genome.fa.s16.2.7.7.80.10.50.1000.12.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  12  of  175  ( 20966 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)
3394192--3394234	19	2.3	19	92	8	70	55	0	2	41	1.12
3394198--3394263	24	2.7	24	81	9	71	57	4	1	36	1.28
3395858--3395908	4	12.5	4	76	12	50	23	3	0	72	1.01
3398854--3398913	30	2.0	31	87	6	88	46	15	8	30	1.74
3403268--3403424	68	2.3	68	83	1	190	31	22	30	15	1.95
3406087--3406126	20	2.1	19	85	4	53	65	0	0	35	0.93
3411802--3411868	32	2.1	32	86	2	91	47	10	4	37	1.58
3413829--3413868	16	2.4	16	88	12	55	55	0	2	42	1.13
3414402--3414445	23	1.9	23	85	0	61	63	0	2	34	1.07
3425353--3425512	49	3.2	48	75	6	151	30	12	11	45	1.78
3446004--3446066	30	2.1	31	93	3	110	31	7	12	47	1.70
3460925--3460966	21	2.1	19	86	8	57	19	2	4	73	1.12
3461778--3461835	19	2.7	22	84	10	68	39	8	17	34	1.80
3462621--3462826	24	8.8	22	68	18	105	34	6	4	53	1.47
3462695--3462757	22	2.8	23	80	9	76	36	9	3	50	1.51
3482181--3482489	59	5.2	58	70	14	234	42	1	3	52	1.28
3482240--3482550	61	5.2	61	71	12	282	42	1	4	50	1.33
3482178--3482585	120	3.4	120	94	0	683	43	1	4	50	1.30
3482411--3482449	16	2.4	17	87	12	55	43	0	0	56	0.99
3482411--3482445	18	2.0	18	88	5	54	45	0	0	54	0.99
3482531--3482565	18	2.0	17	88	5	52	45	0	0	54	0.99
3482728--3482823	44	2.2	45	84	5	124	35	28	5	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3482804--3482856	16	3.3	16	86	0	70	24	30	5	39	1.78
3491412--3491455	4	11.0	4	100	0	88	25	0	25	50	1.50
3493150--3493350	95	2.1	94	89	2	305	31	18	18	31	1.95
3493273--3493392	41	2.9	41	83	8	127	30	24	16	29	1.97
3493628--3493762	44	3.1	45	66	17	113	22	25	20	31	1.98
3493635--3493797	87	1.9	87	88	2	247	23	23	22	30	1.99
3493805--3494020	89	2.4	89	86	0	297	23	23	24	28	1.99
3494390--3494447	24	2.4	24	82	5	73	31	18	12	37	1.88
3495366--3495434	14	4.9	14	71	15	52	4	18	0	76	0.94
3495376--3495431	25	2.4	23	82	11	69	3	19	0	76	0.93
3495376--3495433	18	3.2	17	82	17	73	3	18	0	77	0.91
3495373--3495434	28	2.3	26	79	17	72	3	17	0	79	0.87
3508977--3509001	11	2.3	11	100	0	50	32	16	0	52	1.44
3516468--3516524	18	3.4	17	76	7	55	59	7	5	28	1.45
3523262--3524060	143	5.6	143	87	1	1100	27	21	20	30	1.98
3528124--3528181	20	2.8	20	89	7	73	65	0	5	29	1.14
3528131--3528181	20	2.5	20	93	6	84	60	0	5	33	1.21
3530223--3530261	16	2.4	17	83	12	55	66	2	2	28	1.18
3534946--3534979	17	2.0	17	88	0	50	32	0	2	64	1.08
3535925--3535995	21	3.3	21	74	2	70	57	12	11	18	1.64
3535925--3535995	32	2.2	33	80	7	83	57	12	11	18	1.64
3543755--3543817	33	1.9	35	84	12	89	42	0	4	52	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3544125--3544166	11	3.9	11	78	6	50	76	7	11	4	1.15
3544358--3544415	29	2.0	29	83	12	75	31	0	25	43	1.55
3552539--3552589	19	2.6	19	75	25	61	23	7	3	64	1.37
3554549--3554584	16	2.2	16	95	0	63	27	0	33	38	1.57
3554598--3554699	39	2.4	44	80	15	151	28	2	29	39	1.71
3555337--3555385	22	2.2	22	82	7	55	10	20	4	65	1.39
3558098--3558171	32	2.3	32	97	0	139	22	12	12	52	1.71
3561295--3561391	47	2.1	47	92	3	162	36	22	6	35	1.79
3568229--3568457	114	2.0	114	100	0	458	23	20	14	40	1.90
3572427--3572460	16	2.1	16	89	10	52	44	0	0	55	0.99
3575524--3575927	46	9.5	45	80	14	400	35	14	20	29	1.92
3575556--3575746	36	5.0	36	83	12	238	38	14	18	28	1.90
3575524--3575927	82	4.8	82	82	12	393	35	14	20	29	1.92
3578111--3578379	52	5.2	52	88	6	388	35	14	22	27	1.93
3578105--3578379	98	2.7	98	90	3	415	34	14	22	28	1.93
