genome.fa.s4.2.7.7.80.10.50.1000.126.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  126  of  255  ( 30512 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)
40250714--40251261	40	13.7	40	88	2	778	27	27	20	25	1.99
40252489--40252567	37	2.1	37	90	0	122	25	31	18	24	1.98
40252697--40253197	49	10.3	49	95	0	812	27	29	9	32	1.89
40262796--40262855	30	2.0	30	83	0	75	30	21	6	41	1.79
40266740--40268129	694	2.0	694	97	0	2611	36	10	15	37	1.82
40268483--40268549	23	2.9	23	86	6	91	26	25	17	29	1.98
40268483--40268563	23	3.4	23	81	6	83	25	24	22	27	2.00
40270410--40270631	46	4.7	47	77	10	197	22	30	21	25	1.99
40276787--40276979	47	4.1	47	88	0	271	33	10	29	26	1.90
40276816--40276887	22	3.1	22	64	24	58	33	13	29	23	1.93
40276949--40277132	50	3.7	50	88	7	286	37	6	25	30	1.81
40276950--40277135	98	1.9	98	96	0	345	37	6	25	30	1.81
40276949--40277156	50	4.2	50	81	13	234	35	6	26	31	1.83
40277281--40277389	37	2.9	37	94	0	182	22	20	30	26	1.98
40278656--40278927	40	6.8	40	94	0	472	25	21	27	25	1.99
40281910--40282056	47	3.1	47	82	0	177	32	9	30	27	1.88
40282026--40282209	50	3.7	50	89	7	295	36	7	25	30	1.83
40282027--40282226	98	2.0	98	96	0	364	35	7	26	30	1.84
40282355--40282464	37	3.0	36	94	2	184	22	20	29	28	1.98
40288113--40288543	216	2.0	216	93	0	729	39	15	17	28	1.89
40289129--40289153	13	1.9	13	100	0	50	8	36	40	16	1.77
40296382--40296587	55	3.8	54	78	7	211	34	17	25	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40303442--40303675	55	4.4	54	80	12	245	37	16	24	21	1.93
40303888--40303918	16	1.9	16	93	0	53	41	0	22	35	1.54
40323877--40324108	100	2.3	99	86	5	301	22	28	20	28	1.99
40323877--40324110	50	4.7	50	80	7	255	23	28	20	28	1.98
40326749--40326793	14	3.0	15	87	6	56	57	15	15	11	1.64
40329571--40329696	47	2.7	46	83	13	152	21	20	29	28	1.98
40337104--40337279	46	3.8	46	79	14	209	20	20	29	29	1.98
40337101--40337272	93	1.8	93	95	2	310	20	20	29	28	1.98
40339910--40340025	39	3.0	39	87	0	160	28	25	19	25	1.99
40344740--40345089	40	8.8	40	95	0	592	24	27	20	27	1.99
40351426--40351529	39	2.7	39	92	0	172	26	25	21	25	1.99
40355663--40355901	50	4.8	50	81	3	250	22	30	17	29	1.97
40359168--40359228	30	2.0	30	83	0	77	29	21	9	39	1.85
40361608--40361645	20	1.9	19	89	5	58	55	21	0	23	1.44
40361608--40361645	19	2.0	20	85	15	53	55	21	0	23	1.44
40362355--40362449	43	2.2	41	78	10	100	23	26	16	33	1.96
40363529--40363555	14	1.9	14	100	0	54	70	7	0	22	1.12
40368885--40368954	28	2.5	28	88	9	99	27	14	27	31	1.95
40386583--40386696	27	4.3	27	80	3	133	34	16	23	25	1.95
40388200--40388238	19	2.1	19	90	0	60	33	12	10	43	1.77
40396168--40396348	40	4.6	40	83	6	217	25	28	21	24	1.99
40396135--40396318	79	2.3	80	82	7	216	25	26	21	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40396168--40396348	79	2.3	79	81	8	206	25	28	21	24	1.99
40401676--40401770	40	2.4	40	87	7	131	26	14	30	28	1.95
40406548--40406581	15	2.3	15	89	0	50	58	8	0	32	1.29
40412787--40412814	13	2.2	13	100	0	56	28	0	14	57	1.38
40412810--40412853	23	1.9	23	81	9	54	63	0	13	22	1.29
40414232--40414397	40	4.2	40	90	2	255	22	21	27	28	1.99
40416270--40416440	43	4.0	43	70	8	150	28	17	22	31	1.97
40424668--40424723	29	2.0	28	92	3	94	28	33	16	21	1.95
40427231--40427402	93	1.8	93	92	0	290	28	29	20	20	1.98
40427224--40427399	46	3.8	46	78	12	198	29	29	20	20	1.98
40434337--40434508	93	1.8	93	92	0	290	28	29	20	20	1.98
40434330--40434505	46	3.8	46	78	12	198	29	29	20	20	1.98
40441478--40441533	26	2.1	28	83	12	73	21	5	3	69	1.24
40445407--40445468	21	2.9	21	87	2	97	19	27	40	12	1.88
40446591--40446772	99	1.9	96	85	5	249	24	31	18	24	1.97
