	21	2.5	21	87	0	70	33	18	39	7	1.79
49299801--49300167	42	8.6	43	82	4	343	24	19	25	30	1.98
49299775--49300212	84	5.2	84	78	4	373	24	21	24	28	1.99
49301513--49301565	17	3.2	16	81	7	61	33	1	5	58	1.32
49310022--49310182	79	2.0	79	97	0	304	11	24	7	56	1.60
49310934--49310969	2	18.0	2	100	0	72	50	0	0	50	1.00
49311609--49311645	17	2.4	16	86	13	51	8	29	0	62	1.24
49314040--49314078	3	13.0	3	100	0	78	33	0	0	66	0.92
49315175--49315202	2	14.0	2	100	0	56	50	0	0	50	1.00
49319400--49319452	26	2.0	28	85	14	76	35	16	11	35	1.85
49325025--49325072	21	2.3	21	82	7	53	68	0	6	25	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49343663--49343726	23	2.7	23	81	9	76	46	3	0	50	1.17
49354087--49354136	6	8.5	6	77	4	57	78	4	4	14	1.05
49363297--49363440	41	3.5	41	94	0	234	30	22	20	26	1.98
49363578--49363742	64	2.5	67	80	7	180	43	15	7	33	1.76
49365129--49365228	46	2.1	47	92	1	166	28	1	30	41	1.63
49365327--49365362	18	2.0	18	89	10	56	44	2	25	27	1.68
49368181--49368226	23	2.0	23	86	0	65	13	41	13	32	1.82
49370688--49370723	19	1.9	19	88	5	56	50	8	0	41	1.33
49372810--49372845	18	2.0	17	89	10	54	77	0	0	22	0.76
49372812--49372844	17	1.9	17	88	11	50	78	0	0	21	0.75

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