genome.fa.s13.2.7.7.80.10.50.1000.9.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: Chr11
Parameters: 2 7 7 80 10 50 1000
Length:  47972186

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   

This is table  9  of  145  ( 17310 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)
3836026--3836052	6	4.5	6	100	0	54	48	0	0	51	1.00
3837184--3837208	5	5.0	5	100	0	50	80	0	0	20	0.72
3843580--3843618	9	4.2	9	83	6	51	33	2	0	64	1.08
3843561--3843737	88	2.0	89	98	1	347	38	5	6	48	1.53
3843668--3843706	9	4.2	9	83	6	51	33	2	0	64	1.08
3848095--3848175	29	2.8	29	81	7	94	39	17	17	25	1.91
3849354--3849391	20	2.0	20	89	5	60	57	2	0	39	1.12
3851152--3851237	47	1.9	45	81	11	106	54	5	4	34	1.45
3851887--3851928	22	1.9	22	90	9	68	28	9	9	52	1.65
3852334--3852399	31	2.1	31	82	0	78	16	7	12	63	1.50
3854036--3854535	152	3.4	146	88	7	723	52	7	9	31	1.61
3854135--3854535	143	2.8	139	86	7	447	52	7	8	30	1.60
3854543--3854602	27	2.2	27	87	0	84	11	35	33	20	1.88
3856300--3856337	2	19.0	2	88	0	58	47	2	2	47	1.30
3860599--3860672	31	2.4	31	84	6	89	56	6	5	31	1.48
3872596--3872642	18	2.5	19	86	3	60	44	4	0	51	1.21
3883846--3883922	9	8.4	9	87	8	102	40	27	10	22	1.86
3883996--3884094	39	2.5	39	80	11	121	20	3	29	47	1.65
3890668--3891028	94	3.8	94	76	8	270	29	13	16	41	1.86
3899678--3899748	36	2.0	36	94	0	124	46	14	12	26	1.80
3899695--3899748	17	2.9	19	71	20	60	46	16	12	24	1.82
3899677--3899740	17	3.6	17	72	15	58	46	12	12	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3904900--3905172	90	3.0	90	93	0	465	39	18	25	16	1.91
3909720--3909749	2	15.0	2	100	0	60	50	0	0	50	1.00
3911433--3911474	18	2.2	20	87	8	61	35	0	4	59	1.19
3911430--3911475	19	2.3	21	82	14	62	36	0	4	58	1.18
3912364--3912652	2	144.5	2	100	0	578	50	0	0	49	1.00
3918503--3918567	7	9.4	7	76	3	51	52	4	1	41	1.31
3918509--3918554	14	3.3	14	84	0	65	54	4	2	39	1.32
3918497--3918541	21	2.1	22	83	4	56	55	4	0	40	1.20
3918509--3918561	28	1.9	27	92	3	88	52	5	1	39	1.36
3925825--3926346	165	3.2	164	91	1	810	21	22	24	30	1.99
3933058--3933095	18	2.1	19	90	5	60	44	0	31	23	1.54
3933922--3934044	39	3.2	39	68	17	119	39	0	6	53	1.27
3933896--3934055	78	2.0	79	97	1	304	39	0	6	54	1.26
3935062--3935124	32	2.0	32	81	12	76	38	4	0	57	1.20
3935121--3935164	18	2.5	17	82	13	54	40	0	6	52	1.28
3935124--3935178	20	2.9	18	81	15	58	38	0	5	56	1.23
3947569--3947598	2	15.0	2	100	0	60	50	0	0	50	1.00
3949377--3949403	7	3.9	7	100	0	54	85	0	0	14	0.61
3953701--3953771	27	2.6	28	77	6	92	19	30	36	12	1.89
3953813--3953931	38	3.5	33	75	19	102	65	0	31	2	1.06
3953835--3953923	10	9.8	9	75	19	62	68	0	28	3	1.05
3953838--3953920	24	3.4	23	82	15	89	68	0	27	3	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3953835--3953923	5	19.8	4	75	22	56	68	0	28	3	1.05
3953826--3953925	10	10.3	10	75	15	59	66	0	31	3	1.07
3953842--3953968	54	2.4	54	80	9	145	67	1	28	2	1.12
3953906--3953969	34	1.9	33	83	3	83	65	3	31	0	1.08
3954351--3954402	13	4.0	13	75	9	52	65	7	1	25	1.30
3954277--3954776	154	3.2	151	85	6	630	52	8	10	29	1.64
3954505--3954556	13	4.0	13	75	9	52	65	7	1	25	1.30
3954277--3954784	155	3.3	153	87	5	688	51	8	9	29	1.64
3957242--3957369	39	3.3	38	78	8	141	48	10	5	35	1.62
3957259--3957354	40	2.4	39	84	5	113	47	11	4	36	1.59
3957718--3957766	23	2.1	23	82	17	57	28	0	4	67	1.09
3967381--3967411	16	1.9	16	93	0	53	48	3	0	48	1.17
3976517--3976550	10	3.1	11	87	12	52	29	0	0	70	0.87
3988485--3988521	19	2.0	18	89	5	56	75	0	2	21	0.92
3989885--3989928	21	2.0	21	82	4	52	56	0	36	6	1.26
