genome.fa.s9.2.7.7.80.10.50.1000.109.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   256   
          257   258   259   

This is table  109  of  259  ( 31025 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)
35221282--35221365	31	2.7	31	96	1	152	32	26	13	28	1.93
35221389--35221480	42	2.2	42	94	3	159	40	20	11	27	1.88
35221628--35221721	25	3.8	25	87	1	127	25	23	22	28	1.99
35222526--35222590	27	2.4	27	82	5	78	21	24	18	35	1.96
35222526--35222626	27	3.8	26	72	16	73	22	20	19	36	1.95
35222643--35222728	27	3.1	27	75	17	86	33	9	17	39	1.82
35222640--35222884	54	4.5	54	76	5	179	30	9	19	40	1.83
35222706--35222886	27	6.7	27	81	5	197	28	8	20	41	1.81
35222915--35223035	27	4.5	27	88	6	174	39	6	24	28	1.80
35222915--35223057	54	2.7	54	86	3	191	39	9	24	27	1.85
35222915--35223057	27	5.3	27	87	5	155	39	9	24	27	1.85
35225364--35225446	31	2.7	30	92	3	132	27	26	15	30	1.96
35225470--35225561	42	2.2	42	94	0	157	40	20	11	27	1.88
35225695--35225776	24	3.4	24	80	6	85	26	21	20	30	1.98
35225708--35225776	25	2.8	25	86	2	95	27	21	23	27	1.99
35226586--35226650	27	2.4	27	82	5	78	23	23	18	35	1.96
35226682--35226947	27	9.8	27	79	7	252	31	7	19	40	1.80
35226711--35226985	81	3.4	81	78	8	254	30	8	20	41	1.80
35226684--35226977	54	5.4	54	77	7	238	30	8	19	40	1.82
35226976--35227097	27	4.5	27	90	0	163	39	4	23	31	1.76
35227002--35227119	54	2.2	54	81	0	128	42	7	22	27	1.81
35228150--35228283	49	2.7	50	82	3	155	26	17	27	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35230143--35230326	40	4.6	40	85	5	212	24	23	26	25	2.00
35238920--35238959	21	2.0	20	90	5	62	35	0	22	42	1.54
35238925--35238967	21	2.1	21	83	12	54	32	0	20	46	1.51
35255466--35255506	9	4.6	9	90	6	57	53	2	2	41	1.27
35255465--35255507	18	2.4	19	84	11	63	51	4	4	39	1.44
35255585--35255638	21	2.7	20	78	21	60	61	5	1	31	1.30
35255587--35255627	18	2.2	19	87	12	59	58	4	2	34	1.32
35255650--35255693	10	4.5	10	78	16	56	70	2	0	27	0.99
35255659--35255701	19	2.3	19	84	8	52	67	2	2	27	1.15
35259161--35259192	16	2.0	16	93	0	55	34	18	0	46	1.49
35259396--35259834	50	8.7	51	77	9	386	30	25	16	26	1.97
35259397--35259789	101	3.9	100	79	6	307	29	26	17	26	1.97
35259396--35259832	151	2.9	151	88	2	590	30	26	16	26	1.97
35262802--35262859	15	3.9	14	84	8	71	53	13	18	13	1.73
35262802--35262859	30	1.9	30	86	6	82	53	13	18	13	1.73
35269851--35269878	14	2.0	14	100	0	56	28	28	21	21	1.99
35278923--35279265	180	1.9	180	88	1	517	33	19	8	38	1.82
35279846--35280332	50	9.7	50	78	5	480	29	25	17	26	1.98
35279838--35280273	151	2.9	151	90	0	676	30	25	17	26	1.97
35279846--35280329	201	2.4	200	81	4	546	29	25	17	26	1.98
35280730--35280776	19	2.3	20	82	10	60	48	14	0	36	1.44
35291313--35291383	17	3.9	17	72	20	56	67	0	29	2	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35291584--35291636	27	2.0	27	100	0	106	22	0	18	58	1.39
35291887--35292106	102	2.2	101	95	3	390	30	0	15	53	1.42
35291926--35292082	50	3.1	49	65	13	129	30	0	15	53	1.43
35292100--35292131	16	2.1	16	94	5	57	37	3	6	53	1.42
35291818--35292136	102	3.1	100	85	9	378	30	0	15	53	1.47
35293921--35293976	29	1.9	29	85	0	76	33	12	28	25	1.92
35294305--35294516	46	4.6	44	76	14	178	27	18	29	24	1.98
35301937--35301982	24	1.9	24	82	8	58	34	26	0	39	1.57
35303958--35304219	94	2.8	93	81	9	279	28	17	30	23	1.97
35303999--35304219	47	4.7	47	82	10	240	27	17	31	23	1.97
35310029--35310129	50	2.0	50	96	0	184	29	14	28	26	1.95
35311237--35311294	30	2.0	30	89	3	91	31	8	29	31	1.87
35311644--35311855	47	4.5	47	74	12	161	28	18	30	22	1.97
35311638--35311855	94	2.3	95	78	10	234	28	18	30	22	1.97
35314708--35314746	7	5.6	7	85	11	53	87	2	0	10	0.65
