genome.fa.s16.2.7.7.80.10.50.1000.165.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   

This is table  165  of  175  ( 20966 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)
49669662--49669701	21	2.0	20	90	5	62	57	15	0	27	1.38
49669578--49670232	232	2.8	230	86	3	849	45	17	6	30	1.75
49674412--49674467	16	3.4	16	73	11	51	60	0	1	37	1.07
49675017--49675137	51	2.4	51	84	2	154	42	5	16	34	1.72
49675017--49675153	51	2.7	51	84	4	143	40	6	17	35	1.76
49676170--49676220	23	2.4	22	83	9	70	70	5	1	21	1.18
49678953--49678995	21	2.0	23	86	9	63	23	2	6	67	1.27
49682408--49682455	20	2.4	20	82	0	60	62	18	12	6	1.50
49688878--49688990	60	1.9	60	81	3	138	46	15	15	22	1.83
49688942--49689020	31	2.5	31	83	0	95	45	15	15	24	1.84
49689168--49689235	33	2.2	31	80	12	77	54	4	4	36	1.41
49692797--49692857	31	2.0	31	83	0	77	39	8	4	47	1.55
49695839--49696241	175	2.3	175	91	1	639	24	19	23	32	1.97
49699753--49699811	28	2.1	28	100	0	118	38	3	3	54	1.34
49702179--49702270	45	2.0	45	95	0	166	38	18	19	23	1.93
49703022--49703061	14	2.9	14	80	0	53	52	2	0	45	1.14
49713356--49713393	19	2.0	19	100	0	76	52	0	31	15	1.43
49713357--49713399	19	2.2	19	91	4	68	58	0	25	16	1.38
49713926--49713950	13	1.9	13	100	0	50	24	16	36	24	1.94
49716069--49716098	15	1.9	16	93	6	53	50	3	13	33	1.58
49735329--49735388	24	2.4	25	78	15	72	21	6	6	65	1.40
49735333--49735386	23	2.2	25	84	12	69	22	7	7	62	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49749223--49749323	52	2.0	51	82	5	123	37	13	5	42	1.69
49762759--49762847	39	2.2	40	86	5	119	38	2	6	52	1.40
49763919--49763954	17	2.2	17	90	5	56	38	2	0	58	1.13
49766712--49766783	27	2.6	29	75	14	71	38	2	2	55	1.29
49768036--49768060	13	1.9	13	100	0	50	16	0	0	84	0.63
49769010--49769067	2	29.0	2	92	0	98	46	0	53	0	1.00
49770346--49770383	18	2.2	18	85	4	51	44	2	2	50	1.30
49770871--49770905	18	2.0	18	88	5	54	31	0	11	57	1.34
49774915--49774980	34	1.9	34	90	0	105	45	16	6	31	1.72
49780757--49780831	3	25.3	3	76	8	73	61	4	2	32	1.28
49780844--49780934	29	3.1	28	78	9	94	63	6	14	15	1.49
49780901--49781009	50	2.2	51	83	6	143	58	9	15	16	1.61
49782038--49782067	15	1.9	16	93	6	53	6	0	46	46	1.29
49784665--49784728	3	21.3	3	100	0	128	0	67	0	32	0.91
49785870--49785934	32	2.0	32	100	0	130	26	30	3	40	1.71
49802235--49802396	43	3.8	42	74	14	145	24	16	25	33	1.96
49811574--49812156	44	13.1	44	79	6	539	32	17	20	28	1.95
49811574--49812156	132	4.4	133	80	6	613	32	17	20	28	1.95
49812362--49812418	28	2.1	27	80	9	62	66	21	1	10	1.31
49813506--49813718	69	3.3	63	78	15	197	28	9	2	60	1.40
49813575--49813709	61	2.2	60	82	5	155	27	9	3	59	1.46
49826150--49826209	30	2.0	30	100	0	120	43	10	13	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49827990--49828015	3	8.7	3	100	0	52	69	0	0	30	0.89
49839183--49839212	12	2.6	11	90	10	51	53	10	0	36	1.35
49839226--49839265	21	1.9	21	84	0	53	70	7	2	20	1.24
49839192--49839260	25	2.8	24	73	6	66	65	5	2	26	1.29
49839487--49839532	14	3.2	14	80	19	51	69	0	4	26	1.07
49839519--49839558	21	1.9	21	84	0	53	70	7	2	20	1.24
49839064--49839634	293	2.0	288	81	4	682	46	12	10	29	1.76
49842393--49842427	16	2.2	16	89	0	52	8	28	5	57	1.52
49845021--49845050	5	6.0	5	96	0	51	83	0	16	0	0.65
49854287--49854379	22	4.3	22	72	8	73	16	26	17	39	1.90
49854284--49854367	43	2.0	43	82	0	105	14	25	20	40	1.90
49858641--49858682	20	2.1	20	86	0	57	47	0	7	45	1.30
49863719--49863760	20	2.1	20	86	0	57	47	2	4	45	1.36
49866440--49866470	14	2.1	15	94	5	55	22	12	3	61	1.46
49867767--49867825	31	1.9	31	85	0	82	42	11	11	33	1.78
