genome.fa.s4.2.7.7.80.10.50.1000.225.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  225  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)
74753191--74753230	14	2.9	14	84	0	53	32	7	17	42	1.77
74753199--74753265	35	1.9	35	87	3	100	31	10	13	44	1.77
74753214--74753253	20	2.0	20	85	0	53	27	12	12	47	1.77
74760281--74760320	20	2.0	20	95	0	71	20	12	30	37	1.89
74761654--74761762	54	2.0	54	98	0	209	57	5	0	36	1.22
74761672--74761757	27	3.2	27	69	18	88	53	6	0	39	1.28
74763282--74763321	20	2.0	20	100	0	80	10	25	20	45	1.81
74765686--74765755	28	2.5	28	83	0	95	35	11	25	27	1.90
74774897--74775029	49	2.7	49	78	3	151	24	29	21	25	1.99
74775047--74775074	11	2.5	11	100	0	56	25	35	10	28	1.89
74775002--74775120	57	2.1	56	84	7	152	24	31	19	25	1.98
74775058--74775221	46	3.5	45	77	8	159	24	30	17	27	1.97
74775101--74775222	47	2.6	45	80	12	140	25	30	16	27	1.97
74778858--74778894	9	4.1	9	85	0	56	45	10	10	32	1.74
74780321--74780441	59	2.1	59	100	0	242	39	7	11	41	1.69
74786480--74786511	15	2.1	15	100	0	64	43	0	31	25	1.55
74790842--74790895	19	2.9	18	78	10	56	50	9	0	40	1.35
74790842--74790880	18	2.1	19	85	4	53	53	7	0	38	1.30
74790860--74790909	26	1.9	26	83	0	64	48	8	0	44	1.32
74791487--74791520	14	2.4	15	90	9	54	23	0	0	76	0.79
74793627--74793686	2	30.0	2	100	0	120	0	50	0	50	1.00
74811796--74811835	6	6.5	6	94	2	53	80	0	5	15	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74834823--74834854	15	2.0	17	88	11	50	62	6	0	31	1.20
74835366--74835407	11	3.9	11	75	6	50	66	0	33	0	0.92
74835868--74835922	19	2.8	19	91	2	83	3	0	41	54	1.18
74837362--74837419	27	2.1	27	87	0	80	48	25	12	13	1.77
74841900--74841937	20	1.9	20	88	0	58	65	0	5	28	1.14
74842209--74842247	19	2.0	20	85	5	53	48	10	0	41	1.37
74844644--74844688	17	2.6	17	82	3	54	17	2	11	68	1.29
74848458--74848515	9	6.1	9	80	11	71	36	0	1	62	1.06
74848452--74848514	20	3.2	19	88	6	90	36	0	1	61	1.05
74849298--74849348	24	2.2	24	89	3	77	56	15	5	21	1.60
74850052--74850087	14	2.5	15	90	4	56	47	2	2	47	1.31
74850132--74850178	15	2.8	17	75	18	53	31	4	4	59	1.36
74853975--74854007	16	2.1	16	94	0	57	51	0	0	48	1.00
74854019--74854058	5	7.6	5	89	10	62	40	0	2	57	1.12
74855396--74855431	18	2.0	18	88	0	54	36	8	16	38	1.79
74873337--74873428	45	2.0	45	97	0	175	31	10	16	41	1.83
74874735--74874773	18	2.1	18	85	4	51	41	10	15	33	1.81
74874923--74874990	21	3.2	21	81	10	75	50	25	1	23	1.58
74874921--74874990	14	4.9	14	70	8	52	50	25	1	22	1.58
74875076--74875122	21	2.2	21	92	0	76	53	27	0	19	1.45
74878952--74878984	18	1.9	17	88	11	50	42	12	15	30	1.83
74879073--74879107	3	11.7	3	100	0	70	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74879354--74879514	74	2.2	75	81	9	181	34	19	16	30	1.93
74879215--74879628	188	2.2	189	82	6	498	33	18	17	30	1.94
74880749--74880822	39	1.9	38	91	2	121	41	16	2	39	1.62
74883324--74883417	39	2.4	39	96	1	172	42	0	4	53	1.20
74883383--74883449	29	2.3	28	85	7	89	43	0	0	56	0.99
74883720--74883883	9	18.7	9	81	6	176	45	20	0	33	1.56
74888944--74888972	14	2.1	14	93	6	51	34	0	10	55	1.34
74889678--74889743	31	2.1	31	88	0	96	15	9	21	54	1.68
74895713--74895783	31	2.3	30	82	2	88	56	8	11	23	1.62
74896144--74896192	24	2.0	24	100	0	98	42	12	8	36	1.72
74900908--74901091	94	2.0	94	98	0	359	42	16	2	37	1.63
74903016--74903135	15	8.0	15	68	19	63	41	0	10	47	1.43
74903505--74903563	23	2.6	23	100	0	118	6	3	42	47	1.46
74903669--74903708	19	2.2	18	86	13	55	47	0	22	30	1.52
74904601--74904643	21	2.0	23	86	9	63	46	0	0	53	1.00
74904645--74904686	20	2.0	20	86	4	57	59	2	2	35	1.23
