genome.fa.s20.2.7.7.80.10.50.1000.10.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  10  of  189  ( 22580 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)
3319825--3319868	18	2.5	17	85	3	52	9	18	34	38	1.82
3344280--3344334	26	2.0	27	82	6	67	38	1	1	58	1.20
3354142--3354216	31	2.3	31	79	6	78	49	9	5	36	1.58
3354229--3354292	34	2.0	32	85	14	87	62	1	0	35	1.05
3355667--3355817	59	2.5	60	84	5	191	41	11	19	27	1.86
3356256--3356298	20	2.2	19	88	12	61	41	2	0	55	1.12
3372781--3372806	9	2.9	9	100	0	52	7	57	0	34	1.27
3379586--3379646	28	2.2	28	90	0	95	32	21	1	44	1.62
3381310--3381430	50	2.4	50	79	2	127	18	25	22	33	1.96
3381321--3381433	25	4.5	25	81	8	113	18	23	22	35	1.96
3381386--3381449	25	2.6	25	82	5	85	18	25	26	29	1.98
3381884--3381941	29	2.0	30	89	3	91	48	48	0	3	1.18
3381866--3381933	6	11.3	6	70	17	52	52	44	1	1	1.19
3383165--3383233	28	2.4	28	74	13	68	27	7	1	63	1.29
3383354--3383421	26	2.5	27	83	9	86	30	5	2	60	1.35
3383354--3383437	28	3.1	27	80	10	82	29	7	2	60	1.36
3383485--3383565	26	3.2	26	77	7	76	28	8	4	58	1.49
3386878--3386921	22	2.0	22	100	0	88	18	36	18	27	1.94
3402401--3402477	29	2.6	29	82	8	93	42	14	14	28	1.84
3405759--3405841	40	2.1	40	97	0	157	45	8	9	36	1.67
3409172--3409215	17	2.6	17	82	10	56	54	20	4	20	1.62
3420581--3420621	18	2.2	18	87	12	57	24	2	7	65	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3421839--3421875	5	7.2	5	96	3	65	18	2	0	78	0.87
3427745--3427777	15	2.1	16	88	5	50	24	15	9	51	1.72
3429406--3429503	49	2.0	50	88	8	146	40	5	1	53	1.30
3429419--3429524	49	2.2	48	81	8	124	40	7	1	50	1.42
3433712--3433801	41	2.2	41	95	0	162	33	17	16	32	1.93
3433823--3433856	18	1.9	17	94	5	59	0	58	0	41	0.98
3433916--3433978	25	2.4	27	77	17	71	4	33	1	60	1.27
3436783--3436822	20	2.0	20	90	0	62	50	12	10	27	1.72
3436771--3436837	34	1.9	35	90	3	109	46	13	8	31	1.74
3436806--3436845	14	2.9	14	84	0	53	42	17	7	32	1.77
3439277--3439329	20	2.7	20	80	14	56	37	0	0	62	0.96
3442670--3442744	18	4.2	18	84	0	87	30	20	14	34	1.92
3442666--3442740	36	2.1	36	84	0	96	29	21	14	34	1.93
3450953--3450995	3	14.3	3	100	0	86	67	0	0	32	0.91
3452935--3453010	33	2.3	32	77	6	80	36	17	19	26	1.94
3459176--3459200	13	1.9	13	100	0	50	0	16	0	84	0.63
3465633--3465665	15	2.1	16	88	5	50	51	9	0	39	1.34
3473440--3473467	11	2.5	11	100	0	56	7	39	10	42	1.67
3476833--3476867	18	2.0	17	88	5	52	45	0	0	54	0.99
3476783--3477004	120	1.9	120	99	0	435	44	1	5	48	1.37
3476953--3476987	18	2.0	17	88	5	52	45	0	0	54	0.99
3477152--3477242	45	2.0	45	85	2	121	37	28	6	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3477223--3477291	16	4.2	16	92	3	120	36	37	1	24	1.65
3477223--3477291	33	2.1	32	94	2	120	36	37	1	24	1.65
3478997--3479027	3	10.7	3	93	6	55	70	29	0	0	0.87
3483333--3483375	20	2.2	20	100	0	86	23	9	16	51	1.73
3490563--3490606	19	2.3	19	96	0	79	70	11	11	6	1.33
3491120--3491165	23	2.0	23	100	0	92	21	0	30	47	1.51
3493220--3493348	47	2.9	43	67	21	102	48	3	3	44	1.36
3493485--3493519	18	2.0	17	88	5	52	45	0	0	54	0.99
3493665--3493771	45	2.6	40	76	13	117	31	26	5	36	1.80
3493755--3493790	16	2.2	16	95	0	63	36	36	0	27	1.57
3496733--3496761	15	1.9	15	100	0	58	20	10	0	68	1.18
3500192--3500264	27	2.7	27	86	0	110	30	21	28	19	1.98
3500374--3500419	22	2.1	22	95	0	83	26	0	15	58	1.37
3500269--3500805	19	26.3	19	66	24	128	30	0	13	54	1.44
3500474--3500549	27	2.8	27	97	0	143	32	0	14	52	1.42
