genome.fa.s23.2.7.7.80.10.50.1000.9.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   

This is table  9  of  228  ( 27298 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)
3198480--3198511	15	2.0	17	88	11	50	59	0	6	34	1.23
3201513--3201728	46	4.1	51	79	15	235	35	13	23	27	1.92
3201499--3201729	98	2.3	101	90	5	360	35	13	23	27	1.93
3201650--3201683	7	4.9	7	92	0	50	50	2	29	17	1.61
3201604--3201728	59	2.1	61	92	3	209	37	12	24	25	1.91
3201691--3201837	37	4.0	37	92	1	235	36	15	22	25	1.93
3203327--3203456	65	2.0	65	96	0	242	47	26	16	10	1.77
3208832--3208856	11	2.3	11	100	0	50	28	32	8	32	1.86
3210074--3210103	10	3.0	10	95	0	51	20	0	3	76	0.92
3224026--3224085	30	2.0	30	83	3	77	13	10	5	71	1.28
3224070--3224168	11	8.6	11	67	12	56	26	5	5	63	1.36
3229001--3229034	15	2.2	16	89	5	52	67	5	0	26	1.13
3229624--3229654	4	7.8	4	100	0	62	77	0	0	22	0.77
3230056--3230096	21	2.0	21	85	9	57	53	4	4	36	1.44
3238166--3238260	43	2.2	43	92	1	156	43	5	3	48	1.41
3241650--3241714	27	2.4	27	92	2	103	38	12	16	32	1.86
3251254--3251291	20	1.9	20	89	10	60	68	0	5	26	1.11
3255107--3255232	42	3.0	41	83	4	153	19	19	31	29	1.96
3255159--3255247	42	2.1	42	82	0	106	20	17	30	31	1.96
3258812--3258851	21	1.9	21	89	0	62	57	2	15	25	1.50
3260549--3260591	23	1.9	22	90	4	68	72	2	0	25	0.97
3263184--3263228	22	2.0	24	82	8	58	40	2	2	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3267154--3267232	33	2.4	33	93	0	131	48	8	17	25	1.76
3272767--3273061	110	2.7	110	90	3	438	33	20	15	30	1.93
3273942--3274007	3	22.0	3	74	11	55	68	1	3	27	1.13
3273948--3274015	23	3.2	21	78	15	68	67	4	2	25	1.23
3275582--3276136	44	12.8	44	72	9	280	25	23	21	29	1.99
3275585--3276142	218	2.6	218	98	0	1073	26	22	22	29	1.99
3275582--3276137	131	4.3	129	74	10	344	25	23	21	29	1.99
3275582--3276139	87	6.4	84	72	11	288	25	22	22	29	1.99
3277386--3277421	6	5.7	6	90	9	54	13	13	0	72	1.13
3277386--3277422	7	5.6	7	87	12	60	13	13	0	72	1.11
3277386--3277422	13	2.8	13	100	0	74	13	13	0	72	1.11
3278334--3278475	6	23.7	6	78	14	53	11	11	6	70	1.33
3278325--3278368	19	2.2	20	80	15	56	9	20	0	70	1.14
3278282--3278398	51	2.3	51	78	15	125	9	15	4	70	1.28
3278424--3278475	12	4.3	12	90	0	59	15	9	7	67	1.41
3279901--3279962	5	12.2	5	85	14	83	40	0	0	59	0.97
3279904--3279954	3	19.0	3	75	22	51	39	0	0	60	0.97
3279971--3280066	40	2.3	40	89	3	147	63	8	28	0	1.23
3284938--3284984	20	2.3	21	78	10	53	61	23	4	10	1.46
3286097--3286174	3	25.7	3	75	12	61	26	5	2	65	1.27
3286224--3286335	47	2.4	45	79	8	102	38	5	2	53	1.38
3286746--3286952	109	1.9	108	82	2	256	28	16	19	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3288398--3288484	28	3.0	29	75	11	81	29	14	6	48	1.70
3301475--3301508	3	11.3	3	87	0	50	0	32	35	32	1.58
3301482--3301510	15	1.9	15	100	0	58	0	31	41	27	1.56
3301525--3301564	15	2.7	15	88	0	53	37	2	55	5	1.35
3301540--3301580	21	2.0	21	90	0	64	39	0	58	2	1.11
3307781--3307818	3	12.7	3	94	0	67	31	0	2	65	1.06
3327154--3328203	210	5.0	210	91	0	1665	30	22	16	31	1.95
3332920--3333033	57	2.0	57	100	0	228	31	22	15	29	1.95
3337864--3337923	30	2.0	30	83	3	75	41	0	38	20	1.52
3342920--3342981	32	2.0	32	87	3	90	38	9	14	37	1.79
3344223--3344254	9	3.6	9	100	0	64	12	0	9	78	0.97
3344331--3344379	23	2.1	23	96	0	89	36	14	10	38	1.80
3348705--3348736	9	3.6	9	100	0	64	12	0	9	78	0.97
3348814--3348862	23	2.1	23	96	0	89	36	14	10	38	1.80
3353179--3353313	48	2.8	48	95	0	234	43	11	9	35	1.73
