genome.fa.s9.2.7.7.80.10.50.1000.19.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: Chr2
Parameters: 2 7 7 80 10 50 1000
Length:  43198478

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   

This is table  19  of  131  ( 15627 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)
6392155--6392275	45	2.7	45	82	5	147	23	25	20	30	1.98
6392300--6392542	44	5.6	43	73	8	204	29	22	19	28	1.98
6393456--6393504	25	1.9	26	91	4	82	59	10	16	14	1.61
6406688--6406738	21	2.4	21	100	0	102	7	19	25	47	1.76
6409003--6409041	17	2.3	17	90	0	60	35	7	7	48	1.61
6409856--6409893	15	2.4	16	95	4	69	18	5	10	65	1.41
6413529--6413786	90	2.9	89	84	2	300	32	13	26	27	1.94
6417525--6417603	40	2.0	39	83	11	99	36	6	1	55	1.33
6418045--6418188	73	2.0	73	90	2	227	29	19	16	34	1.94
6420991--6421018	5	5.6	5	100	0	56	0	17	0	82	0.68
6424801--6424971	26	7.2	26	73	18	183	30	11	25	32	1.91
6424793--6424971	47	3.8	47	100	0	358	31	11	25	31	1.91
6424793--6424956	21	7.1	21	73	18	139	32	10	25	31	1.90
6427393--6427433	2	20.5	2	100	0	82	48	0	0	51	1.00
6428430--6428496	11	6.4	11	75	18	54	35	2	0	61	1.12
6428412--6428510	40	2.5	41	88	6	159	36	2	0	61	1.07
6428479--6428518	21	1.9	21	89	0	62	37	2	0	60	1.11
6428478--6428532	21	2.5	20	80	13	56	38	1	3	56	1.28
6428581--6428605	13	1.9	13	100	0	50	32	20	16	32	1.94
6431771--6431832	12	5.2	12	82	0	61	14	38	20	25	1.91
6431778--6431832	18	3.1	18	83	0	65	14	38	21	25	1.92
6431789--6431832	6	7.3	6	86	0	61	15	34	22	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6434279--6434350	36	2.0	36	100	0	144	52	5	11	30	1.59
6437722--6437852	67	2.0	67	95	0	235	29	34	16	19	1.94
6440900--6440957	22	2.6	22	97	0	107	43	17	22	17	1.88
6441172--6441234	26	2.3	28	82	17	80	42	1	1	53	1.19
6442518--6442577	6	10.2	6	87	1	59	15	41	20	23	1.89
6442526--6442577	18	2.9	18	85	0	68	17	38	21	23	1.93
6446103--6446183	40	2.0	40	81	6	94	39	0	3	56	1.17
6446999--6447054	6	9.3	6	88	0	58	16	41	19	23	1.90
6455620--6455657	18	2.2	18	90	4	60	55	2	2	39	1.28
6457545--6457603	20	2.9	20	85	14	77	50	1	0	47	1.11
6457749--6457790	19	2.3	18	84	12	50	59	4	0	35	1.19
6458267--6458292	7	3.7	7	100	0	52	46	0	11	42	1.40
6458411--6458468	24	2.5	24	81	13	75	62	5	0	32	1.18
6459163--6459222	20	3.0	20	85	14	79	50	1	0	48	1.11
6459367--6459408	19	2.3	18	84	12	50	59	4	0	35	1.19
6468011--6468044	17	1.9	18	88	5	52	47	2	0	50	1.16
6482017--6482062	23	2.0	23	82	0	56	58	6	8	26	1.52
6484697--6485030	160	2.1	160	93	1	580	27	25	23	23	2.00
6485908--6486112	76	2.7	76	83	1	250	35	20	15	28	1.93
6495329--6495367	16	2.5	15	88	12	53	71	2	2	23	1.10
6495497--6495554	15	3.6	15	78	19	55	37	0	5	56	1.21
6496192--6496238	20	2.3	21	82	10	62	36	2	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6505562--6505620	23	2.6	23	82	10	68	40	16	5	37	1.71
6506275--6506379	31	3.4	31	72	7	115	41	3	3	50	1.38
6506268--6506382	61	1.9	61	94	0	203	43	3	3	49	1.36
6507689--6507758	19	3.7	18	75	11	68	37	0	5	57	1.23
6511076--6511107	15	2.2	15	94	5	57	31	3	0	65	1.08
6516105--6516158	26	2.1	26	100	0	108	31	12	11	44	1.78
6516390--6516440	24	2.1	24	88	0	75	31	21	33	13	1.92
6526646--6526682	16	2.3	16	100	0	74	40	0	5	54	1.24
6533657--6533699	20	2.2	20	88	8	63	72	9	18	0	1.11
6535008--6535059	19	2.7	19	72	19	54	71	3	0	25	1.03
6540891--6540929	19	2.0	19	85	5	51	38	5	33	23	1.77
6552158--6552353	51	3.9	50	76	4	187	31	27	16	24	1.97
6552165--6552349	101	1.8	101	88	3	282	31	27	16	24	1.96
6552569--6552603	17	2.1	17	88	0	52	40	14	5	40	1.69
