genome.fa.s12.2.7.7.80.10.50.1000.13.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  13  of  128  ( 15303 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)
3871665--3871852	32	5.9	32	85	1	243	22	20	19	38	1.94
3875977--3876027	20	2.6	21	85	14	74	43	17	15	23	1.88
3884011--3884092	42	1.9	43	85	2	112	36	23	13	26	1.92
3886772--3886831	20	3.1	20	83	9	63	40	1	1	56	1.19
3886783--3886831	20	2.5	20	87	9	66	40	0	0	59	0.98
3886744--3886851	9	11.4	9	68	19	60	40	0	1	56	1.16
3890231--3890266	19	1.9	19	88	5	56	38	2	0	58	1.13
3900592--3900652	30	2.0	32	87	6	90	45	1	6	45	1.39
3900679--3900708	15	2.0	15	93	0	51	63	0	0	36	0.95
3901474--3901633	79	2.0	79	98	0	311	32	13	18	36	1.89
3903955--3904088	38	3.5	37	81	4	151	41	27	15	14	1.87
3903937--3904088	76	2.0	76	83	2	189	40	27	16	15	1.88
3908364--3908394	12	2.6	12	94	0	53	35	22	12	29	1.91
3917384--3917502	28	4.3	28	78	5	116	31	20	20	28	1.97
3917384--3917502	55	2.1	56	84	4	152	31	20	20	28	1.97
3917854--3917887	17	2.0	17	88	0	50	0	29	0	70	0.87
3926156--3926203	23	2.1	23	100	0	96	20	29	8	41	1.81
3926754--3926830	40	1.9	40	83	0	100	32	22	20	24	1.98
3926923--3927079	41	3.8	41	91	0	242	18	24	29	28	1.98
3927118--3927628	247	2.1	247	98	0	995	45	4	7	42	1.54
3927737--3927797	20	3.0	20	76	9	61	24	1	44	29	1.63
3927792--3927818	14	1.9	14	100	0	54	22	0	37	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3927932--3928013	27	3.2	26	69	13	80	43	1	7	47	1.38
3927911--3928013	50	2.0	51	94	1	181	42	0	5	50	1.33
3931544--3931959	207	2.0	207	98	0	805	26	15	18	38	1.91
3933538--3933840	43	7.1	43	82	2	351	22	18	31	28	1.97
3944369--3944520	58	2.6	58	85	1	180	23	19	19	38	1.94
3944338--3944503	29	5.8	29	79	3	165	25	18	19	37	1.94
3965475--3965556	26	3.2	25	82	3	92	28	3	3	64	1.27
3965912--3965975	22	2.9	23	80	15	64	26	26	0	46	1.53
3965912--3965975	11	5.7	11	70	17	51	26	26	0	46	1.53
3968428--3968611	25	7.9	24	73	17	174	40	0	14	45	1.45
3968384--3968611	69	3.3	68	95	1	393	41	0	13	45	1.44
3969631--3969790	43	3.7	43	84	5	200	29	32	18	20	1.96
3969627--3969855	86	2.7	85	82	7	234	31	31	15	22	1.95
3972556--3972620	32	2.0	33	93	3	114	69	15	3	12	1.31
3974430--3974613	14	12.9	14	71	15	117	47	32	1	19	1.57
3974429--3974569	7	19.7	7	72	12	65	48	33	0	18	1.49
3974520--3974561	22	2.0	21	90	4	66	50	33	0	16	1.46
3974430--3974613	86	2.1	86	79	13	193	47	32	1	19	1.57
3975829--3976107	41	6.8	40	86	6	355	28	31	18	21	1.97
3975829--3976107	123	2.3	123	87	3	400	28	31	18	21	1.97
3976382--3976630	125	2.0	125	91	0	408	31	22	16	29	1.96
3981771--3981803	14	2.3	15	89	5	50	27	15	33	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3981891--3981944	5	10.8	5	78	21	60	83	0	16	0	0.65
3981884--3981946	22	2.8	22	85	2	81	84	0	14	1	0.71
3981890--3981948	16	3.8	16	85	14	79	83	0	16	0	0.66
3981889--3981948	29	2.2	29	88	11	92	83	0	16	0	0.65
3982830--3983307	44	10.6	43	69	14	225	29	18	21	30	1.97
3982816--3983266	181	2.5	181	85	4	595	30	18	21	29	1.97
3984846--3984930	26	3.3	26	88	3	118	29	2	2	65	1.17
3984846--3984947	26	3.9	25	82	5	87	32	2	2	61	1.26
3987411--3987457	11	4.0	13	84	13	50	46	0	6	46	1.28
3988779--3988945	29	5.8	29	82	4	176	37	13	27	21	1.91
3988833--3988950	59	2.0	58	86	4	166	37	12	28	21	1.90
3990083--3990146	30	2.1	30	85	0	83	14	21	31	32	1.93
3990984--3991021	15	2.5	15	87	12	51	23	26	7	42	1.81
3992184--3992709	262	2.0	262	94	0	928	29	13	22	34	1.93
3998192--3998240	20	2.5	20	86	6	73	24	16	32	26	1.96
