genome.fa.s21.2.7.7.80.10.50.1000.9.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: Gbar_D08
Parameters: 2 7 7 80 10 50 1000
Length:  65987480

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   

This is table  9  of  211  ( 25274 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)
3103260--3103314	20	2.8	20	77	0	56	29	5	21	43	1.75
3113190--3113228	19	2.1	19	100	0	78	25	15	20	38	1.92
3114614--3114639	2	13.0	2	100	0	52	50	0	50	0	1.00
3122399--3122437	12	3.2	12	85	0	51	51	2	5	41	1.38
3125009--3125053	19	2.3	20	85	11	58	31	0	2	66	1.04
3126517--3126567	26	2.0	25	81	7	59	41	7	3	47	1.51
3129412--3129446	4	8.8	4	93	0	61	22	0	28	48	1.51
3130513--3131010	183	2.6	185	89	4	732	44	13	16	24	1.84
3130889--3130913	12	2.1	12	100	0	50	52	8	8	32	1.60
3131484--3131527	3	14.7	3	80	0	52	36	34	0	29	1.58
3137560--3137603	3	14.7	3	95	0	79	31	2	0	65	1.05
3138564--3138624	25	2.3	26	86	5	79	36	0	1	62	1.05
3143742--3143815	33	2.2	33	85	4	96	32	47	2	17	1.62
3146343--3146367	6	4.2	6	100	0	50	52	0	0	48	1.00
3152213--3152280	31	2.2	31	83	0	82	36	16	5	41	1.72
3153487--3153534	9	5.3	9	82	0	60	52	12	2	33	1.51
3154015--3154056	21	2.0	21	90	0	66	26	16	11	45	1.82
3165792--3165859	31	2.2	31	83	0	82	36	16	5	41	1.72
3166418--3166482	32	2.1	32	97	2	123	47	12	9	30	1.72
3168994--3169023	14	2.1	14	93	0	51	40	13	3	43	1.60
3175251--3175320	11	6.4	11	81	0	68	18	7	5	68	1.33
3175251--3175329	22	3.6	22	80	0	86	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)
3175300--3175333	14	2.4	14	85	0	50	23	2	5	67	1.26
3175275--3175359	36	2.4	36	80	4	100	23	2	7	67	1.28
3176363--3176396	12	3.1	11	88	12	52	52	0	2	44	1.16
3176650--3176704	18	2.9	18	76	15	58	29	5	16	49	1.68
3177829--3177873	22	2.1	21	91	4	72	64	0	2	33	1.06
3177840--3177896	29	2.0	29	82	3	71	56	0	3	40	1.17
3177868--3177910	11	3.8	11	81	6	50	48	0	2	48	1.14
3177877--3177949	12	6.7	11	72	19	55	58	0	2	38	1.12
3177933--3177966	17	2.0	17	94	0	59	61	0	0	38	0.96
3177852--3177968	42	2.8	41	84	6	155	59	0	2	37	1.11
3177934--3177972	17	2.2	17	86	4	51	66	0	0	33	0.92
3177934--3177979	18	2.6	17	82	3	56	60	0	0	39	0.97
3181470--3181504	6	5.8	6	86	0	52	20	2	28	48	1.63
3181467--3181511	12	3.8	12	84	0	63	26	2	24	46	1.64
3182574--3182605	15	2.1	16	88	11	50	31	0	0	68	0.90
3183246--3183284	4	9.8	4	100	0	78	25	0	25	48	1.51
3185065--3185099	4	8.8	4	100	0	70	25	0	25	48	1.51
3187439--3187632	95	2.0	95	82	9	236	48	2	3	45	1.31
3187557--3187596	19	2.2	18	86	4	53	40	5	0	55	1.22
3195202--3195266	22	3.1	21	82	10	71	9	10	21	58	1.59
3195228--3195269	22	1.9	22	100	0	84	11	11	19	57	1.65
3198588--3198634	17	2.8	17	87	9	69	65	2	0	31	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3198592--3198624	8	4.1	8	88	11	50	66	0	0	33	0.92
3200490--3200546	28	2.0	28	86	0	78	29	12	12	45	1.78
3201715--3201909	98	2.0	98	95	0	354	36	24	10	28	1.88
3202583--3202630	25	2.0	25	87	4	71	54	4	8	33	1.50
3203395--3203526	19	6.8	19	88	3	201	37	15	9	37	1.81
3203388--3203525	59	2.4	59	89	4	203	37	15	9	37	1.80
3203702--3204214	89	5.9	90	71	16	270	27	24	19	28	1.99
3203845--3204168	173	1.9	173	81	8	401	27	24	20	27	1.99
3203743--3204300	44	12.9	44	73	10	336	27	24	20	28	1.99
3203692--3204297	217	2.8	217	94	0	1077	27	24	19	28	1.99
3204285--3204540	132	1.9	132	93	1	442	23	26	22	26	2.00
3205781--3205835	24	2.3	24	83	0	65	3	5	5	85	0.83
3205803--3205835	14	2.5	13	90	9	57	0	0	9	90	0.44
3210323--3210517	98	2.0	98	94	0	345	36	24	10	28	1.89