6556806--6556840	18	1.9	18	94	0	61	40	28	5	25	1.78
6561300--6561343	20	2.3	18	84	7	52	45	20	4	29	1.71
6569818--6570180	184	2.0	179	88	5	543	42	21	10	25	1.85
6573780--6573817	14	3.0	13	85	14	53	42	2	0	55	1.14
6578323--6578353	16	1.9	16	93	0	53	48	9	0	41	1.36
6581567--6581613	22	2.1	23	88	7	71	53	4	4	38	1.40
6584591--6584866	131	2.1	132	97	2	527	36	10	9	43	1.71
6586531--6586585	22	2.5	22	82	5	67	10	5	16	67	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6593552--6593679	48	2.7	48	84	4	154	27	21	21	29	1.98
6593548--6593677	46	2.8	46	84	4	154	26	20	23	30	1.99
6611644--6611685	11	3.9	11	79	14	52	54	7	2	35	1.41
6618072--6618109	19	2.1	19	90	5	60	34	0	7	57	1.28
6618742--6618774	11	3.1	11	82	8	50	24	0	3	72	0.98
6631866--6631919	22	2.3	24	78	15	60	35	3	7	53	1.47
6637442--6637491	22	2.2	22	82	3	55	74	4	6	16	1.17
6637600--6637630	15	2.1	15	93	0	53	64	0	6	29	1.18
6639473--6639563	44	2.1	44	85	0	119	26	23	21	28	1.99
6639496--6640081	143	4.1	143	88	0	852	26	23	20	29	1.99
6644685--6644711	3	9.0	3	100	0	54	33	0	0	66	0.92
6651598--6651968	133	2.8	132	84	6	473	32	13	21	32	1.92
6652321--6652375	21	2.7	20	80	5	65	21	3	38	36	1.71
6653282--6653321	7	5.4	7	85	8	53	15	0	35	50	1.44
6664534--6665022	114	4.3	113	82	3	534	32	18	23	25	1.97
6664950--6665095	74	2.0	74	84	6	190	30	19	23	27	1.98
6664801--6665209	188	2.2	188	90	1	642	32	17	23	26	1.97
6664996--6665339	113	3.0	112	77	5	386	32	18	22	26	1.97
6678606--6678659	21	2.6	21	87	0	72	42	16	37	3	1.66
6679106--6679197	43	2.2	43	88	2	132	26	19	28	26	1.99
6679162--6679345	85	2.2	85	89	2	271	27	24	19	28	1.99
6679162--6679345	43	4.3	43	86	3	257	27	24	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6679555--6679618	31	2.1	31	80	11	71	51	18	6	23	1.69
6679841--6679871	15	2.1	15	100	0	62	35	0	38	25	1.56
6681487--6681512	6	4.3	6	100	0	52	15	53	15	15	1.73
6698719--6698900	91	2.0	91	86	4	251	22	17	11	48	1.78
6711060--6711094	18	1.9	18	100	0	70	22	11	0	65	1.24
6713064--6713104	21	1.9	22	85	5	57	41	12	12	34	1.80
6714014--6714093	42	1.9	42	82	5	99	20	27	27	25	1.99
6720158--6720197	18	2.2	19	86	4	55	55	15	2	27	1.53
6720441--6720516	38	2.0	38	100	0	152	42	26	15	15	1.87
6721198--6721282	22	3.6	21	70	23	62	41	40	3	15	1.64
6721616--6721649	15	2.2	16	89	5	52	5	5	5	82	0.95
6722499--6722525	14	1.9	14	100	0	54	18	0	14	66	1.25
6725509--6725544	2	18.0	2	100	0	72	50	50	0	0	1.00
6726387--6726432	12	3.7	12	83	16	58	76	0	23	0	0.79
6726387--6726432	19	2.4	20	80	20	62	76	0	23	0	0.79
6730180--6730357	97	1.8	97	90	3	284	21	33	19	25	1.97
6730180--6730374	100	2.0	97	86	7	268	21	33	19	25	1.97
6730180--6730374	50	3.9	49	80	12	204	21	33	19	25	1.97
6733096--6733147	21	2.5	21	79	14	63	59	5	0	34	1.21
6735776--6735809	6	5.7	6	100	0	68	50	0	0	50	1.00
6737275--6737435	42	3.9	41	88	2	232	22	22	21	33	1.97
6737279--6737435	84	1.9	84	91	0	260	22	21	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6737538--6737582	22	2.0	22	95	0	81	62	4	2	31	1.27
6737774--6737841	21	3.2	21	85	0	91	4	44	19	32	1.70
6745174--6745212	21	1.9	20	89	5	60	64	5	7	23	1.40
6745566--6745590	10	2.5	10	100	0	50	44	20	8	28	1.79
6745537--6745635	45	2.2	44	85	10	130	42	18	7	32	1.77
6745536--6745615	19	4.9	18	68	28	63	43	18	6	31	1.75
6750462--6750615	82	1.8	82	90	5	245	24	22	22	31	1.99
6750462--6750616	42	3.6	42	80	10	190	23	21	22	31	1.98
6750689--6751170	87	5.5	87	88	2	646	25	23	22	28	1.99
6750689--6751169	261	1.8	261	87	1	714	25	23	22	28	1.99

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