genome.fa.s1.2.7.7.80.10.50.1000.11.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   

This is table  11  of  316  ( 37835 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)
3247880--3247920	21	2.0	21	95	0	73	24	19	14	41	1.89
3248632--3248745	54	2.1	55	93	3	194	21	34	14	28	1.94
3253408--3253450	17	2.6	17	88	3	70	53	9	0	37	1.33
3266853--3266926	36	2.1	36	84	5	96	52	5	1	40	1.33
3276951--3277161	104	2.0	104	96	0	386	36	3	7	52	1.47
3277401--3277466	23	2.8	23	75	11	62	39	4	7	48	1.52
3290836--3290869	17	2.0	17	88	0	50	35	0	0	64	0.94
3291767--3291815	16	3.1	15	82	5	62	65	2	0	32	1.04
3296991--3297137	76	1.9	76	93	2	251	34	8	10	46	1.67
3302088--3302129	21	2.1	21	86	8	61	42	0	11	45	1.41
3303362--3303406	14	3.2	14	83	0	54	84	4	2	8	0.84
3315031--3315087	29	1.9	30	82	10	73	42	1	10	45	1.49
3317325--3317373	25	2.0	24	92	7	82	32	8	4	55	1.48
3319579--3319632	20	2.7	20	78	13	58	70	5	1	22	1.18
3320583--3320630	23	2.1	22	84	3	60	64	2	4	29	1.23
3320848--3321059	109	1.9	109	89	3	329	33	15	4	47	1.64
3322964--3323004	20	2.0	20	95	0	73	19	7	9	63	1.48
3326584--3326642	3	19.7	3	100	0	118	0	32	0	67	0.91
3343058--3343085	3	9.3	3	100	0	56	0	32	0	67	0.91
3344168--3344242	31	2.4	31	86	0	105	28	16	10	45	1.80
3344426--3344482	20	2.8	20	76	17	55	29	3	1	64	1.20
3344450--3344482	16	1.9	18	88	11	52	30	0	3	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352291--3352331	21	2.0	21	90	0	64	29	21	29	19	1.98
3358466--3358498	17	1.9	17	93	0	57	39	0	6	54	1.25
3359702--3359746	15	2.9	15	80	6	54	42	0	0	57	0.98
3366316--3366404	31	3.0	29	79	11	99	48	1	2	48	1.21
3366410--3366439	15	2.1	15	93	6	53	46	0	0	53	1.00
3369765--3369821	23	2.7	20	72	17	51	63	15	3	17	1.45
3370783--3370850	29	2.3	29	100	0	136	54	2	17	25	1.57
3371360--3371392	14	2.4	14	94	0	57	42	6	27	24	1.78
3376248--3376362	44	2.6	44	85	2	149	35	13	22	27	1.92
3376248--3376381	46	3.0	45	82	4	153	35	14	23	26	1.93
3382293--3382326	18	1.9	18	94	5	61	61	5	0	32	1.20
3390891--3390960	27	2.7	26	84	4	86	58	5	5	30	1.45
3392889--3392946	22	2.7	21	79	15	57	18	6	5	68	1.31
3399895--3399946	24	2.3	21	81	15	59	57	0	1	40	1.10
3411993--3412020	7	4.0	7	100	0	56	42	28	14	14	1.84
3413240--3413297	31	1.9	31	82	6	75	41	6	15	36	1.74
3418304--3418351	15	3.2	15	79	5	53	41	2	2	54	1.24
3418890--3419052	83	2.0	83	82	4	204	26	24	26	22	2.00
3418890--3419071	83	2.2	83	80	3	197	26	24	27	21	1.99
3419580--3419675	30	3.2	31	77	11	87	40	1	9	48	1.42
3419627--3419702	30	2.6	29	81	6	80	44	2	6	46	1.43
3424904--3424970	31	2.2	31	83	5	82	23	7	17	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3424915--3424974	31	1.9	31	90	6	95	23	10	20	46	1.80
3426643--3426693	22	2.4	22	74	9	52	72	3	3	19	1.16
3433928--3433969	20	2.1	20	100	0	84	14	28	16	40	1.88
3434915--3434953	18	2.1	19	85	4	53	41	0	0	58	0.98
3434914--3434967	22	2.4	22	84	9	65	46	0	0	53	1.00
3434986--3435049	23	2.8	22	77	11	67	42	0	0	57	0.98
3439699--3439773	28	2.6	30	74	16	77	56	0	0	44	0.99
3439678--3439784	30	3.8	28	70	15	78	49	2	0	46	1.22
3443328--3443614	149	2.0	144	89	4	441	35	14	13	36	1.86
3444245--3444273	14	2.1	14	100	0	58	51	6	20	20	1.70
3445338--3445374	14	2.8	14	80	12	51	37	5	21	35	1.77
3448035--3448063	12	2.4	12	100	0	58	24	44	6	24	1.77
3452926--3452980	15	3.7	15	78	9	67	34	0	0	65	0.93
3452927--3452992	30	2.2	30	86	5	98	33	0	0	66	0.92
3455097--3455141	3	15.0	3	95	0	72	62	0	4	33	1.15