3991743--3991792	22	2.3	22	79	6	57	58	6	10	26	1.54
3995983--3996013	8	3.9	8	95	0	53	67	0	0	32	0.91
3999712--3999792	30	2.8	28	81	7	90	29	4	0	65	1.13
3999712--3999816	28	3.7	28	77	8	88	27	3	0	67	1.14
3999776--3999816	17	2.3	18	80	16	50	19	0	2	78	0.87
3999921--4000182	90	2.9	89	80	8	267	38	9	14	37	1.80
3999921--4000153	94	2.5	94	82	6	255	38	10	14	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4015101--4015142	18	2.6	16	81	11	50	28	2	19	50	1.60
4021360--4021389	11	2.6	12	94	5	53	6	10	0	83	0.81
4028833--4029005	87	2.0	86	91	1	283	17	40	23	17	1.91
4032232--4032800	298	1.9	299	87	1	836	38	9	15	36	1.81
4037609--4037646	18	2.1	19	85	5	51	0	13	5	81	0.85
4040478--4040581	27	3.9	27	75	5	93	35	18	27	18	1.94
4040339--4040518	95	1.9	95	80	4	211	37	18	22	22	1.94
4040478--4040581	54	1.9	54	82	3	129	35	18	27	18	1.94
4042421--4042503	42	2.0	42	92	0	139	34	21	9	33	1.86
4043987--4044134	74	2.0	74	94	0	260	37	14	8	39	1.78
4046005--4046054	21	2.5	20	80	3	55	38	10	12	40	1.76
4047179--4047233	24	2.3	24	93	0	92	43	5	20	30	1.74
4055694--4055735	15	2.8	15	85	0	66	45	9	19	26	1.80
4056745--4056891	54	2.6	53	86	8	186	45	13	15	25	1.83
4060108--4060200	49	1.9	48	95	2	168	31	12	7	48	1.69
4064674--4064723	26	2.0	24	85	11	66	48	0	6	46	1.27
4064793--4064831	19	2.1	19	90	0	60	64	5	2	28	1.28
4068638--4068685	12	4.0	12	73	10	53	37	14	33	14	1.87
4068652--4068715	24	2.7	24	85	4	76	32	12	39	15	1.85
4072021--4072118	28	3.5	28	69	8	101	50	23	1	25	1.56
4072104--4072150	23	2.0	23	91	0	76	65	17	0	17	1.27
4074188--4074302	57	2.0	57	84	0	149	30	13	13	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4076703--4076735	12	2.8	12	90	4	50	57	0	3	39	1.14
4078637--4079387	51	15.5	51	75	11	510	29	23	17	29	1.97
4078694--4078861	44	3.8	44	79	5	169	29	22	20	27	1.98
4078545--4078978	238	1.8	238	86	1	627	28	21	18	30	1.97
4078888--4079375	97	5.0	97	86	0	661	30	23	16	29	1.96
4078822--4079403	51	11.7	51	78	7	538	30	23	16	29	1.96
4098029--4098065	4	9.2	4	100	0	74	24	24	0	51	1.49
4099051--4099084	17	2.0	17	88	11	52	41	0	11	47	1.40
4123349--4123592	50	4.8	50	85	1	290	21	29	21	27	1.99
4125938--4125993	28	2.0	28	100	0	112	32	17	28	21	1.96
4129091--4129172	25	3.3	25	80	0	92	28	21	28	21	1.99
4129187--4129339	25	6.2	25	69	15	95	36	18	28	16	1.93
4129189--4129336	50	3.0	51	75	13	148	37	18	27	16	1.93
4133157--4133216	28	2.1	28	100	0	120	25	6	21	46	1.75
4133796--4133829	17	1.9	18	94	5	61	41	17	2	38	1.65
4137838--4137867	2	15.0	2	100	0	60	50	0	0	50	1.00
4141723--4141757	3	11.7	3	100	0	70	31	34	0	34	1.58
4143622--4143670	22	2.2	22	96	0	89	36	32	22	8	1.84
4156276--4156709	44	9.8	44	71	12	269	31	16	22	29	1.96
4156627--4156741	44	2.6	44	82	8	119	31	20	21	26	1.98
4158319--4158394	3	25.3	3	76	19	70	31	5	2	60	1.33
4164943--4165033	35	2.7	35	77	15	95	69	1	10	18	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4164970--4165028	15	4.1	14	72	14	50	71	0	8	20	1.12
4173357--4173432	33	2.3	32	77	6	80	32	18	21	27	1.96
4173356--4173550	105	1.9	105	82	4	250	32	16	23	27	1.96
4176011--4176058	4	12.0	4	86	0	69	27	20	0	52	1.47
4176013--4176058	16	2.9	16	96	0	83	28	19	0	52	1.47
4180553--4181627	538	2.0	538	85	3	1464	32	19	14	34	1.91
4183086--4183253	51	3.3	51	98	0	318	28	24	14	32	1.94
4190668--4190714	24	2.0	24	87	8	69	25	4	12	57	1.54
4191051--4191348	44	6.6	44	70	15	164	28	22	18	30	1.97
4191091--4191465	142	2.6	142	95	0	653	28	21	16	32	1.96

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