genome.fa.s9.2.7.7.80.10.50.1000.12.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  12  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)
3441520--3441619	40	2.5	40	83	1	130	13	19	26	42	1.87
3445326--3445371	19	2.4	19	77	0	56	58	2	4	34	1.30
3447395--3447577	90	2.0	90	100	0	366	25	19	22	31	1.98
3447855--3447936	42	2.0	42	95	0	146	35	15	3	45	1.64
3447869--3447959	42	2.2	41	86	7	121	40	10	3	45	1.56
3448086--3448142	8	7.1	8	76	21	57	49	0	0	50	1.00
3448086--3448144	30	1.9	32	89	6	95	50	0	0	49	1.00
3450136--3450161	11	2.4	11	100	0	52	15	0	7	76	0.99
3450352--3450594	41	5.9	41	82	3	258	38	21	16	23	1.93
3450353--3450594	82	2.9	81	85	4	290	38	21	15	23	1.92
3450367--3450594	123	1.9	123	82	3	289	38	22	14	24	1.92
3450735--3450776	11	3.8	11	93	0	75	26	9	0	64	1.24
3450735--3450784	22	2.2	22	89	3	73	24	8	0	68	1.16
3452307--3452420	40	2.8	40	84	10	142	32	20	21	25	1.98
3463021--3463123	31	3.4	29	76	8	107	52	6	1	38	1.39
3464834--3464962	64	2.0	64	90	3	206	30	16	14	38	1.89
3465115--3465508	177	2.2	177	90	0	610	29	21	22	26	1.99
3466982--3467032	24	2.1	24	100	0	102	19	11	11	56	1.65
3467060--3467099	16	2.5	16	84	8	55	35	0	2	62	1.09
3467843--3468153	126	2.5	126	86	2	426	27	15	18	38	1.91
3470577--3470611	12	2.9	12	87	12	54	57	0	0	42	0.99
3477011--3477036	13	2.0	13	100	0	52	23	0	30	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3488867--3489055	49	3.8	49	83	2	252	27	26	19	26	1.99
3488873--3489060	100	1.9	100	96	0	349	27	26	20	25	1.99
3493939--3494037	40	2.5	40	79	12	125	16	16	25	42	1.88
3504798--3504991	9	20.6	9	68	20	69	63	2	2	31	1.19
3504864--3505022	10	16.2	10	67	22	70	63	3	2	30	1.23
3504864--3504963	19	5.2	19	74	14	71	64	3	3	30	1.24
3504889--3504965	21	3.8	21	75	6	68	66	2	3	27	1.22
3504888--3504963	40	1.9	40	86	0	107	64	2	3	28	1.25
3504870--3505028	58	2.7	56	76	12	151	62	3	3	30	1.26
3504960--3505054	39	2.5	39	75	11	97	62	2	3	32	1.23
3505246--3505295	19	2.8	17	85	11	64	34	2	0	64	1.05
3505252--3505287	18	1.9	19	94	5	65	36	2	0	61	1.11
3505321--3505543	88	2.5	89	81	5	229	33	9	17	39	1.82
3507806--3507875	31	2.3	31	85	5	88	22	2	38	35	1.69
3518591--3518689	27	3.7	27	81	4	101	18	22	21	38	1.93
3518578--3518689	54	2.1	54	86	3	154	16	22	22	38	1.93
3534138--3534217	42	1.9	42	89	5	126	51	5	3	40	1.42
3535523--3535602	19	3.8	20	73	15	63	62	5	0	32	1.17
3536299--3536338	21	1.9	20	85	10	53	10	40	0	50	1.36
3538673--3538730	32	1.9	30	82	10	73	53	12	5	29	1.59
3538753--3538783	16	1.9	16	93	0	53	58	0	0	41	0.98
3545644--3545685	22	1.9	22	95	0	75	35	14	19	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3547549--3547593	15	3.0	15	100	0	90	40	0	20	40	1.52
3551303--3551399	48	2.0	48	85	0	131	25	26	7	40	1.82
3552662--3552708	20	2.4	20	96	3	87	19	29	0	51	1.47
3556103--3556190	30	2.9	30	81	0	104	25	14	20	39	1.90
3563113--3563158	23	2.0	23	100	0	92	34	21	4	39	1.73
3571041--3571115	20	3.8	20	69	22	59	41	2	10	45	1.53
3575617--3575744	50	2.5	50	88	1	193	38	13	14	33	1.85
3579503--3579948	226	2.0	226	96	0	822	46	13	8	31	1.74
3579931--3580052	50	2.4	51	84	2	183	37	13	14	33	1.86
3580060--3580136	39	2.0	39	94	0	136	42	14	10	32	1.79
3580452--3580501	24	2.1	24	100	0	100	34	8	24	34	1.84
3580488--3580616	60	2.2	60	98	0	249	44	19	13	21	1.85
3580506--3580599	29	3.2	29	61	21	68	45	20	11	22	1.83
3581341--3581380	17	2.4	17	91	0	62	42	32	12	12	1.80
3587616--3587695	37	2.1	38	88	6	119	46	1	2	50	1.23