3999724--3999824	48	2.1	48	96	0	184	31	18	23	25	1.98
4005085--4005143	11	5.5	11	88	8	95	25	44	11	18	1.84
4005182--4005206	11	2.3	11	100	0	50	32	44	8	16	1.76
4013323--4013352	16	1.9	16	93	6	53	50	20	0	30	1.49
4014465--4014529	25	2.6	25	73	9	69	29	18	23	29	1.98
4014510--4014572	25	2.5	25	86	0	90	33	15	25	25	1.95
4014510--4014580	25	2.8	24	78	16	63	33	16	25	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4021361--4021495	40	3.4	39	80	2	139	37	22	20	20	1.95
4021531--4021854	41	7.9	41	89	0	450	21	21	27	30	1.98
4022680--4022742	33	1.9	32	90	3	99	20	4	41	33	1.73
4023708--4023753	21	2.2	21	84	7	58	23	50	2	23	1.61
4023709--4023753	22	2.1	21	83	4	54	24	51	2	22	1.60
4026170--4026441	129	2.1	129	84	2	341	21	16	31	30	1.95
4026170--4026434	43	6.2	43	84	2	300	22	16	30	30	1.95
4030582--4030781	50	4.0	50	100	0	400	24	20	30	26	1.98
4033864--4033907	23	1.9	23	95	0	79	54	0	9	36	1.32
4034176--4034338	88	1.9	88	80	7	197	39	11	25	22	1.88
4034147--4034365	117	1.9	117	82	5	282	39	11	26	22	1.89
4034120--4034372	58	4.3	58	78	5	249	38	13	26	22	1.90
4034146--4034372	29	7.8	29	79	1	220	38	12	25	22	1.90
4038822--4038900	27	2.9	27	86	0	113	40	24	17	17	1.91
4038822--4038911	27	3.3	27	81	6	101	37	25	16	20	1.93
4042108--4042303	29	6.8	29	85	4	243	36	13	28	21	1.92
4042134--4042305	59	3.0	58	86	4	240	36	13	29	21	1.91
4042108--4042303	88	2.3	86	87	5	270	36	13	28	21	1.92
4051949--4051979	16	1.9	16	93	0	53	58	9	0	32	1.31
4055589--4055633	18	2.6	18	77	22	51	46	0	0	53	1.00
4057797--4057832	16	2.2	16	95	0	63	27	0	33	38	1.57
4057812--4057903	45	2.1	44	83	2	112	30	5	28	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4058062--4058164	33	3.2	33	62	22	81	33	9	6	49	1.62
4061036--4061107	27	2.7	27	69	4	65	26	31	30	11	1.91
4061137--4061267	20	6.3	20	77	12	97	64	0	35	0	0.99
4061143--4061219	10	7.7	10	79	0	82	68	0	29	1	0.97
4061143--4061227	30	2.8	30	98	0	161	68	0	30	1	0.97
4061161--4061264	6	17.3	6	78	10	72	66	0	33	0	0.92
4061161--4061264	9	11.6	9	76	11	72	66	0	33	0	0.92
4061137--4061257	15	8.0	15	70	18	83	66	0	33	0	0.98
4061212--4061303	6	14.5	6	78	13	51	58	2	39	0	1.10
4061343--4061381	20	2.0	19	95	5	69	20	0	7	71	1.10
4061516--4061547	17	1.9	17	93	6	57	75	6	9	9	1.20
4061534--4062112	152	3.6	159	87	8	849	52	8	10	28	1.65
4062222--4062281	29	2.1	29	93	0	102	58	5	15	21	1.56
4064827--4065035	40	5.3	40	72	14	155	49	11	5	33	1.62
4065214--4065254	13	3.3	13	76	13	50	2	34	0	63	1.08
4065201--4065265	24	2.7	23	71	4	58	3	26	0	70	1.01
4065281--4065334	3	18.0	3	94	0	90	1	35	0	62	1.06
4077694--4077745	20	2.5	20	84	9	70	13	23	21	42	1.88
4079532--4079583	22	2.4	22	80	0	59	46	5	11	36	1.64
4082080--4082110	13	2.4	13	94	0	53	12	32	32	22	1.92
4082736--4082846	41	2.7	41	82	10	127	35	29	16	18	1.93
4084461--4084576	40	2.9	38	80	7	108	36	23	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4084500--4084594	39	2.4	39	81	6	95	37	23	18	20	1.94
4084634--4084746	41	2.8	41	91	0	181	20	22	26	30	1.98
4085019--4085066	14	3.4	14	80	5	51	18	0	35	45	1.50
4085033--4085066	15	2.3	15	90	5	52	20	0	38	41	1.53
4085053--4085093	21	2.0	20	85	4	55	19	0	41	39	1.52
4085061--4085118	15	3.9	15	81	2	73	20	0	44	34	1.52
4092209--4092342	42	3.2	41	79	5	135	23	14	29	32	1.95
4092250--4092451	101	2.0	101	100	0	404	22	15	28	32	1.95
4092363--4092592	43	5.3	43	89	1	309	18	18	33	29	1.95
4092209--4092494	144	2.0	143	83	4	362	21	16	30	32	1.95

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