genome.fa.s10.2.7.7.80.10.50.1000.113.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: Chr6
Parameters: 2 7 7 80 10 50 1000
Length:  47432654

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   

This is table  113  of  136  ( 16211 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)
38213049--38213075	2	13.5	2	100	0	54	0	0	48	51	1.00
38220085--38220293	109	1.9	109	100	0	418	27	20	16	35	1.94
38220372--38220663	86	3.4	86	79	7	308	30	24	20	23	1.98
38220394--38220623	43	5.3	43	86	2	275	30	25	20	23	1.99
38220586--38220676	42	2.2	42	80	7	105	37	25	15	21	1.93
38222473--38222512	18	2.2	18	86	0	53	67	7	15	10	1.41
38225682--38225724	19	2.3	19	80	11	52	65	4	4	25	1.32
38225729--38225840	41	2.7	41	91	0	170	30	24	21	24	1.99
38225877--38226012	40	3.4	39	83	4	157	19	20	22	37	1.94
38232139--38232172	17	1.9	18	88	5	52	23	14	0	61	1.33
38251195--38251250	24	2.3	24	100	0	112	33	12	26	26	1.92
38255763--38255792	14	2.1	14	100	0	60	66	13	0	20	1.24
38255896--38255990	3	31.7	3	97	0	91	21	0	11	67	1.22
38261779--38261824	20	2.3	19	85	11	56	63	0	36	0	0.95
38262524--38262572	21	2.3	21	85	0	62	38	12	14	34	1.83
38266427--38266493	33	2.0	33	94	0	116	31	1	4	62	1.24
38269914--38270011	50	2.0	50	100	0	196	28	24	18	28	1.98
38279042--38279139	49	2.0	50	85	2	135	43	8	17	30	1.78
38284751--38284789	19	2.1	19	100	0	78	46	0	25	28	1.53
38286775--38286866	37	2.5	37	81	1	112	38	19	18	23	1.93
38290598--38290649	18	2.9	17	80	11	59	26	26	7	38	1.83
38304107--38304148	17	2.5	17	100	0	84	35	38	11	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38304587--38304654	25	2.7	25	77	11	77	30	19	26	23	1.98
38314505--38314539	9	3.9	9	96	0	61	0	25	5	68	1.11
38314505--38314540	3	12.0	3	87	0	54	0	27	5	66	1.13
38315455--38315588	66	2.0	66	86	2	189	20	29	22	26	1.99
38315458--38315625	66	2.6	66	81	6	173	23	27	21	27	1.99
38315952--38315979	13	2.2	13	100	0	56	39	39	7	14	1.73
38322130--38322169	20	2.0	20	100	0	80	30	20	10	40	1.85
38326984--38327042	29	2.1	27	81	12	66	23	6	1	67	1.24
38331706--38332208	88	5.7	88	77	8	443	33	17	14	34	1.90
38331706--38332213	176	2.9	174	81	4	534	33	17	14	34	1.90
38337484--38337766	139	2.0	140	97	2	543	43	5	7	43	1.56
38337732--38337793	24	2.6	24	78	12	65	59	6	3	30	1.38
38340775--38340838	25	2.6	25	84	0	83	23	32	12	31	1.92
38343852--38343886	18	1.9	18	88	0	52	60	5	0	34	1.21
38345418--38345486	25	2.8	26	84	8	83	27	17	33	21	1.96
38354217--38354251	17	2.0	18	88	5	54	68	5	14	11	1.37
38355782--38355916	28	4.9	28	75	11	107	37	9	23	28	1.87
38356927--38356983	13	4.3	13	78	17	55	19	3	3	73	1.12
38356941--38356982	17	2.5	17	88	0	57	19	2	2	76	1.01
38359364--38359417	21	2.5	22	82	11	60	16	31	22	29	1.96
38364312--38364383	35	2.1	35	86	0	99	38	31	12	16	1.86
38365691--38365729	20	2.0	20	100	0	78	28	0	20	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38368493--38368543	23	2.2	23	92	0	84	27	9	21	41	1.84
38369833--38369872	18	2.2	19	86	4	55	57	2	5	35	1.34
38370256--38370538	102	2.8	98	85	7	363	28	18	22	30	1.97
38370256--38370538	101	2.8	101	86	6	378	28	18	22	30	1.97
38370470--38370642	51	3.4	49	77	9	150	33	13	24	28	1.93
38371491--38371684	91	2.2	87	80	8	214	36	20	17	25	1.94
38373078--38373131	21	2.6	21	90	0	90	29	7	33	29	1.85
38373151--38373285	29	4.6	29	84	4	153	34	9	1	54	1.42
38373301--38373343	14	2.9	15	82	10	52	13	53	0	32	1.41
38373311--38373351	16	2.5	16	84	4	55	9	56	2	31	1.45
38373302--38373494	59	3.3	59	76	15	204	12	51	3	33	1.55
38373475--38373509	6	5.7	6	93	6	61	17	45	0	37	1.48
38373475--38373509	13	2.8	12	91	8	61	17	45	0	37	1.48
38375200--38375335	45	3.0	45	96	2	256	42	11	14	30	1.82
