genome.fa.s13.2.7.7.80.10.50.1000.34.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  34  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)
12240752--12240887	42	3.2	41	74	9	130	19	22	16	40	1.91
12246555--12246588	17	2.0	17	100	0	68	52	5	0	41	1.25
12246708--12246734	13	2.1	13	100	0	54	29	14	7	48	1.71
12246978--12247019	11	3.5	12	80	9	50	45	0	2	52	1.13
12247623--12247653	3	10.3	3	100	0	62	32	0	0	67	0.91
12262580--12262650	31	2.3	31	92	0	115	21	18	30	29	1.97
12262593--12262658	31	2.1	31	94	0	114	24	16	30	28	1.97
12262593--12262668	31	2.5	31	86	4	82	23	15	31	28	1.96
12264766--12264830	33	2.0	33	82	11	80	43	1	4	50	1.32
12271638--12271711	36	2.1	36	100	0	148	44	16	5	33	1.70
12273104--12273146	22	2.0	22	81	9	52	58	11	11	18	1.63
12286703--12286756	21	2.5	22	79	8	58	59	3	0	37	1.15
12286918--12286958	21	2.0	21	81	18	50	65	7	2	24	1.30
12286947--12287001	3	18.3	3	83	7	67	67	1	3	27	1.17
12288589--12288798	44	4.8	45	74	12	179	26	23	19	30	1.98
12288515--12288924	129	3.3	124	81	8	479	26	23	20	29	1.99
12300314--12300349	19	1.9	18	88	5	54	55	27	0	16	1.42
12301681--12301722	21	2.0	21	82	17	52	64	7	2	26	1.32
12301711--12301765	3	18.3	3	83	7	67	67	1	3	27	1.17
12304181--12304263	11	7.7	11	72	14	57	33	2	0	63	1.07
12304181--12304251	10	6.8	10	71	19	56	35	2	0	61	1.10
12304199--12304232	17	2.0	17	94	0	59	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12304180--12304268	40	2.1	44	91	8	150	37	2	0	60	1.09
12310206--12310232	7	3.9	7	100	0	54	88	0	0	11	0.50
12316045--12316225	40	4.4	40	66	10	105	35	4	3	56	1.37
12316045--12316295	124	2.0	125	99	0	495	36	4	3	54	1.40
12316286--12316319	16	2.1	17	88	5	52	61	0	0	38	0.96
12327154--12327188	16	2.2	16	90	5	54	28	2	0	68	1.04
12330725--12330764	3	13.3	3	100	0	80	0	32	0	67	0.91
12340046--12340131	45	1.9	45	87	0	127	43	11	20	24	1.85
12343013--12343146	23	6.0	23	87	7	179	38	21	19	20	1.94
12344528--12344574	23	2.0	23	87	0	67	44	6	4	44	1.49
12345165--12345360	41	4.8	41	89	2	288	21	21	27	29	1.99
12345809--12345852	20	2.2	21	84	8	56	15	0	43	40	1.47
12345802--12345851	7	7.3	7	78	13	50	14	0	44	42	1.44
12345905--12345972	7	9.7	7	78	0	55	11	1	48	38	1.49
12345905--12345969	21	3.1	21	77	2	69	12	1	49	36	1.50
12352719--12352900	43	4.3	43	93	0	303	21	19	32	26	1.97
12352719--12352922	86	2.4	86	88	1	275	23	19	30	25	1.98
12353185--12353271	45	2.0	44	80	15	99	60	5	12	20	1.52
12354969--12355011	21	2.0	21	86	0	59	41	27	25	4	1.75
12359617--12359752	59	2.3	60	82	7	154	41	10	16	31	1.82
12370366--12371223	433	2.0	433	89	1	1308	34	20	12	32	1.90
12375597--12375651	21	2.6	21	82	8	58	25	1	18	54	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12375754--12375859	22	4.8	22	77	10	76	19	3	38	37	1.70
12375726--12376073	7	48.7	7	71	12	136	19	2	34	42	1.66
12375809--12375846	15	2.5	15	91	0	58	26	0	31	42	1.56
12375855--12375900	22	2.1	22	92	8	76	13	6	43	36	1.69
12375955--12376009	20	2.6	22	83	11	71	18	0	34	47	1.49
12376002--12376074	22	3.3	22	73	17	53	20	4	35	39	1.72
12376248--12376722	115	4.1	115	86	1	691	25	13	21	38	1.91
12376243--12376731	230	2.1	230	92	1	809	25	13	22	38	1.91
12376835--12376956	23	5.3	23	73	14	108	19	36	2	41	1.65
12376835--12376958	46	2.7	45	81	5	140	20	35	2	41	1.66
12377042--12377066	13	1.9	13	100	0	50	20	32	16	32	1.94
12377096--12377129	12	2.8	12	95	4	59	5	8	26	58	1.51
12379128--12379192	34	1.9	34	83	0	85	35	4	0	60	1.18
12379154--12379221	27	2.5	26	83	11	82	39	2	0	57	1.14
12379316--12379478	9	18.7	9	70	16	94	46	20	1	30	1.61
12379359--12379471	56	1.9	56	84	8	145	46	20	0	32	1.57
