genome.fa.s20.2.7.7.80.10.50.1000.11.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  11  of  199  ( 23844 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)
3601929--3601987	31	1.9	31	86	6	84	35	8	0	55	1.30
3602589--3602657	29	2.5	28	76	6	77	55	0	2	42	1.15
3606291--3606342	25	2.0	25	85	3	68	48	3	1	46	1.31
3607829--3607885	30	1.9	29	89	3	87	36	0	7	56	1.27
3612758--3612797	16	2.5	16	88	8	55	77	0	2	20	0.88
3613233--3613267	16	2.2	16	89	0	52	37	2	14	45	1.59
3615960--3615985	12	2.2	12	100	0	52	15	7	26	50	1.71
3617107--3617144	15	2.5	15	95	0	67	13	47	28	10	1.76
3617918--3617954	3	12.3	3	100	0	74	35	0	0	64	0.94
3621738--3621766	3	9.7	3	100	0	58	65	0	0	34	0.93
3633277--3633351	36	2.1	36	100	0	150	40	17	5	37	1.72
3637990--3638038	26	1.9	26	83	4	64	77	0	4	18	0.92
3647607--3647652	18	2.5	18	80	20	51	26	2	4	67	1.21
3648610--3648643	17	2.0	17	88	11	52	58	0	0	41	0.98
3662447--3662475	12	2.3	13	94	5	51	68	0	0	31	0.89
3684036--3684080	18	2.8	17	77	16	51	0	33	40	26	1.57
3685295--3685573	109	2.6	102	82	13	316	39	16	18	25	1.92
3685584--3686063	117	4.2	114	83	11	596	25	15	14	45	1.83
3685599--3686059	221	2.1	222	93	2	784	25	15	14	44	1.84
3685847--3686063	120	1.9	120	91	6	340	25	15	15	42	1.87
3687047--3687084	18	2.2	18	90	9	62	21	5	2	71	1.19
3689141--3689197	31	1.9	30	85	7	80	42	15	12	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3703455--3703491	16	2.2	17	95	4	67	54	5	0	40	1.24
3704029--3704264	117	2.0	118	85	5	318	38	12	13	35	1.82
3704517--3704545	14	2.1	14	93	6	51	68	3	6	20	1.27
3708536--3708593	25	2.2	26	78	9	64	48	13	0	37	1.43
3708842--3708896	23	2.3	23	78	9	58	61	3	0	34	1.13
3710636--3710688	3	17.7	3	80	0	52	58	5	0	35	1.22
3711411--3711450	19	2.2	19	90	4	64	15	12	0	72	1.12
3711600--3711661	5	12.2	5	75	16	56	58	3	0	38	1.15
3711598--3711661	27	2.5	25	85	7	85	56	3	0	40	1.15
3716133--3716242	42	2.6	43	85	1	141	31	25	17	25	1.97
3720888--3720944	29	2.0	29	96	0	105	19	10	10	59	1.59
3722273--3722337	18	3.7	17	75	15	62	63	1	3	32	1.19
3722905--3722954	14	3.6	14	74	15	59	34	2	0	64	1.05
3722988--3723043	21	2.8	20	84	7	69	42	5	0	51	1.24
3722988--3723043	20	2.8	21	86	7	73	42	5	0	51	1.24
3727743--3727823	20	4.2	19	72	10	74	32	3	1	62	1.20
3727809--3727868	11	5.6	11	82	5	61	41	0	1	56	1.09
3727815--3727868	21	2.5	22	81	6	65	44	0	0	55	0.99
3728808--3728898	40	2.3	39	88	5	137	40	12	0	47	1.41
3737116--3737193	30	2.6	30	95	0	138	26	0	11	61	1.30
3765951--3766009	31	1.9	31	92	0	100	38	0	27	33	1.57
3767422--3767461	14	2.9	14	84	0	53	32	7	17	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767445--3767484	20	2.0	20	90	0	62	27	10	12	50	1.72
3768676--3768712	6	6.2	6	100	0	74	67	32	0	0	0.91
3769741--3769812	36	2.0	36	91	0	117	25	18	26	30	1.98
3769605--3769849	133	1.8	133	87	1	366	24	19	24	32	1.97
3775278--3775516	78	3.1	78	90	2	381	38	23	20	17	1.93
3775302--3775428	42	3.2	41	63	21	97	39	25	17	17	1.91
3779539--3779595	26	2.1	27	80	6	62	21	12	17	49	1.79
3781241--3781273	14	2.4	14	94	0	57	27	0	6	66	1.15
3781469--3781604	68	2.0	68	92	2	229	46	8	6	38	1.61
3781592--3781635	9	5.1	9	83	10	65	54	11	0	34	1.36
3781601--3781638	16	2.4	16	90	0	58	52	10	0	36	1.36
3781642--3781683	16	2.6	16	92	0	66	42	7	2	47	1.43
3791520--3791583	18	3.3	18	68	16	56	34	14	0	51	1.42
3791530--3791593	18	3.2	20	66	16	60	39	12	0	48	1.41
3791514--3791593	40	2.0	40	100	0	160	37	12	0	50	1.41