3578343--3578488	37	4.0	37	93	1	251	36	16	22	24	1.94
3578649--3579527	439	2.0	440	94	0	1553	33	8	20	37	1.83
3579732--3579783	21	2.5	20	81	9	59	53	1	11	32	1.48
3581268--3581310	22	1.9	23	95	4	79	39	0	0	60	0.97
3581268--3581315	22	2.2	22	88	7	71	39	2	0	58	1.10
3582619--3582773	9	16.0	9	67	21	57	61	1	0	36	1.07
3582620--3582711	48	1.9	48	82	8	116	64	2	0	33	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3582608--3582720	28	4.0	28	73	20	101	65	1	0	31	1.09
3582618--3582720	48	2.1	48	77	7	111	66	1	0	32	1.03
3582668--3582754	21	4.3	20	75	15	63	63	0	0	36	0.95
3582722--3582774	20	2.8	19	85	5	63	52	1	0	45	1.11
3586710--3587092	54	7.1	54	86	1	430	41	21	24	12	1.88
3586687--3587092	162	2.5	161	82	6	496	41	22	23	12	1.88
3586869--3587068	27	7.4	27	63	16	92	42	22	23	11	1.86
3587104--3587202	51	1.9	51	87	4	146	46	20	20	13	1.83
3587155--3587286	63	2.1	63	91	0	210	43	28	15	12	1.83
3588953--3589012	31	1.9	31	86	6	86	25	21	16	36	1.94
3595239--3595286	23	2.1	23	96	0	87	41	0	10	47	1.37
3596124--3596200	13	5.6	13	72	15	57	19	5	2	72	1.15
3604518--3604668	76	2.0	76	97	0	284	31	4	9	54	1.54
3605386--3605418	13	2.5	13	90	9	50	36	3	12	48	1.56
3606296--3606326	12	2.6	12	100	0	62	29	0	6	64	1.18
3612932--3612986	23	2.3	25	81	15	71	47	0	0	52	1.00
3613349--3613415	34	1.9	35	87	3	100	31	8	14	44	1.76
3614031--3614069	21	1.9	20	84	5	51	46	5	0	48	1.24
3621703--3621734	16	2.1	15	94	5	55	6	15	6	71	1.26
3622168--3622257	40	2.2	40	88	0	135	12	17	42	27	1.85
3629340--3629454	44	2.7	43	79	4	133	27	24	20	27	1.99
3630053--3630086	18	1.9	17	88	5	50	32	14	0	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3638916--3639021	40	2.7	40	80	0	122	19	22	33	23	1.97
3642334--3642441	32	3.2	32	69	19	103	30	4	27	37	1.77
3642324--3642461	68	2.0	68	100	0	276	30	5	28	35	1.81
3662174--3662217	14	3.0	15	75	18	56	20	6	6	65	1.39
3671123--3671175	27	2.0	26	85	7	72	45	15	18	20	1.85
3682506--3682544	18	2.2	18	86	9	53	56	2	2	38	1.27
3685125--3685189	27	2.4	27	82	10	80	43	16	6	33	1.73
3692164--3692198	18	1.9	18	88	0	52	60	0	5	34	1.21
3696868--3696898	3	10.3	3	100	0	62	32	0	67	0	0.91
3704610--3704645	17	2.0	19	89	10	58	41	0	0	58	0.98
3708433--3708471	20	2.0	20	84	0	51	48	0	5	46	1.24
3709942--3710009	31	2.2	31	83	0	82	58	0	4	36	1.18
3709954--3710021	31	2.2	30	86	2	91	55	0	5	38	1.24
3714630--3714687	30	1.9	31	89	3	91	44	12	10	32	1.75
3714884--3715008	59	2.1	59	76	15	134	27	11	10	51	1.70
3715060--3715112	25	2.1	25	89	0	79	50	16	7	24	1.71
3716246--3716325	39	2.1	39	97	0	151	52	11	5	31	1.58
3718624--3718669	19	2.4	19	85	10	58	78	4	2	15	1.01
3720221--3720258	14	2.8	13	88	7	58	13	23	23	39	1.90
3726462--3726494	12	2.8	12	95	0	57	87	3	9	0	0.63
3727378--3727547	44	3.7	45	76	18	172	28	19	22	30	1.98
3727324--3727543	94	2.3	94	87	3	300	28	20	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3727666--3727779	44	2.6	44	80	0	120	29	17	24	28	1.97
3727666--3727823	44	3.6	44	72	11	112	29	17	24	29	1.97
3727830--3727952	44	2.7	43	78	12	113	30	13	23	32	1.92
3728030--3728144	49	2.5	46	81	7	135	27	12	28	31	1.92
3728225--3728334	41	2.7	41	90	5	161	29	18	21	30	1.97
3728306--3728464	44	3.6	45	77	5	144	30	18	19	31	1.96
3732086--3732264	89	2.0	89	97	0	340	31	9	26	32	1.88
3733638--3733703	27	2.4	27	84	0	87	33	19	16	30	1.94
3735900--3735953	23	2.4	23	84	9	67	53	5	3	37	1.42
3735930--3735967	16	2.4	16	90	0	58	47	5	5	42	1.48

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