genome.fa.s4.2.7.7.80.10.50.1000.12.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: 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  12  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)
3467371--3467428	20	2.8	20	78	2	62	27	1	25	44	1.64
3468086--3468114	8	3.6	8	100	0	58	55	0	0	44	0.99
3468110--3468156	7	6.4	7	95	4	76	87	0	0	12	0.55
3468110--3468157	15	3.4	14	83	11	62	85	0	0	14	0.60
3468255--3468312	18	3.1	18	79	13	62	70	1	5	22	1.16
3469106--3469144	18	2.2	18	90	0	60	51	5	5	38	1.46
3482781--3482810	15	2.0	15	100	0	60	33	0	20	46	1.51
3507451--3507479	13	2.1	14	93	6	51	72	0	0	27	0.85
3507687--3507783	48	2.0	48	100	0	194	35	13	14	37	1.85
3507701--3507778	24	3.2	24	68	13	79	34	12	15	37	1.86
3508402--3508433	17	1.9	16	93	6	55	84	0	0	15	0.63
3508406--3508434	14	2.0	15	93	6	51	82	0	0	17	0.66
3509926--3509965	18	2.3	18	86	4	55	17	55	12	15	1.70
3530435--3530480	21	2.1	22	92	4	76	82	6	6	4	0.94
3530586--3530824	132	1.8	131	82	2	309	31	15	26	25	1.96
3530565--3530830	88	3.0	88	70	13	233	30	16	26	27	1.96
3530608--3530830	44	5.1	44	78	9	206	30	16	26	26	1.97
3531284--3531366	31	2.8	30	87	3	114	25	4	16	53	1.63
3532049--3532091	16	2.8	15	86	6	59	30	6	0	62	1.21
3532196--3532227	16	2.0	16	93	0	55	21	21	6	50	1.71
3532239--3532270	13	2.6	13	90	9	50	25	6	3	65	1.31
3532425--3532485	22	2.8	22	80	2	61	18	6	6	68	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3532227--3532440	3	72.3	3	64	14	52	31	8	2	56	1.45
3532734--3532767	18	1.9	17	94	5	59	17	5	8	67	1.37
3533746--3533770	12	2.1	12	100	0	50	40	36	8	16	1.77
3533806--3533894	38	2.3	38	96	0	160	17	50	11	20	1.76
3534563--3534617	28	2.0	28	85	0	74	29	5	3	61	1.35
3534927--3534968	22	1.9	22	90	0	66	23	7	4	64	1.38
3537714--3537760	19	2.5	19	89	6	69	27	21	8	42	1.81
3540996--3541032	17	2.2	17	100	0	74	89	0	10	0	0.49
3542091--3542209	61	1.9	64	89	8	192	32	15	14	36	1.88
3542354--3542842	205	2.4	205	90	1	757	29	18	21	30	1.97
3542867--3543656	132	6.0	132	94	0	1357	30	18	24	25	1.98
3543496--3543861	173	2.1	173	92	0	624	31	18	22	27	1.97
3543625--3543731	41	2.5	42	77	8	119	31	17	20	29	1.96
3543710--3543819	44	2.5	44	76	7	116	29	22	23	24	1.99
3542968--3543958	176	5.7	173	75	9	574	31	18	24	26	1.97
3544220--3544308	38	2.3	38	96	0	160	17	50	11	20	1.76
3544533--3544571	14	2.9	13	85	7	51	5	12	0	82	0.83
3544541--3544572	14	2.3	14	94	0	55	6	9	0	84	0.78
3547511--3547538	12	2.3	12	100	0	56	57	0	0	42	0.99
3553553--3553602	17	2.7	20	78	18	70	10	0	44	46	1.37
3558192--3558241	17	2.7	20	78	18	70	10	0	44	46	1.37
3563020--3563095	38	2.0	38	97	0	143	18	22	26	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3563614--3563938	158	2.1	155	82	5	384	42	10	18	28	1.84
3571560--3571601	20	2.1	20	86	8	59	40	2	0	57	1.12
3574545--3574607	32	2.1	30	82	11	76	60	3	15	20	1.49
3577910--3577942	17	1.9	17	93	0	57	63	0	0	36	0.95
3582586--3582621	17	2.1	18	94	5	65	52	2	5	38	1.39
3583477--3583518	17	2.5	17	100	0	84	21	4	14	59	1.53
3587783--3587819	19	1.9	19	100	0	74	54	10	13	21	1.69
3589972--3590019	16	3.1	15	90	6	69	64	2	2	31	1.16
3589968--3590023	24	2.3	24	81	6	69	66	1	1	30	1.12
3589968--3590019	8	6.5	8	82	8	61	65	1	1	30	1.14
3590167--3590378	25	8.7	25	72	14	131	54	4	6	34	1.46
3590226--3590292	29	2.3	29	84	5	82	58	4	4	32	1.38
3590187--3590332	76	1.9	77	83	4	188	54	4	6	34	1.46
3590226--3590304	29	2.7	29	80	9	72	56	3	5	34	1.39
3590171--3590384	23	8.9	24	69	16	88	55	4	6	34	1.44