49868865--49868889	2	12.5	2	100	0	50	52	0	48	0	1.00
49872043--49872076	13	2.6	13	90	0	50	44	0	0	55	0.99
49886727--49886912	55	3.3	55	81	3	219	51	16	6	24	1.69
49900033--49900108	33	2.3	33	86	4	100	44	11	11	31	1.77
49913480--49913551	22	3.1	22	72	20	67	36	19	26	18	1.94
49914497--49914532	5	7.2	5	93	0	63	55	2	0	41	1.14
49914496--49914568	10	7.2	10	71	20	53	47	2	1	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49920867--49920931	13	5.1	13	85	9	80	26	6	29	38	1.80
49927352--49927398	21	2.2	22	92	3	78	21	19	38	21	1.94
49932490--49932525	18	1.9	19	88	5	56	44	0	0	55	0.99
49932606--49932639	16	2.1	17	88	5	52	41	0	5	52	1.25
49937106--49937185	32	2.5	32	83	0	97	51	10	2	36	1.49
49937834--49937877	22	2.0	22	100	0	88	31	4	9	54	1.52
49939435--49939575	42	3.3	42	79	4	142	44	17	14	23	1.85
49950419--49950456	13	2.8	13	88	4	58	23	0	2	73	0.95
49950404--49950456	13	4.2	12	77	18	54	22	1	3	71	1.12
49957628--49957679	20	2.6	20	82	14	63	73	1	1	23	1.04
49958151--49958190	21	2.0	20	90	9	64	30	0	0	70	0.88
49960624--49960692	28	2.5	28	78	4	77	53	1	2	42	1.24
49960832--49960953	3	40.7	3	72	12	90	63	2	4	29	1.25
49960823--49960925	21	5.0	21	80	3	111	65	3	2	28	1.25
49960874--49960962	30	3.1	30	76	7	78	65	2	4	28	1.24
49970199--49970233	17	2.1	16	89	5	52	20	25	2	51	1.61
49971012--49971038	14	1.9	14	100	0	54	22	0	7	70	1.12
49973413--49973445	16	2.1	16	94	0	57	78	0	6	15	0.93
49980644--49980691	16	3.1	15	90	6	69	64	2	2	31	1.16
49980640--49980695	24	2.3	24	81	6	69	66	1	1	30	1.12
49980640--49980691	8	6.5	8	82	8	61	65	1	1	30	1.14
49980895--49980954	28	2.2	27	84	3	75	58	3	5	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49980836--49981056	25	9.0	25	71	14	122	56	4	5	33	1.43
49981545--49981659	30	3.8	30	92	0	194	21	3	49	25	1.65
49982394--49982432	21	1.9	21	89	5	62	61	2	2	33	1.23
49985724--49985757	13	2.6	13	86	13	52	52	0	0	47	1.00
49989928--49989964	19	1.9	19	94	0	65	59	0	0	40	0.97
50000112--50000170	20	2.9	21	80	14	70	52	6	1	38	1.38
50001102--50001144	16	2.8	16	86	6	63	41	0	58	0	0.98
50008041--50008084	4	11.0	4	100	0	88	25	0	25	50	1.50
50008091--50008120	15	2.0	15	93	0	51	10	20	3	66	1.35
50014889--50014980	41	2.2	41	86	0	121	27	20	23	28	1.99
50016936--50016997	18	3.4	18	67	8	54	12	1	29	56	1.46
50016928--50016997	36	1.9	36	97	0	131	12	1	32	52	1.48
50023536--50023611	33	2.3	32	77	8	82	63	2	6	27	1.33
50025336--50025378	22	2.0	22	100	0	86	27	34	0	37	1.57
50025354--50025456	51	2.0	50	81	5	118	31	24	0	43	1.61
50027649--50027696	21	2.3	21	77	0	51	39	33	25	2	1.67
50027880--50028070	29	6.7	29	93	1	332	46	29	0	23	1.53
50027880--50028070	86	2.2	87	94	1	332	46	29	0	23	1.53
50031247--50031600	126	2.8	126	93	2	622	32	22	16	29	1.95
50033101--50033125	13	1.9	13	100	0	50	16	0	0	84	0.63
50037273--50037306	17	2.0	17	94	0	59	73	0	23	2	0.97
50041459--50041868	108	3.8	108	91	1	628	32	20	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50044117--50044500	44	8.8	44	75	6	284	28	23	18	29	1.98
50044100--50044500	85	4.6	83	76	8	347	28	23	18	29	1.98
50044166--50044498	175	1.9	174	82	5	422	28	23	18	28	1.98
50058663--50059318	157	4.3	153	88	6	940	30	9	7	53	1.61
50058663--50059320	312	2.1	301	88	6	986	30	9	7	52	1.61
50059520--50059561	16	2.7	15	85	7	57	57	2	2	38	1.25
50059732--50059828	1	97.0	1	85	0	113	90	3	0	6	0.53
50059714--50059828	60	1.9	60	92	3	196	83	6	0	10	0.80
50059865--50059941	19	4.2	19	77	8	70	54	11	1	32	1.45
50060064--50060095	17	1.9	16	93	6	55	0	31	0	68	0.90

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175