3211188--3211234	25	2.0	24	87	8	69	53	4	8	34	1.51
3211977--3212019	23	1.9	22	90	4	68	44	13	4	37	1.65
3211977--3212112	19	6.8	19	84	6	137	40	13	8	37	1.75
3212000--3212111	59	1.9	59	88	0	170	39	13	8	38	1.76
3211993--3212112	38	3.2	38	83	6	154	39	14	8	38	1.76
3225398--3225439	22	1.9	22	85	0	57	16	26	33	23	1.96
3228044--3228078	14	2.5	14	90	0	52	60	11	5	22	1.52
3232794--3232887	23	4.1	23	84	0	125	46	4	26	22	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3237298--3237391	23	4.1	23	83	0	125	46	4	26	22	1.70
3238813--3238868	27	2.0	28	86	10	80	58	1	3	35	1.26
3244073--3244133	18	3.2	18	70	20	61	36	8	3	52	1.48
3244059--3244136	39	2.0	39	100	0	156	35	10	5	48	1.59
3244311--3244362	25	2.1	25	82	13	63	40	3	0	55	1.18
3246983--3247028	16	2.9	16	75	15	51	50	0	2	47	1.13
3248003--3248167	60	2.8	59	83	6	199	36	16	9	36	1.82
3250498--3250553	29	1.9	29	85	0	76	41	7	14	37	1.73
3251831--3251868	13	2.9	13	88	7	51	39	0	2	57	1.12
3255635--3255681	23	2.1	22	84	11	60	59	23	2	14	1.46
3263164--3263323	84	1.9	84	83	5	207	36	18	17	26	1.93
3263582--3263635	27	2.0	27	100	0	108	33	11	18	37	1.86
3269658--3269684	4	6.8	4	100	0	54	77	0	0	22	0.76
3281991--3282089	49	2.0	49	100	0	198	40	2	16	41	1.59
3288108--3288134	14	1.9	14	100	0	54	44	7	25	22	1.79
3288831--3289009	91	2.0	91	86	0	250	41	8	22	27	1.82
3293249--3293292	20	2.2	20	91	0	70	40	0	2	56	1.11
3293396--3293447	28	1.9	26	88	7	77	38	5	3	51	1.44
3300332--3300361	7	4.3	7	100	0	60	46	0	0	53	1.00
3314299--3314365	30	2.3	30	81	2	73	49	4	4	41	1.43
3314467--3314520	21	2.5	22	85	11	67	64	1	1	31	1.14
3314511--3314541	7	4.4	7	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3318767--3319195	212	2.0	210	95	2	781	27	17	20	33	1.95
3320131--3320174	23	2.0	23	86	4	63	29	4	2	63	1.26
3345668--3345719	14	3.4	14	72	23	50	48	7	3	40	1.50
3345654--3345761	33	3.1	36	84	5	141	55	9	5	29	1.54
3358462--3358515	17	3.2	17	73	26	60	40	0	1	57	1.09
3366641--3366685	22	2.0	22	100	0	90	44	0	13	42	1.43
3366853--3366924	28	2.6	28	84	8	85	44	0	4	51	1.20
3367003--3367224	66	3.6	63	68	18	180	42	3	4	49	1.40
3366965--3367254	120	2.4	120	94	1	492	43	3	3	50	1.35
3367090--3367141	15	3.6	15	80	12	56	46	0	0	53	1.00
3367219--3367260	15	2.7	16	82	14	52	45	0	2	52	1.13
3367210--3367251	15	2.9	15	82	10	52	47	0	0	52	1.00
3377420--3377510	30	3.0	30	81	0	119	36	6	19	37	1.78
3381515--3382096	90	6.6	85	73	13	299	29	11	13	45	1.78
3381529--3382368	91	9.4	90	75	12	492	28	10	13	46	1.77
3381888--3382207	172	1.9	173	84	4	441	28	11	15	45	1.81
3382053--3382437	183	2.1	181	81	8	424	28	7	14	50	1.69
3382053--3382437	91	4.2	93	74	12	325	28	7	14	50	1.69
3382463--3382708	88	2.8	88	80	4	273	28	13	13	45	1.80
3382545--3382743	90	2.2	90	79	5	208	28	13	15	43	1.84
3382875--3384107	90	13.7	88	72	13	556	27	10	13	48	1.75
3382875--3383981	180	6.1	178	73	11	670	27	10	13	48	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383416--3383739	87	3.6	90	75	10	243	29	8	12	50	1.68
3383605--3383930	92	3.5	91	76	12	280	28	8	11	51	1.68
3383827--3384144	176	1.8	177	80	4	383	27	9	14	49	1.73
3384284--3384752	174	2.7	176	80	7	479	27	8	14	49	1.72
3384139--3384825	90	7.7	92	75	9	483	26	9	13	50	1.72
3397298--3397428	44	3.0	44	89	1	201	31	22	22	23	1.99
3400808--3400842	15	2.4	14	86	9	52	71	0	25	2	1.00
3410674--3410707	17	2.0	17	88	11	52	76	2	14	5	1.09
3413642--3413672	15	2.1	15	93	0	53	70	0	22	6	1.09
3418210--3418243	17	2.1	16	88	5	50	70	0	8	20	1.13

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