12379421--12379528	43	2.7	39	77	13	119	44	13	2	38	1.59
12384998--12385044	21	2.2	21	92	0	76	38	17	42	2	1.61
12385375--12385567	43	4.5	43	84	1	237	27	20	21	30	1.98
12386966--12387013	23	2.1	23	100	0	96	41	4	12	41	1.62
12387187--12387212	2	13.0	2	100	0	52	50	0	0	50	1.00
12393801--12393831	1	31.0	1	100	0	62	0	0	0	100	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12397210--12397262	22	2.4	22	79	20	58	54	0	3	41	1.18
12397236--12397293	29	2.0	30	82	3	73	46	0	6	46	1.29
12402964--12403003	20	2.0	20	85	0	53	27	2	2	67	1.16
12412793--12412865	38	1.9	38	94	5	130	28	12	20	38	1.89
12415369--12415422	2	26.5	2	92	3	90	48	1	1	48	1.23
12419481--12419511	2	15.5	2	100	0	62	51	0	48	0	1.00
12425402--12425440	12	3.0	13	88	11	62	76	7	0	15	0.99
12433936--12433993	20	2.8	20	84	2	80	39	6	0	53	1.28
12433923--12434087	52	3.2	51	74	17	153	35	9	4	51	1.53
12455722--12455837	63	1.9	60	80	8	135	34	10	8	46	1.69
12459559--12459612	23	2.4	23	96	3	101	48	7	25	18	1.74
12460372--12461074	142	5.0	142	90	2	1044	28	21	17	32	1.96
12467660--12467693	17	2.0	17	88	11	52	50	0	0	50	1.00
12477433--12478079	69	9.4	69	79	0	592	37	19	23	19	1.94
12477433--12478079	207	3.1	206	78	4	669	37	19	23	19	1.94
12492160--12492409	135	1.8	136	88	5	382	35	12	14	36	1.85
12496747--12496877	67	2.0	67	93	3	228	35	12	16	35	1.87
12497375--12497425	6	8.5	6	91	0	84	0	64	0	35	0.94
12499886--12499962	14	5.0	15	71	20	52	42	14	9	33	1.77
12499902--12499941	20	2.0	20	90	0	62	50	12	10	27	1.72
12499890--12499956	34	1.9	35	90	3	109	46	13	8	31	1.74
12504709--12504754	18	2.6	18	78	0	56	23	15	19	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12508679--12508844	51	3.3	51	95	1	289	28	23	13	33	1.93
12510431--12510523	23	4.0	23	84	5	125	31	27	19	21	1.97
12510435--12510523	46	1.9	46	90	0	142	31	28	20	20	1.97
12517211--12517266	2	28.5	2	90	3	87	1	44	0	53	1.11
12519685--12519779	6	16.3	6	80	6	88	29	9	1	60	1.35
12519675--12519784	18	6.3	18	80	9	102	30	8	0	60	1.31
12519673--12519779	24	4.6	24	80	11	123	28	8	0	61	1.31
12519690--12519796	24	4.6	24	80	11	105	28	8	0	62	1.24
12519691--12519796	12	8.8	12	74	8	90	29	7	0	63	1.22
12519894--12519950	21	2.7	21	86	5	71	15	1	7	75	1.10
12521911--12521935	3	8.3	3	100	0	50	64	0	0	36	0.94
12527084--12527120	3	12.3	3	100	0	74	64	0	0	35	0.94
12540282--12540342	29	2.1	29	90	6	97	42	16	3	37	1.64
12542727--12542755	2	14.5	2	100	0	58	48	0	0	51	1.00
12546190--12546224	4	8.8	4	93	0	61	2	0	22	74	0.95
12546651--12546707	26	2.2	26	87	9	82	68	0	0	31	0.90
12547826--12547864	17	2.3	17	83	12	53	61	2	0	35	1.10
12551833--12551872	18	2.2	18	100	0	80	17	5	25	52	1.64
12558195--12558260	22	3.0	22	70	0	60	60	3	12	24	1.46
12559797--12559832	17	2.1	18	90	10	58	50	0	8	41	1.33
12559837--12559929	45	2.1	45	89	0	141	39	8	19	32	1.82
12562454--12562517	21	3.0	21	88	0	92	17	23	15	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12566565--12566714	77	1.9	77	90	2	239	39	10	20	30	1.85
12567924--12567976	27	1.9	28	92	3	90	20	20	28	30	1.98
12567956--12568152	33	5.4	33	71	19	142	20	17	27	34	1.95
12567989--12568125	42	3.5	41	76	17	164	21	18	28	32	1.96
12567952--12568152	75	2.7	75	92	0	330	21	16	28	33	1.95
12572684--12573101	138	3.0	138	97	1	773	36	15	16	30	1.91
12583208--12583268	29	2.1	29	82	14	72	55	9	8	26	1.60
12587592--12587671	3	25.7	3	79	5	79	27	2	5	65	1.27
12593870--12593899	12	2.6	11	90	10	51	90	10	0	0	0.47
12594752--12594790	10	3.9	10	93	0	60	74	0	15	10	1.07

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