3590780--3590924	30	4.8	30	94	0	245	22	3	48	24	1.66
3591673--3591722	14	3.6	14	81	7	57	64	4	12	20	1.43
3593387--3593422	12	3.0	12	95	0	63	41	5	25	27	1.77
3594951--3594998	16	3.1	15	90	6	69	64	2	2	31	1.16
3594947--3595002	24	2.3	24	81	6	69	66	1	1	30	1.12
3594947--3594998	8	6.5	8	82	8	61	65	1	1	30	1.14
3595149--3595213	25	2.8	24	83	6	80	52	6	7	33	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3595202--3595269	30	2.3	29	84	2	82	58	4	4	32	1.37
3595143--3595361	23	9.0	24	71	15	96	55	4	5	34	1.43
3595850--3595934	30	2.8	30	94	0	143	21	3	49	25	1.65
3597929--3597984	22	2.5	22	100	0	112	23	33	28	14	1.94
3610002--3610044	6	7.3	6	94	5	79	16	0	0	83	0.64
3618141--3618414	136	2.0	136	100	0	548	37	11	10	39	1.77
3620107--3620154	15	3.1	15	80	14	53	68	2	0	29	1.01
3620488--3620532	19	2.3	20	81	14	58	20	6	6	66	1.38
3624781--3624823	21	2.0	23	90	9	72	62	0	0	37	0.95
3625967--3626001	3	11.7	3	100	0	70	65	0	0	34	0.93
3627379--3627421	20	2.2	20	86	0	59	2	20	18	58	1.50
3639968--3640627	350	1.9	341	85	6	900	27	14	16	41	1.87
3642467--3642555	42	2.1	42	93	0	151	51	12	5	30	1.62
3642482--3642577	42	2.3	42	83	5	113	54	9	4	32	1.52
3642583--3642619	19	2.0	18	94	5	65	43	16	2	37	1.62
3646419--3646507	42	2.1	42	91	0	142	51	11	5	31	1.60
3646532--3646571	19	2.2	18	95	4	71	42	15	2	40	1.60
3665028--3665065	20	2.0	20	89	5	60	39	2	13	44	1.57
3668869--3668948	21	3.7	20	76	15	63	35	0	0	65	0.93
3668878--3668911	16	2.1	16	89	10	52	32	0	0	67	0.91
3668870--3668919	25	2.0	25	92	0	82	32	0	0	68	0.90
3668895--3668956	11	5.9	11	75	24	71	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3668868--3668956	19	4.6	21	75	21	79	37	0	0	62	0.95
3668895--3668953	20	2.9	19	85	9	82	35	0	0	64	0.94
3673033--3673088	19	3.1	18	72	23	55	39	1	3	55	1.28
3673202--3673252	21	2.4	21	90	0	75	31	37	7	23	1.83
3674714--3674783	23	2.9	23	72	25	63	51	1	14	32	1.51
3675436--3675508	22	3.3	23	75	17	59	60	6	1	31	1.31
3675635--3675696	3	20.7	3	96	0	115	64	0	1	33	1.03
3683493--3683520	3	9.3	3	100	0	56	32	0	0	67	0.91
3691387--3691436	15	3.3	15	74	0	55	30	18	26	26	1.98
3691460--3691554	6	15.8	6	79	0	91	25	0	47	27	1.52
3691456--3691555	12	8.3	12	86	4	139	24	0	49	27	1.51
3691456--3691555	24	4.2	24	88	5	157	24	0	49	27	1.51
3696380--3696446	29	2.3	28	80	14	73	59	2	1	35	1.22
3703380--3703423	23	1.9	23	81	9	54	22	2	6	68	1.25
3713552--3713610	24	2.5	24	86	5	75	44	5	8	42	1.57
3713976--3714015	19	2.0	20	90	4	64	47	5	0	47	1.24
3719038--3719102	32	2.0	32	100	0	130	30	6	24	38	1.80
3720583--3720635	26	2.0	26	82	7	63	37	20	15	26	1.92
3725476--3725508	9	3.8	9	88	4	50	54	0	12	33	1.37
3725814--3725859	19	2.4	19	85	7	58	58	6	6	28	1.48
3725888--3725966	11	6.7	11	70	26	56	63	1	2	32	1.16
3725895--3726022	3	41.0	3	69	23	61	61	1	3	32	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3725844--3725947	18	6.1	18	76	11	94	61	3	0	33	1.21
3725924--3726012	28	3.1	28	67	23	69	59	1	5	33	1.28
3727663--3728800	411	2.8	410	89	2	1663	28	22	19	30	1.98
3727663--3728800	205	5.5	206	91	2	1637	28	22	19	30	1.98
3737420--3737527	26	4.2	26	89	0	162	34	7	23	35	1.83
3743886--3743918	9	3.8	9	88	4	50	54	0	12	33	1.37
3744224--3744262	19	2.2	18	82	13	53	56	5	7	30	1.49
3744253--3744434	3	58.3	3	68	22	67	60	2	3	33	1.25
3744254--3744370	50	2.4	46	81	16	137	61	2	2	33	1.23
3744253--3744356	18	6.1	18	77	11	103	61	2	0	34	1.17

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