genome.fa.s8.2.7.7.80.10.50.1000.120.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   

This is table  120  of  135  ( 16172 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)
43560800--43560840	18	2.2	20	82	8	50	31	4	17	46	1.69
43560779--43560996	112	1.9	113	91	1	357	29	10	17	42	1.83
43561417--43561668	13	19.5	13	73	9	86	48	7	7	37	1.58
43561407--43561473	35	1.9	35	90	0	107	49	7	2	40	1.46
43561492--43561654	27	6.1	26	78	11	161	49	7	6	36	1.59
43561490--43561659	13	12.8	13	81	4	171	50	7	7	35	1.58
43561499--43561659	40	4.0	40	86	4	218	50	8	6	34	1.58
43561492--43561654	54	3.0	53	85	2	218	49	7	6	36	1.59
43568333--43568373	19	2.1	19	90	4	64	21	0	34	43	1.53
43568396--43568480	35	2.4	35	82	3	100	22	7	29	41	1.80
43569393--43569509	2	59.5	2	94	3	211	51	0	0	48	1.00
43572876--43572913	20	2.1	19	85	14	53	36	10	0	52	1.36
43576611--43576648	16	2.4	16	86	4	51	31	0	0	68	0.90
43578420--43578529	34	3.2	34	85	2	123	28	14	16	40	1.87
43578433--43578532	34	2.9	34	87	0	128	26	15	17	42	1.88
43578662--43578746	43	2.0	43	83	0	107	21	20	21	37	1.94
43583363--43583387	4	6.2	4	100	0	50	76	0	0	24	0.80
43587629--43587654	6	4.3	6	100	0	52	84	0	0	15	0.62
43588011--43588084	37	2.0	36	84	2	94	24	1	16	58	1.46
43588072--43588120	22	2.2	22	82	7	64	30	0	4	65	1.11
43598177--43598203	5	5.4	5	100	0	54	81	0	0	18	0.69
43606910--43606960	22	2.3	22	79	0	66	9	9	49	31	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43615238--43615591	180	2.0	181	91	0	575	53	9	11	26	1.66
43630151--43630263	57	2.0	57	92	0	190	29	19	21	30	1.97
43635395--43635503	57	1.9	57	82	0	137	48	11	11	28	1.74
43635534--43635881	87	3.9	89	78	10	233	44	8	11	35	1.72
43635578--43635880	87	3.4	86	80	10	292	43	8	10	36	1.71
43640822--43640858	20	2.0	19	85	15	51	37	10	0	51	1.37
43642239--43642277	17	2.3	17	86	8	53	28	0	12	58	1.34
43644732--43645025	108	2.7	108	95	0	536	49	14	13	22	1.78
43645028--43645060	17	2.0	17	88	5	50	15	3	6	75	1.11
43654542--43655085	84	6.5	82	78	11	525	21	21	23	34	1.97
43654552--43655085	44	12.7	43	83	9	590	21	21	23	33	1.97
43654551--43655085	169	3.2	168	86	7	673	21	21	23	33	1.97
43655063--43655160	23	4.0	23	78	13	97	31	17	26	24	1.97
43655410--43655908	87	5.7	87	85	2	608	26	22	22	28	1.99
43656353--43656548	108	1.8	108	82	6	254	46	9	16	27	1.77
43656514--43656616	45	2.3	44	80	11	118	53	7	12	26	1.65
43657367--43657440	9	7.7	9	78	15	60	1	6	8	83	0.85
43664090--43664224	44	3.0	44	85	1	144	29	23	13	33	1.93
43664116--43664225	44	2.5	44	90	0	166	30	24	12	31	1.93
43664231--43665092	131	6.6	131	94	2	1448	28	24	18	29	1.98
43664289--43665064	43	17.9	43	68	15	327	28	24	18	29	1.98
43665868--43665892	13	1.9	13	100	0	50	56	8	24	12	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43669706--43669845	44	3.2	45	70	11	144	21	24	25	28	1.99
43669622--43669906	88	3.2	88	88	1	412	23	23	23	28	1.99
43669653--43669876	44	5.1	43	66	8	128	25	25	25	24	2.00
43671627--43671727	42	2.4	43	84	1	123	26	18	24	29	1.98
43671646--43671727	43	1.9	42	85	2	110	26	18	25	29	1.98
43673922--43673997	23	3.4	22	74	13	66	52	5	3	38	1.43
43681844--43682150	153	2.0	154	99	0	607	38	10	24	26	1.87
43684610--43684673	27	2.3	27	79	12	69	9	29	1	59	1.38
43684854--43684903	24	2.1	23	85	10	66	76	2	8	14	1.10
43684854--43684903	23	2.1	24	85	3	66	76	2	8	14	1.10
43685349--43685383	18	1.9	18	88	0	52	82	5	2	8	0.91
43685420--43685492	27	2.7	27	95	0	137	20	35	24	19	1.95
43685567--43685603	10	3.6	10	88	3	56	70	0	29	0	0.88
43685763--43685897	42	3.2	40	76	11	128	32	3	12	51	1.57
43691163--43691743	158	3.7	155	76	11	563	30	11	7	51	1.64