38378613--38378701	44	2.0	45	86	6	128	44	1	1	52	1.15
38378682--38378717	18	1.9	19	88	5	56	25	5	0	69	1.10
38381188--38381212	12	2.1	12	100	0	50	36	48	0	16	1.46
38381865--38381953	44	2.0	44	88	0	133	22	20	14	42	1.88
38388246--38388282	17	2.2	17	90	0	56	56	0	5	37	1.22
38393736--38393765	15	2.0	15	100	0	60	26	26	6	40	1.81
38396142--38396180	20	1.9	21	89	5	62	38	5	0	56	1.22
38401289--38401343	21	2.7	21	82	2	67	29	18	14	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38401349--38401393	22	2.0	22	82	4	54	20	20	13	46	1.83
38401294--38401393	21	4.6	23	75	10	59	26	19	13	42	1.87
38401641--38401679	19	2.0	20	85	5	53	64	0	20	15	1.30
38404685--38404715	15	2.1	15	100	0	62	32	12	12	41	1.81
38413411--38413461	26	1.9	27	92	4	86	13	3	41	41	1.63
38418493--38418535	2	21.5	2	100	0	86	0	0	51	48	1.00
38421494--38421590	48	2.0	48	91	0	158	44	22	17	15	1.86
38421793--38421863	36	2.0	36	94	0	124	46	14	12	26	1.80
38421810--38421863	17	2.9	19	71	20	60	46	16	12	24	1.82
38421792--38421855	17	3.6	17	72	15	58	46	12	12	28	1.78
38424657--38424720	17	3.6	17	74	15	67	46	14	14	25	1.81
38426026--38426071	23	2.0	23	83	8	58	50	4	0	45	1.21
38426588--38426639	9	5.7	9	75	4	50	19	0	1	78	0.84
38426591--38426643	15	3.6	15	75	12	56	20	0	1	77	0.87
38434055--38434181	63	2.0	63	98	0	245	34	17	10	37	1.84
38435444--38435489	24	1.9	24	81	0	56	56	17	0	26	1.41
38437478--38437635	41	3.8	41	83	4	183	24	21	27	26	1.99
38441272--38441452	43	4.3	42	82	4	186	25	14	26	32	1.95
38442038--38443231	595	2.0	597	99	0	2374	37	11	16	34	1.85
38444693--38444736	23	2.0	23	86	4	63	59	6	4	29	1.44
38444928--38445001	31	2.4	32	82	6	82	66	5	4	24	1.30
38444767--38445116	140	2.5	138	80	9	375	54	10	9	26	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38446143--38446189	23	2.0	23	95	0	85	34	2	17	46	1.59
38446145--38446187	13	3.5	13	75	18	56	32	2	16	48	1.58
38451578--38453019	721	2.0	721	100	0	2884	37	16	19	26	1.93
38455318--38455373	13	4.5	13	84	13	82	33	1	16	48	1.56
38456556--38456596	22	1.9	22	90	5	66	29	2	2	65	1.18
38456675--38456733	19	3.2	19	70	15	52	32	1	5	61	1.28
38456654--38456790	10	14.5	10	68	17	71	33	2	4	59	1.29
38457475--38457529	27	2.0	27	100	0	110	61	3	10	23	1.44
38462653--38462689	9	4.1	9	92	0	65	45	13	10	29	1.77
38463411--38463437	5	5.4	5	100	0	54	18	18	18	44	1.87
38468442--38468563	61	2.0	61	98	0	235	35	18	8	37	1.81
38473775--38473802	13	2.2	13	100	0	56	46	21	7	25	1.76
38474898--38474962	27	2.4	27	84	5	78	16	18	36	27	1.93
38478150--38478268	17	6.8	17	71	21	77	65	0	4	29	1.17
38478159--38478258	19	5.8	16	70	23	53	66	1	4	29	1.17
38478150--38478261	9	12.9	8	73	23	61	65	0	3	30	1.16
38478150--38478211	26	2.5	25	80	12	65	69	0	3	27	1.04
38478197--38478268	29	2.6	26	83	12	90	62	1	4	31	1.23
38478368--38478412	21	2.1	21	88	8	65	55	0	0	44	0.99
38481620--38481673	26	2.1	26	85	0	72	46	5	20	27	1.73
38485953--38486016	29	2.3	29	81	10	71	39	1	1	57	1.17
38485953--38486016	28	2.3	28	83	5	76	39	1	1	57	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38486181--38486211	3	10.3	3	100	0	62	32	0	0	67	0.91
38487560--38487588	14	2.1	14	100	0	58	55	27	0	17	1.42
38491284--38491486	102	2.0	102	98	0	388	43	13	21	22	1.87
38493954--38493981	12	2.3	12	100	0	56	28	7	14	50	1.69
38506918--38506979	27	2.3	27	91	0	106	41	11	12	33	1.79
38507865--38507922	28	2.1	27	80	3	62	34	6	0	58	1.25
38507890--38508229	148	2.3	149	84	6	424	39	10	5	44	1.63
38508498--38508699	39	5.2	39	86	3	273	13	32	19	34	1.90
38508503--38508637	19	6.9	20	68	17	68	14	33	20	32	1.92
38508511--38508656	20	7.4	20	70	13	97	13	34	19	31	1.91

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