3500526--3500695	80	2.1	80	93	0	295	31	0	12	56	1.36
3500669--3500745	27	3.0	27	85	11	117	29	0	15	54	1.42
3500671--3500804	23	5.8	23	85	10	177	29	0	17	52	1.45
3500691--3500804	42	2.6	42	88	5	174	28	0	18	52	1.45
3500370--3500805	195	2.3	190	81	9	567	30	0	14	54	1.42
3500501--3500855	88	4.1	86	73	17	236	30	0	14	54	1.40
3500798--3500919	60	2.0	60	87	3	174	31	1	13	53	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3501037--3501073	16	2.4	16	90	4	58	32	2	5	59	1.34
3504635--3504688	18	2.8	20	78	13	69	64	1	0	33	1.04
3506249--3506289	9	4.6	9	87	0	64	2	43	0	53	1.13
3506432--3506471	21	1.9	21	90	10	64	15	35	10	40	1.80
3506421--3506479	21	2.6	24	71	20	63	15	40	6	37	1.74
3510071--3510293	100	2.2	101	90	1	349	29	24	15	30	1.96
3516562--3516606	18	2.5	17	82	10	54	68	0	0	31	0.89
3520702--3520743	19	2.2	19	87	8	59	61	7	30	0	1.22
3534927--3534980	20	2.6	21	82	11	58	53	1	1	42	1.22
3534963--3535038	40	1.9	39	92	5	127	59	0	2	38	1.12
3534993--3535030	12	3.2	12	82	14	51	63	0	2	34	1.09
3535016--3535059	20	2.1	21	95	4	81	65	0	0	34	0.93
3537975--3538272	75	4.0	74	82	8	315	37	11	24	26	1.89
3543232--3543290	29	2.1	29	84	9	77	55	0	3	40	1.16
3544394--3544422	2	14.5	2	100	0	58	48	0	0	51	1.00
3546930--3546981	25	2.0	25	85	3	68	48	3	1	46	1.31
3548468--3548524	30	1.9	29	89	3	87	36	0	7	56	1.27
3552971--3553004	17	2.1	16	94	5	59	38	0	5	55	1.24
3552971--3553005	15	2.2	16	90	10	54	40	0	5	54	1.24
3556593--3556618	12	2.2	12	100	0	52	15	7	26	50	1.71
3557732--3557769	15	2.5	15	86	0	58	13	47	26	13	1.79
3558540--3558583	3	14.3	3	95	4	79	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3562416--3562455	3	13.3	3	100	0	80	67	0	0	32	0.91
3589294--3589327	17	2.0	17	88	11	52	58	0	0	41	0.98
3607099--3607154	17	3.2	17	82	2	67	60	0	1	37	1.07
3610481--3610509	14	2.0	15	93	6	51	89	0	6	3	0.57
3614823--3614852	2	15.0	2	100	0	60	50	0	0	50	1.00
3615436--3615463	2	14.0	2	100	0	56	50	0	0	50	1.00
3615573--3615599	14	1.9	14	100	0	54	0	0	7	92	0.38
3624783--3624827	18	2.8	17	77	16	51	0	33	40	26	1.57
3625101--3625155	25	2.1	25	83	6	65	56	5	7	30	1.49
3626040--3626322	109	2.6	108	83	7	331	40	16	18	25	1.90
3626332--3626821	117	4.2	116	89	4	738	26	15	13	44	1.83
3627802--3627839	18	2.2	18	90	9	62	21	5	2	71	1.19
3629898--3629954	31	1.9	30	89	7	89	42	17	12	28	1.85
3638914--3638950	16	2.2	17	95	4	67	54	5	0	40	1.24
3639489--3639724	117	2.0	118	86	5	327	39	12	12	35	1.81
3639977--3640005	14	2.1	14	93	6	51	68	3	6	20	1.27
3644310--3644363	23	2.4	22	78	12	56	61	3	0	35	1.14
3644306--3644358	27	2.0	27	82	14	65	62	3	0	33	1.13
3646100--3646152	3	17.7	3	80	0	52	58	5	0	35	1.22
3646876--3646915	19	2.2	19	90	4	64	15	12	0	72	1.12
3647065--3647119	5	11.2	5	74	18	53	58	1	0	40	1.09
3647063--3647115	27	2.0	25	89	7	79	54	1	0	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3651600--3651709	42	2.6	43	82	1	132	31	23	17	27	1.97
3656332--3656388	29	2.0	29	96	0	105	19	10	10	59	1.59
3657718--3657781	18	3.6	18	76	15	71	62	1	1	34	1.14
3658091--3658150	17	3.5	17	71	13	52	55	0	1	43	1.10
3658340--3658389	14	3.6	14	74	15	59	34	2	0	64	1.05
3658423--3658478	21	2.8	20	84	7	69	42	5	0	51	1.24
3658423--3658478	20	2.8	21	86	7	73	42	5	0	51	1.24
3663212--3663253	20	2.2	19	95	4	75	33	2	0	64	1.07
3663239--3663278	10	3.8	10	87	12	62	50	0	0	50	1.00
3663239--3663289	11	4.7	11	87	2	68	45	0	0	54	0.99

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