40446786--40446912	46	2.7	46	87	4	166	23	27	18	29	1.98
40453106--40453184	22	3.6	22	89	6	133	20	27	39	12	1.89
40466268--40466296	13	2.2	13	100	0	58	31	0	13	55	1.39
40472836--40472864	13	2.2	13	100	0	58	31	0	13	55	1.39
40475652--40475856	9	22.3	9	67	15	75	62	2	4	30	1.29
40475651--40475731	39	2.1	38	81	6	92	61	4	2	30	1.30
40475825--40475882	19	2.9	19	80	10	55	68	6	3	20	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40476079--40476124	11	4.4	11	78	8	51	17	0	2	80	0.81
40476149--40476183	17	2.1	16	89	5	52	37	5	0	57	1.23
40476237--40476274	20	1.9	20	89	10	60	34	2	0	63	1.09
40476234--40476301	29	2.3	28	85	7	82	35	1	4	58	1.27
40479724--40479788	24	2.7	24	82	0	85	50	6	13	29	1.66
40482666--40482816	68	2.3	64	79	12	146	31	15	26	26	1.96
40482735--40482918	67	2.8	64	76	7	192	30	16	29	23	1.96
40485982--40486058	25	3.1	25	83	1	93	27	19	20	32	1.97
40486854--40486915	27	2.3	27	80	5	72	22	24	17	35	1.95
40486969--40487076	27	3.9	28	75	14	91	32	9	17	40	1.81
40486966--40487130	54	3.0	54	79	8	147	31	9	18	40	1.83
40487033--40487156	27	4.6	28	80	11	125	29	6	20	43	1.77
40487170--40487272	54	1.9	54	95	0	188	38	7	23	30	1.83
40487166--40487283	54	2.2	54	84	0	173	38	7	21	33	1.82
40487168--40487272	27	3.9	27	89	0	156	39	7	22	30	1.82
40487251--40487311	27	2.3	27	82	0	68	34	8	16	40	1.78
40487169--40487296	54	2.4	54	85	0	148	38	7	21	32	1.82
40502500--40502583	42	2.0	42	92	0	141	44	14	10	30	1.79
40502612--40502655	19	2.4	18	88	7	70	45	15	2	36	1.59
40508251--40508461	40	5.3	39	80	8	205	25	23	26	25	2.00
40508251--40508434	80	2.3	80	87	3	255	26	23	25	24	2.00
40508697--40508740	22	2.0	22	82	8	54	31	11	13	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40510024--40510073	19	2.7	18	93	3	82	46	14	2	38	1.56
40510408--40510529	47	2.6	47	77	3	129	37	26	13	22	1.91
40511310--40511358	22	2.1	24	85	7	66	26	0	51	22	1.49
40519016--40519052	16	2.3	16	95	0	65	8	27	5	59	1.48
40519029--40519082	23	2.4	23	82	14	60	7	24	7	61	1.49
40525500--40525614	54	2.1	54	86	0	167	34	17	13	34	1.88
40525508--40525613	27	3.9	27	82	4	142	35	15	12	36	1.84
40525593--40525682	27	3.3	27	84	3	83	40	16	16	26	1.90
40525511--40525640	54	2.4	53	79	5	145	36	16	13	33	1.88
40525620--40525685	27	2.4	27	92	5	107	39	16	19	24	1.92
40525818--40525900	27	3.1	27	76	10	91	22	21	19	36	1.95
40525825--40525923	27	3.7	27	75	11	87	22	22	19	36	1.95
40526090--40526186	33	2.9	33	83	3	97	25	19	23	30	1.98
40527499--40527772	40	6.8	40	80	1	262	18	27	15	37	1.92
40527639--40527740	20	5.1	20	64	0	60	14	28	19	37	1.91
40527499--40527783	121	2.4	120	83	4	342	19	28	15	37	1.92
40527499--40527772	80	3.4	79	83	2	296	18	27	15	37	1.92
40534351--40534944	48	12.4	48	88	4	871	36	7	26	29	1.84
40534351--40534944	98	6.2	96	87	5	871	36	7	26	29	1.84
40534352--40534899	186	2.9	185	92	3	855	36	7	25	30	1.84
40536446--40536813	40	9.2	40	89	4	532	25	20	27	27	1.99
40536841--40536921	29	2.9	28	78	9	92	20	16	30	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40536841--40536944	28	3.7	28	78	11	97	21	16	30	31	1.95
40540166--40540814	48	13.4	48	91	1	1030	36	7	26	30	1.83
40540167--40540806	194	3.3	194	94	1	1079	35	7	26	30	1.84
40540166--40540814	146	4.5	144	90	2	1030	36	7	26	30	1.83
40542973--40543146	48	3.6	48	79	1	179	29	21	26	21	1.99
40545254--40545386	69	1.9	70	92	1	223	32	13	17	36	1.89
40546131--40546537	39	10.3	39	84	2	404	23	22	25	28	1.99
40546147--40546478	40	8.4	40	85	2	350	22	22	26	28	1.99
40546150--40546480	119	2.8	119	85	2	459	22	22	26	28	1.99
40546129--40546551	158	2.7	157	81	4	494	22	22	25	29	1.99

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255