3791673--3791730	25	2.2	25	84	9	71	44	3	0	51	1.18
3797349--3797377	4	7.2	4	100	0	58	51	24	0	24	1.48
3805686--3805722	14	2.6	15	83	12	51	0	27	10	62	1.28
3806563--3806587	13	1.9	13	100	0	50	32	0	0	68	0.90
3810260--3810291	4	8.0	4	100	0	64	25	0	0	75	0.81
3812606--3812694	18	4.8	18	69	17	56	65	1	23	10	1.30
3812653--3812705	23	2.4	22	76	20	56	69	1	18	9	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3814064--3814099	4	9.0	4	100	0	72	25	0	0	75	0.81
3822388--3822655	133	2.0	133	97	0	500	34	14	14	35	1.87
3823585--3823633	22	2.2	23	88	3	73	57	6	2	34	1.35
3828773--3828853	39	2.1	39	100	0	162	45	17	4	32	1.69
3834151--3834191	15	2.4	18	76	23	52	75	0	4	19	0.98
3836967--3837002	17	2.1	17	94	0	63	47	11	13	27	1.77
3839006--3839030	6	4.2	6	100	0	50	16	0	0	84	0.63
3842021--3842066	22	2.1	22	87	0	65	54	13	10	21	1.69
3842889--3842966	28	2.8	28	82	7	79	62	5	3	28	1.34
3842902--3842980	10	8.1	10	74	5	63	63	3	5	27	1.33
3842919--3842994	20	3.9	19	73	13	66	61	2	5	30	1.31
3843285--3843340	20	2.8	20	79	17	62	51	1	5	41	1.35
3843604--3843684	37	2.3	35	78	18	94	29	3	2	64	1.24
3844216--3844781	303	1.9	303	87	0	828	38	11	9	40	1.74
3848704--3848806	46	2.1	48	83	13	124	53	4	2	38	1.37
3855028--3855110	42	1.9	42	80	9	96	43	0	4	51	1.23
3856902--3856994	42	2.2	42	92	0	150	29	19	21	30	1.97
3859569--3859621	21	2.5	21	84	0	70	30	7	33	28	1.85
3861287--3861576	146	2.0	146	97	0	553	26	20	16	36	1.94
3863872--3863924	27	2.0	27	88	0	79	47	9	13	30	1.74
3867998--3868041	22	2.1	20	87	8	61	61	0	0	38	0.96
3867998--3868058	21	2.9	22	83	11	67	59	0	1	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3868167--3868225	27	2.1	27	84	6	73	45	1	10	42	1.48
3872010--3872050	4	10.2	4	100	0	82	51	24	0	24	1.49
3872899--3872946	18	2.9	15	75	19	51	58	2	0	39	1.10
3872899--3872948	15	3.1	16	78	15	59	60	2	0	38	1.09
3873261--3873510	116	2.1	117	86	0	349	32	19	20	28	1.97
3883154--3883235	36	2.2	39	78	10	91	37	0	4	57	1.20
3883241--3883401	9	17.8	9	67	17	84	33	1	2	62	1.16
3883229--3883289	21	2.8	22	73	16	65	34	0	1	63	1.04
3883241--3883401	19	8.8	19	67	15	72	33	1	2	62	1.16
3883165--3883291	67	1.9	64	80	10	141	34	0	3	61	1.15
3883259--3883318	29	2.1	29	84	12	79	31	0	1	66	1.01
3883260--3883307	14	3.3	14	76	18	53	31	0	0	68	0.90
3894881--3894919	14	2.8	14	92	0	69	41	0	2	56	1.13
3894871--3894919	17	3.1	17	77	17	68	40	0	2	57	1.10
3895049--3895074	3	8.7	3	100	0	52	34	0	0	65	0.93
3896226--3896336	23	5.0	23	86	7	142	18	23	24	33	1.97
3896227--3896335	44	2.5	41	82	10	128	17	23	24	33	1.96
3897001--3897026	9	2.9	9	100	0	52	23	0	30	46	1.53
3903129--3903158	12	2.5	12	94	0	51	66	0	0	33	0.92
3909589--3909630	22	1.9	22	85	9	59	66	0	33	0	0.92
3911370--3911415	11	4.1	11	85	2	56	21	28	2	47	1.62
3911370--3911415	22	2.0	23	87	4	67	21	28	2	47	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3911370--3911431	22	2.8	21	79	16	63	24	29	1	45	1.63
3912990--3913114	63	2.0	63	98	0	241	24	19	26	29	1.98
3913348--3913382	18	1.9	18	94	0	61	28	28	0	42	1.56
3913644--3913692	21	2.3	21	82	0	62	38	40	12	8	1.72
3917569--3917633	28	2.4	27	90	7	98	29	3	0	67	1.05
3917569--3917644	28	2.9	28	82	7	79	26	2	3	67	1.22
3917902--3918015	40	2.9	38	74	22	110	22	27	25	24	2.00
3919385--3919419	14	2.5	14	95	0	61	34	20	5	40	1.76
3924389--3924447	24	2.5	24	88	0	91	44	0	25	30	1.55
3924513--3924577	20	3.4	19	69	14	62	35	4	15	44	1.67

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