43692063--43692176	20	5.3	20	73	15	102	0	28	0	71	0.87
43692085--43692233	10	15.5	10	69	18	86	0	30	0	69	0.89
43692065--43692194	44	3.0	44	98	0	251	0	29	0	70	0.87
43692062--43692241	34	5.4	32	72	21	131	0	29	0	70	0.87
43692070--43692204	24	6.1	21	76	16	123	0	31	0	68	0.89
43692065--43692243	88	2.1	87	84	8	231	0	29	0	70	0.88
43692294--43692364	27	2.6	27	88	0	97	18	28	35	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43692400--43692434	17	2.0	18	88	5	54	14	2	2	80	0.95
43697436--43697471	19	2.0	18	89	10	56	66	16	0	16	1.25
43699939--43699992	23	2.3	24	76	20	60	64	3	1	29	1.21
43707834--43707943	19	5.8	19	84	2	150	39	9	13	38	1.77
43707841--43707943	37	2.7	38	90	3	172	39	8	12	38	1.74
43707834--43707940	56	1.9	56	90	0	169	38	9	13	39	1.76
43707834--43707969	19	6.9	21	76	15	89	38	8	14	38	1.76
43714416--43714443	12	2.3	12	100	0	56	53	0	0	46	1.00
43717778--43717987	44	4.8	43	69	10	122	30	18	23	28	1.97
43717817--43718135	44	7.3	44	66	8	132	28	16	25	29	1.97
43718259--43718452	44	4.4	44	66	14	114	31	17	22	28	1.97
43718216--43718586	88	4.2	89	64	16	205	29	17	23	29	1.97
43717564--43718719	132	8.8	132	93	1	1736	29	18	23	29	1.97
43720699--43720757	23	2.8	20	73	16	55	33	3	10	52	1.52
43725475--43725545	6	11.8	6	81	0	70	25	50	0	23	1.49
43725476--43725555	12	6.7	12	85	5	99	25	50	1	23	1.57
43726102--43726141	6	6.7	6	97	0	53	7	50	25	17	1.72
43726102--43726141	12	3.3	12	92	0	62	7	50	25	17	1.72
43730391--43730446	27	2.1	27	87	6	80	62	1	1	33	1.16
43733906--43734014	46	2.4	46	92	6	177	37	8	25	28	1.85
43733906--43734030	46	2.7	45	86	7	153	37	9	24	28	1.87
43739415--43739520	37	2.7	38	81	5	115	33	25	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43740338--43740366	2	14.5	2	100	0	58	51	0	0	48	1.00
43741196--43741234	9	4.2	9	84	15	53	66	0	0	33	0.92
43745055--43745106	16	3.2	16	88	0	77	28	0	32	38	1.57
43745342--43745376	18	2.0	17	88	5	52	54	0	0	45	0.99
43749210--43749307	36	2.7	36	85	3	124	54	10	28	7	1.60
43756170--43756200	9	3.4	9	90	0	53	25	12	22	38	1.90
43756254--43756290	9	4.1	9	92	0	65	45	13	10	29	1.77
43758013--43758043	16	1.9	16	93	0	53	70	0	3	25	1.02
43758547--43758590	9	4.6	10	77	11	56	63	0	4	31	1.14
43758547--43758590	19	2.3	19	84	7	63	63	0	4	31	1.14
43764721--43764751	15	2.1	15	100	0	62	61	12	6	19	1.53
43771812--43771864	27	2.0	27	88	0	79	37	18	11	32	1.87
43776324--43777016	345	2.0	345	99	0	1370	45	7	10	36	1.68
43783365--43783515	75	2.0	76	98	1	295	41	5	9	43	1.59
43785254--43786539	228	5.6	228	84	1	929	30	21	26	22	1.99
43785737--43786551	228	3.6	228	87	0	1045	29	18	29	22	1.97
43785326--43786614	456	2.8	454	79	2	1305	29	21	26	22	1.99
43790000--43790189	98	1.9	99	97	2	364	27	13	14	44	1.83
43790318--43790352	9	3.8	9	85	7	52	65	0	2	31	1.07
43790302--43790349	17	2.7	17	87	6	60	68	0	2	29	1.01
43792802--43794100	228	5.7	227	83	1	1231	30	22	24	23	1.99
43792802--43794100	456	2.8	455	83	1	1487	30	22	24	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43800620--43800654	9	3.8	9	85	7	52	65	0	2	31	1.07
43800604--43800651	17	2.7	17	87	6	60	68	0	2	29	1.01
43802715--43802911	98	2.0	99	98	1	387	25	11	11	51	1.71
43803201--43804782	228	6.9	227	89	2	1595	30	22	25	21	1.99
43805589--43805633	22	2.0	22	83	12	56	44	2	2	51	1.26
43806896--43806943	24	2.0	24	87	0	69	31	4	12	52	1.58
43815514--43815746	117	2.0	116	98	0	448	38	3	31	27	1.72
43817408--43817441	10	3.4	10	91	0	50	0	8	61	29	1.26
43818189--43818260	29	2.4	29	77	8	83	59	1	1	37	1.15
43818644--43818708	32	2.0	32	96	0	121	26	3	35	35	1.72

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