35314713--35314747	14	2.4	15	95	4	63	88	0	0	11	0.51
35317683--35317851	48	3.6	46	79	6	178	28	19	27	23	1.98
35317872--35317998	49	2.6	50	86	5	177	29	20	27	22	1.98
35325130--35325175	19	2.4	19	96	0	83	15	2	8	73	1.16
35329650--35330027	96	3.9	96	82	4	415	26	17	29	25	1.98
35329704--35330085	144	2.6	144	83	2	471	26	18	29	25	1.98
35329650--35330117	96	4.9	96	78	8	366	26	18	29	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35329654--35330117	240	1.9	240	83	6	600	26	18	29	25	1.98
35338964--35339188	47	4.8	48	73	11	171	28	19	29	22	1.98
35338968--35339282	94	3.4	94	81	7	331	28	20	28	22	1.99
35340092--35340204	55	2.1	55	81	6	131	23	26	26	23	2.00
35340754--35340883	69	1.9	70	83	1	172	36	19	24	20	1.95
35348525--35348608	35	2.4	35	93	2	141	15	11	28	44	1.82
35349413--35349454	20	2.1	20	95	0	75	54	9	7	28	1.59
35352021--35352089	34	2.0	34	100	0	138	28	24	2	43	1.69
35352655--35352823	46	3.7	43	81	10	142	22	27	18	30	1.98
35352655--35352823	92	1.8	92	83	7	225	22	27	18	30	1.98
35353539--35353597	29	2.0	29	96	0	109	49	16	6	27	1.71
35367014--35367075	29	2.0	29	84	15	79	11	12	16	59	1.61
35371874--35372086	47	4.5	45	74	10	160	28	18	28	24	1.98
35373544--35373677	68	2.0	69	87	1	198	33	16	27	22	1.95
35373545--35373697	69	2.2	69	83	2	182	33	18	26	20	1.96
35381321--35381404	35	2.4	35	87	2	123	16	10	27	45	1.81
35382209--35382250	20	2.1	20	95	0	75	54	9	7	28	1.59
35385271--35385397	49	2.6	49	81	8	161	21	26	22	29	1.99
35386304--35386362	29	2.0	29	93	0	100	47	18	6	27	1.74
35395788--35396003	68	3.1	69	82	4	256	31	16	28	23	1.96
35395808--35395992	69	2.7	70	83	2	223	32	15	27	24	1.95
35396024--35396169	54	2.6	54	78	3	157	43	11	20	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35399859--35400341	47	10.1	47	88	4	678	31	12	30	26	1.93
35399859--35400341	147	3.4	142	87	4	609	31	12	30	26	1.93
35399859--35400341	194	2.5	193	91	2	780	31	12	30	26	1.93
35400151--35400225	23	3.2	23	62	23	57	29	10	32	28	1.90
35400315--35400405	46	2.0	45	82	8	112	31	9	32	25	1.89
35400552--35400733	37	4.9	37	95	0	319	24	19	30	25	1.98
35404421--35404520	29	3.5	29	88	2	148	29	13	27	31	1.93
35404425--35404533	57	1.9	57	86	3	157	26	13	30	29	1.94
35406491--35406544	28	1.9	28	92	0	90	1	27	5	64	1.26
35406518--35406591	39	1.9	39	83	2	96	6	25	8	59	1.51
35410165--35410232	16	4.2	16	96	0	127	38	35	0	26	1.57
35417292--35417388	42	2.3	42	83	0	131	21	28	22	26	1.99
35418455--35418537	42	2.0	42	92	0	139	24	20	28	26	1.99
35433074--35433244	46	3.7	46	79	13	167	26	18	29	24	1.98
35439924--35439949	13	2.0	13	100	0	52	38	7	23	30	1.83
35441394--35441474	6	12.5	6	76	18	51	76	3	1	18	1.00
35441392--35441470	14	5.4	14	73	11	52	75	3	1	18	1.02
35441393--35441470	15	5.3	15	71	7	52	76	3	1	17	1.00
35441442--35441474	11	3.1	11	86	4	50	78	0	0	21	0.75
35441434--35441479	17	2.5	19	82	13	60	71	2	2	23	1.08
35441729--35441797	19	3.3	20	72	18	52	57	2	7	31	1.40
35441738--35441848	7	14.9	7	67	22	57	56	0	6	36	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35441738--35441848	10	10.6	10	69	23	61	56	0	6	36	1.31
35441763--35441848	30	2.9	30	77	14	83	58	0	4	37	1.19
35443451--35443967	44	11.8	44	88	2	736	26	27	16	29	1.97
35454046--35454262	40	5.5	39	86	3	265	24	22	27	26	2.00
35454048--35454262	80	2.7	80	88	3	310	24	21	26	26	2.00
35459014--35459051	16	2.4	16	86	4	51	68	5	0	26	1.11
35459348--35459435	12	7.7	12	67	21	55	59	0	4	36	1.18
35459348--35459435	10	8.1	10	72	20	54	59	0	4	36	1.18
35459348--35459433	7	10.4	8	72	20	54	59	0	4	36	1.18
35459392--35459444	25	2.1	25	82	6	63	62	1	3	32	1.24

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   256   
          257   258   259