3588000--3588066	27	2.4	28	82	7	75	14	1	28	55	1.49
3590469--3590572	52	2.0	52	98	0	199	28	9	29	31	1.89
3590650--3592977	924	2.5	919	81	6	2570	39	12	25	22	1.89
3602517--3602553	19	1.9	19	88	0	56	37	21	16	24	1.93
3604174--3604216	22	2.0	22	85	0	59	62	0	13	23	1.31
3605847--3606444	47	12.6	47	93	2	962	32	8	29	29	1.87
3605847--3606444	96	6.3	96	92	3	955	32	8	29	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3605847--3606444	143	4.2	143	94	1	1002	32	8	29	29	1.87
3608668--3609031	40	9.1	40	88	1	498	25	22	27	25	2.00
3610332--3610373	21	2.0	22	85	4	59	61	0	14	23	1.32
3612004--3612125	47	2.6	49	89	7	198	32	6	29	31	1.83
3612089--3612150	25	2.4	25	94	5	106	38	0	25	35	1.56
3612043--3612199	74	2.1	72	94	4	269	34	5	28	31	1.79
3612116--3612532	47	8.8	49	92	3	660	32	8	29	29	1.86
3612116--3612532	96	4.4	96	92	3	684	32	8	29	29	1.86
3621288--3621346	29	2.0	30	90	3	93	49	15	5	30	1.66
3628473--3628582	55	2.0	57	83	7	145	20	11	12	55	1.68
3631321--3631354	16	2.1	17	94	5	61	23	0	23	52	1.47
3640382--3640428	23	2.0	23	100	0	94	23	8	34	34	1.85
3641195--3641249	24	2.3	24	93	6	94	29	9	16	45	1.78
3642405--3642446	21	2.0	22	90	4	68	52	0	0	47	1.00
3643942--3643968	2	13.5	2	100	0	54	51	0	0	48	1.00
3644593--3644620	2	14.0	2	100	0	56	50	0	0	50	1.00
3650347--3650393	25	2.0	25	83	8	62	27	14	4	53	1.60
3650655--3650776	46	2.7	46	89	2	183	18	23	15	42	1.88
3650745--3650817	38	1.9	38	100	0	146	23	26	17	32	1.97
3658873--3658933	27	2.3	27	77	11	63	18	11	39	31	1.86
3669115--3669189	39	1.9	39	83	0	96	29	5	21	44	1.74
3673471--3673509	13	2.9	13	88	3	60	41	0	5	53	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3675059--3675148	30	3.0	30	96	1	164	54	20	12	13	1.70
3675877--3675911	18	1.9	18	94	0	61	20	37	22	20	1.95
3676650--3676683	6	5.7	6	85	0	50	79	0	5	14	0.91
3676637--3676683	24	1.9	24	83	12	60	76	2	6	14	1.08
3676822--3676858	19	1.9	19	100	0	74	32	37	5	24	1.78
3683552--3683576	13	1.9	13	100	0	50	20	32	24	24	1.98
3688221--3688413	20	11.1	16	65	24	56	50	1	4	43	1.32
3688511--3688552	21	1.9	22	90	9	68	19	47	26	7	1.74
3689161--3689256	3	32.0	3	100	0	192	0	33	0	66	0.92
3692072--3692114	12	3.6	12	78	9	52	27	2	0	69	1.00
3695661--3696496	436	1.9	424	84	3	1091	39	12	8	39	1.73
3698093--3698246	77	2.0	77	92	0	254	38	14	21	25	1.92
3700287--3700328	13	3.3	13	83	6	59	69	2	7	21	1.25
3703867--3703955	31	2.8	31	81	3	97	41	14	22	21	1.89
3705439--3705698	27	9.6	27	84	0	286	40	20	8	31	1.81
3705439--3705699	54	4.8	54	86	0	351	40	20	8	31	1.81
3705439--3705806	81	4.5	81	75	6	253	39	21	8	30	1.82
3705439--3705771	54	6.2	53	79	4	321	39	20	8	30	1.82
3705439--3705807	27	13.7	27	75	6	214	39	21	8	31	1.82
3705791--3705983	27	7.2	27	82	2	219	34	18	21	25	1.96
3706412--3706476	22	3.0	22	77	8	69	20	21	23	35	1.96
3706635--3706736	27	3.8	27	85	7	127	18	22	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3706884--3706941	19	3.4	19	65	30	58	18	17	17	46	1.84
3706873--3706998	6	20.3	6	71	18	89	19	16	15	49	1.80
3706873--3706981	31	3.5	31	93	1	164	19	17	14	48	1.81
3708935--3708961	13	2.1	13	100	0	54	33	22	22	22	1.97
3711424--3711485	29	2.2	29	97	2	117	61	0	14	24	1.33
3711424--3711494	29	2.5	28	90	6	115	60	0	15	23	1.35
3716793--3716830	18	2.1	18	85	9	51	52	2	0	44	1.14
3718894--3718921	13	2.2	13	100	0	56	53	7	17	21	1.67
3719524--3719563	19	2.1	20	86	9	57	45	2	0	52	1.14
3720056--3720094	3	13.0	3	100	0	78	66	0	0	33	0.92

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