3457278--3457445	91	1.8	91	88	0	255	23	12	20	43	1.86
3457342--3457724	100	3.8	101	84	3	468	27	11	19	40	1.87
3457671--3457779	56	2.0	55	87	1	155	24	9	19	46	1.79
3457569--3457862	157	1.9	156	83	3	385	28	10	17	42	1.83
3460293--3460321	15	1.9	15	100	0	58	13	6	6	72	1.26
3466811--3466855	23	1.9	24	86	13	67	11	6	24	57	1.57
3478770--3478796	14	1.9	14	100	0	54	59	22	0	18	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481231--3481381	47	3.3	46	81	7	164	28	29	7	34	1.84
3485995--3486077	9	9.2	9	72	5	51	31	19	38	10	1.86
3486792--3486844	24	2.2	24	86	0	70	52	1	35	9	1.45
3492348--3492373	13	2.0	13	100	0	52	30	0	38	30	1.58
3493511--3493579	32	2.2	32	84	7	88	27	17	10	44	1.80
3499902--3499929	14	2.0	14	100	0	56	42	14	7	35	1.73
3508739--3508783	14	3.2	14	74	0	54	40	0	20	40	1.52
3509735--3509773	7	5.6	7	93	0	69	17	0	35	46	1.49
3520430--3520471	22	2.0	20	86	9	57	66	4	7	21	1.35
3523123--3523197	33	2.4	30	78	8	80	36	12	13	38	1.82
3526445--3526498	17	3.2	17	74	10	65	57	7	5	29	1.49
3526432--3526498	34	2.0	34	100	0	134	53	5	5	34	1.50
3526438--3526509	34	2.2	34	87	7	105	51	6	8	33	1.59
3529259--3529292	16	2.2	15	89	5	50	52	0	5	41	1.25
3536236--3536339	53	2.0	52	98	1	199	25	30	11	31	1.91
3536997--3537031	5	7.0	5	90	9	54	2	0	17	80	0.84
3537392--3537421	10	3.0	10	90	0	51	36	0	13	50	1.42
3544521--3544695	87	2.0	87	96	1	323	44	12	10	33	1.75
3544730--3544760	13	2.4	13	94	0	53	22	35	6	35	1.80
3544838--3544935	9	10.8	9	72	14	67	61	3	0	35	1.12
3545532--3545592	27	2.2	28	80	11	72	31	0	4	63	1.15
3545568--3545637	19	3.7	19	73	17	65	34	1	4	60	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553307--3553353	24	2.0	24	100	0	94	12	21	14	51	1.76
3553707--3553790	29	2.9	30	82	12	95	41	2	14	41	1.58
3554850--3554907	26	2.4	25	80	8	66	44	3	1	50	1.29
3557730--3557785	12	4.2	14	80	14	66	50	0	0	50	1.00
3557721--3557785	26	2.4	26	80	12	69	52	0	0	47	1.00
3570168--3570217	22	2.3	21	80	12	57	58	8	0	34	1.28
3571129--3571179	21	2.4	21	80	9	59	52	0	0	47	1.00
3571779--3571840	24	2.6	22	78	14	61	22	22	6	48	1.73
3574081--3574126	24	1.9	24	100	0	92	34	8	50	6	1.59
3576740--3576787	25	2.0	23	84	8	60	41	33	6	18	1.76
3577415--3577491	37	2.1	37	100	0	154	46	20	5	27	1.72
3578128--3578195	29	2.3	29	82	2	82	36	1	8	52	1.42
3582816--3582878	28	2.2	28	91	0	99	31	30	6	31	1.83
3582998--3583038	14	3.1	14	76	20	52	17	36	0	46	1.48
3588241--3588299	28	2.1	28	87	0	82	32	22	6	38	1.80
3588419--3588459	14	3.1	14	76	20	52	17	36	0	46	1.48
3593995--3594092	49	2.0	49	100	0	196	30	14	10	44	1.78
3598377--3598410	8	4.2	8	100	0	68	14	0	0	85	0.60
3599461--3599520	16	3.9	16	68	14	54	53	6	15	25	1.65
3599463--3599532	31	2.2	32	82	12	92	50	7	15	27	1.70
3602244--3602273	14	2.1	14	100	0	60	36	6	23	33	1.81
3602465--3602492	12	2.3	12	100	0	56	32	7	0	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3610307--3610370	32	2.0	32	96	0	119	70	3	7	18	1.25
3610309--3610364	19	3.3	18	67	27	50	71	3	7	17	1.23
3610938--3610995	18	3.2	17	72	18	55	68	5	0	25	1.10
3612328--3612451	46	2.8	46	91	3	200	27	22	16	33	1.96
3612328--3612525	37	4.8	45	84	10	207	26	21	16	35	1.94
3612414--3612551	37	3.8	37	94	0	233	26	21	13	38	1.91
3614008--3614101	45	2.1	45	95	0	170	42	21	11	24	1.86
3615747--3615799	27	1.9	28	84	3	72	52	7	0	39	1.30
3630154--3630205	26	2.0	26	100	0	104	42	15	11	30	1.82
3634754--3634792	17	2.2	18	86	4	53	84	2	7	5	0.84

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316