74910061--74910097	19	1.9	19	88	0	56	37	2	21	37	1.68
74911456--74911629	70	2.3	75	80	11	189	42	0	20	36	1.56
74911962--74912022	21	2.8	22	77	7	79	19	21	24	34	1.96
74916943--74917121	39	4.6	39	89	0	268	37	23	25	13	1.92
74919377--74919484	43	2.5	44	82	8	125	36	28	13	21	1.92
74919421--74919546	43	2.9	44	82	5	130	32	26	12	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74919469--74919564	45	2.1	45	96	0	174	29	25	13	32	1.94
74920391--74920437	17	2.7	17	78	15	51	34	12	0	53	1.39
74921446--74921516	32	2.2	33	82	7	92	23	42	5	28	1.77
74923285--74923340	26	2.2	26	100	0	112	30	7	26	35	1.83
74928677--74928718	22	1.9	22	85	0	57	14	2	21	61	1.43
74928833--74928876	19	2.3	19	92	0	70	13	9	25	52	1.70
74930911--74930963	21	2.5	21	84	6	72	1	24	0	73	0.93
74930911--74930988	21	3.9	20	73	18	56	3	23	1	71	1.09
74931655--74931975	149	2.2	148	93	3	569	23	25	29	21	1.99
74934843--74934881	20	1.9	20	84	5	51	38	0	17	43	1.50
74939078--74939197	51	2.6	44	80	15	143	25	18	27	29	1.98
74939109--74939205	51	1.9	51	91	0	158	24	19	26	28	1.99
74939514--74939566	22	2.4	22	96	0	97	30	15	15	39	1.87
74941416--74941442	14	1.9	14	100	0	54	22	7	11	59	1.56
74947884--74947909	10	2.6	10	100	0	52	42	0	15	42	1.47
74948520--74948559	20	2.0	21	90	5	64	40	2	0	57	1.12
74948787--74948825	18	2.2	18	86	4	53	23	0	15	61	1.33
74948787--74948835	17	2.9	17	79	8	55	24	0	20	55	1.44
74956844--74956877	16	2.1	16	88	0	50	58	2	5	32	1.37
74961899--74961939	21	2.0	21	85	0	55	26	2	2	68	1.15
74964719--74964746	3	9.3	3	100	0	56	0	32	0	67	0.91
74966930--74967003	37	2.0	37	94	0	130	20	36	14	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74973528--74973582	29	1.9	28	85	3	74	54	10	10	23	1.67
74980170--74980233	24	2.7	23	74	16	58	29	3	4	62	1.31
74980188--74980234	24	1.9	25	83	12	62	29	4	6	59	1.41
74980170--74980234	25	2.7	23	77	18	62	29	3	4	63	1.30
74983266--74983423	43	3.6	44	80	9	182	24	15	30	29	1.95
74983277--74983435	86	1.8	86	85	6	223	23	14	28	32	1.94
74988564--74988669	27	3.9	27	82	7	99	37	19	23	18	1.94
74988557--74988671	54	2.1	54	82	3	142	38	21	22	17	1.93
74988776--74988847	28	2.7	28	85	6	87	31	9	23	34	1.87
74990281--74990338	26	2.2	26	93	0	98	36	24	5	34	1.78
74993468--74993511	3	14.7	3	95	0	79	29	0	2	68	1.02
74994118--74994184	31	2.2	32	81	13	86	35	34	2	26	1.72
74994135--74994194	31	2.0	30	93	3	102	33	36	3	26	1.73
74994138--74994191	14	3.6	14	79	13	63	33	38	1	25	1.67
74994145--74994198	14	3.6	15	80	14	67	35	35	1	27	1.68
74994534--74994590	7	8.0	7	74	3	51	47	26	1	24	1.62
74994531--74994590	14	4.1	15	74	8	70	46	28	1	23	1.62
74994697--74994774	35	2.2	35	86	2	102	19	1	29	50	1.56
74994812--74994964	40	3.8	41	80	5	177	16	24	20	37	1.94
74995419--74995457	3	13.0	3	100	0	78	33	0	0	66	0.92
74996230--74996260	2	15.5	2	100	0	62	48	0	0	51	1.00
74999918--74999990	24	3.2	23	77	16	71	38	6	0	54	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74999941--74999990	22	2.2	24	89	10	79	42	2	0	56	1.11
75000201--75000310	24	4.6	24	70	19	70	26	5	8	60	1.47
75003317--75003365	23	2.1	23	100	0	98	42	16	8	32	1.77
75008089--75008145	21	2.7	21	73	15	55	12	22	38	26	1.89
75026419--75026448	15	1.9	16	93	6	53	56	6	13	23	1.60
75031420--75031663	42	5.8	42	89	3	359	32	20	22	24	1.98
75031420--75031665	83	3.0	83	89	3	370	32	20	22	24	1.98
75031418--75031768	167	2.1	169	81	5	426	31	21	20	27	1.98
75031818--75031851	14	2.4	14	95	0	59	52	20	8	17	1.71
75032075--75032145	21	3.4	21	80	0	79	2	45	18	33	1.64

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