3356509--3357929	743	1.9	742	89	3	2242	40	15	14	29	1.88
3358458--3358525	30	2.3	31	92	5	113	32	13	2	51	1.56
3358944--3359030	42	2.1	42	93	4	149	29	10	26	33	1.90
3358952--3359025	21	3.5	21	66	14	62	22	12	25	39	1.89
3361709--3361787	38	2.1	38	97	0	149	46	18	18	15	1.84
3368014--3370032	23	88.1	23	71	10	1176	39	25	4	30	1.76
3368014--3370047	229	8.9	229	94	0	3453	39	24	4	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3387647--3387709	23	2.8	23	79	9	60	50	0	6	42	1.27
3390861--3390954	23	4.1	23	85	0	134	47	4	25	22	1.69
3395365--3395458	23	4.1	23	85	0	134	47	4	25	22	1.69
3404324--3404399	38	2.0	38	87	5	109	39	10	22	27	1.87
3412127--3412230	52	2.0	52	100	0	208	30	5	19	44	1.74
3417857--3417900	22	2.1	20	84	16	54	13	13	43	29	1.83
3418260--3418294	17	2.0	18	88	5	54	42	0	5	51	1.25
3429390--3429434	23	2.0	23	86	8	65	28	0	2	68	1.01
3431817--3431849	14	2.4	14	90	5	50	57	3	3	36	1.29
3437192--3437254	34	1.9	33	90	9	103	28	22	23	25	1.99
3438240--3438276	15	2.4	16	90	4	58	81	2	2	13	0.92
3460848--3461403	276	2.0	276	96	0	1031	33	16	26	22	1.95
3471591--3471657	34	1.9	35	90	3	109	31	8	13	46	1.74
3471606--3471645	20	2.0	20	90	0	62	27	10	12	50	1.72
3471585--3471661	14	5.0	15	71	20	52	33	9	14	42	1.77
3475033--3475158	62	2.0	62	100	0	252	33	15	15	34	1.90
3477714--3477762	20	2.4	20	80	12	55	71	6	6	16	1.27
3477714--3477761	21	2.3	21	78	7	53	72	6	6	14	1.24
3479626--3479654	13	2.1	14	93	6	51	79	0	0	20	0.74
3496391--3496426	17	2.1	18	89	5	56	55	0	2	41	1.14
3496970--3497031	30	2.1	30	82	11	74	48	6	0	45	1.28
3497206--3497230	13	1.9	13	100	0	50	40	20	8	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3504123--3504186	33	1.9	33	84	9	85	31	6	6	56	1.49
3517829--3517947	59	2.0	60	86	1	168	42	5	10	41	1.63
3519486--3519510	3	8.3	3	100	0	50	68	0	32	0	0.90
3530821--3530863	18	2.4	18	88	0	68	16	13	39	30	1.87
3530821--3530863	12	3.6	12	83	0	59	16	13	39	30	1.87
3531127--3531219	46	2.0	46	97	0	177	22	9	15	52	1.71
3535427--3535460	16	2.1	16	89	10	52	64	0	0	35	0.94
3539382--3539415	17	1.9	18	88	5	52	64	0	2	32	1.08
3546527--3546562	16	2.1	17	90	10	56	27	11	22	38	1.88
3548925--3548974	25	2.0	25	100	0	100	56	16	4	24	1.57
3548970--3549007	18	2.1	18	95	0	67	28	26	0	44	1.54
3555738--3555769	17	1.9	16	93	6	55	68	0	0	31	0.90
3559107--3559157	14	3.7	14	79	7	52	41	11	3	43	1.60
3562849--3562949	49	2.1	49	100	0	202	19	21	11	46	1.82
3570621--3570738	59	2.0	59	98	0	227	38	12	8	39	1.74
3570941--3570974	11	3.1	11	100	0	68	38	0	35	26	1.57
3572480--3572517	20	1.9	20	89	10	60	57	5	0	36	1.21
3573827--3573884	29	2.0	29	96	0	107	36	1	20	41	1.63
3576747--3576943	98	2.0	98	95	0	358	37	25	10	27	1.88
3577578--3577625	20	2.4	20	82	0	60	54	0	6	39	1.26
3578939--3579391	44	10.5	44	74	12	280	27	24	20	27	1.99
3578939--3579273	89	3.8	87	76	13	305	27	24	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3578944--3579388	217	2.1	216	91	1	721	27	24	20	27	1.99
3579386--3579995	132	4.6	131	91	1	970	30	23	18	28	1.97
3583590--3583635	24	1.9	24	90	0	74	13	23	17	45	1.83
3585234--3585430	98	2.0	98	96	0	367	37	24	9	28	1.87
3585958--3586162	110	1.8	112	85	3	288	48	5	12	33	1.63
3592820--3592856	17	2.1	19	85	10	51	37	0	0	62	0.96
3592780--3592862	19	4.3	20	68	17	61	42	0	2	55	1.13
3596951--3596987	17	2.1	19	85	10	51	2	45	0	51	1.15
3596951--3596995	19	2.3	20	84	3	56	2	44	0	53	1.13
3603755--3603805	20	2.6	19	82	11	59	52	7	1	37	1.42

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