genome.fa.s17.2.7.7.80.10.50.1000.168.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   176   
          177   178   179   180   181   182   183   184   185   

This is table  168  of  185  ( 22116 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)
51311152--51311193	21	2.0	21	81	9	50	9	23	0	66	1.21
51312286--51312329	24	1.9	24	90	9	74	36	0	2	61	1.09
51312426--51312453	9	3.1	9	100	0	56	57	10	0	32	1.33
51312396--51312537	68	2.1	66	94	2	248	45	9	4	40	1.58
51312526--51312567	16	2.6	16	92	0	66	42	7	2	47	1.43
51312396--51312559	68	2.5	66	86	10	216	45	9	4	40	1.55
51315190--51315341	13	11.2	13	71	15	67	36	4	5	53	1.44
51315256--51315332	13	5.8	13	79	11	75	38	2	2	55	1.27
51315233--51315341	40	2.7	40	80	9	123	37	3	3	55	1.35
51317954--51317978	10	2.5	10	100	0	50	12	12	8	68	1.40
51317992--51318050	30	2.0	30	96	0	109	37	8	22	32	1.84
51323660--51323703	5	9.2	5	81	18	58	40	0	0	59	0.98
51323661--51323703	19	2.3	19	92	8	70	41	0	0	58	0.98
51324144--51324210	34	1.9	35	90	3	109	32	8	13	44	1.75
51325111--51325210	41	2.6	37	73	6	92	22	20	30	28	1.98
51328081--51328147	32	2.1	32	94	0	116	25	26	7	40	1.82
51334337--51334369	7	4.6	7	92	7	57	66	3	0	30	1.06
51339806--51339864	30	2.0	30	90	6	93	15	42	28	13	1.85
51346383--51346416	15	2.3	15	90	5	52	70	0	0	29	0.87
51358004--51358466	27	17.1	27	76	5	362	20	16	21	41	1.90
51358004--51358466	81	5.7	81	77	7	420	20	16	21	41	1.90
51371628--51371653	2	13.0	2	100	0	52	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51378855--51379345	27	18.2	27	85	1	572	20	17	20	41	1.91
51396601--51396824	41	5.5	41	92	3	357	29	19	26	25	1.99
51397774--51398172	196	2.0	196	97	0	746	39	5	14	41	1.67
51401743--51401768	13	2.0	13	100	0	52	53	7	7	30	1.57
51403456--51403480	2	12.5	2	100	0	50	52	0	48	0	1.00
51403967--51403999	16	2.0	17	88	5	50	9	12	12	66	1.44
51405059--51405093	16	2.2	16	89	0	52	62	0	8	28	1.24
51407051--51407586	50	10.8	50	72	2	382	22	21	23	33	1.98
51406938--51407644	100	7.1	100	86	2	904	23	21	23	31	1.98
51406937--51407644	299	2.4	297	85	2	983	23	21	23	32	1.98
51408894--51408937	7	6.0	7	87	10	54	13	13	0	72	1.12
51408903--51408947	8	5.6	8	89	10	74	11	11	0	77	0.99
51409747--51409786	6	6.3	6	88	11	62	0	20	0	80	0.72
51409748--51409784	7	5.6	7	90	3	51	0	16	0	83	0.64
51409747--51409784	14	2.9	13	92	7	60	0	18	0	81	0.69
51409747--51409786	13	3.2	12	89	10	62	0	20	0	80	0.72
51413893--51413954	9	6.7	9	77	14	54	58	0	1	40	1.08
51413895--51413951	30	1.9	29	89	3	87	57	0	1	40	1.09
51413930--51414004	27	2.7	27	77	6	71	54	4	6	34	1.45
51413985--51414019	16	2.2	16	89	0	52	62	0	8	28	1.24
51425806--51425839	17	1.9	18	94	5	61	14	44	29	11	1.81
51428665--51428728	25	2.5	25	82	5	65	26	26	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51440480--51440513	18	1.9	17	88	5	50	26	5	2	64	1.30
51442424--51442496	34	2.1	35	97	2	139	10	23	15	50	1.75
51446360--51446403	23	1.9	23	90	0	70	29	13	9	47	1.74
51450136--51450166	16	2.0	15	93	6	53	80	0	0	19	0.71
51450136--51450184	21	2.3	22	85	3	64	73	6	0	20	1.04
51464982--51465403	88	4.8	88	79	2	389	34	17	19	28	1.95
51464982--51465403	44	9.5	44	76	6	316	34	17	19	28	1.95
51466952--51466976	12	2.1	12	100	0	50	24	0	0	76	0.80
51467163--51467220	28	2.1	28	96	0	107	20	15	6	56	1.62
51469560--51469593	16	2.1	17	88	5	52	26	0	0	73	0.83
51472531--51472645	46	2.5	47	75	12	114	23	21	20	33	1.97
51472759--51472802	23	1.9	23	90	9	72	27	11	13	47	1.77
51476885--51476951	34	1.9	34	88	8	100	32	7	11	47	1.68
51481355--51481486	60	2.2	59	87	1	183	41	9	25	22	1.85
51488366--51488412	17	2.8	17	79	20	62	36	2	6	55	1.37
51488902--51489028	61	2.1	61	88	4	186	29	14	9	46	1.76
51489369--51489410	16	2.6	16	92	0	66	42	7	2	47	1.43
51489384--51489445	23	2.7	23	82	2	72	48	1	1	48	1.21
51490196--51490252	11	5.3	11	77	12	64	47	0	1	50	1.11
51490205--51490252	21	2.3	21	82	3	62	50	0	2	47	1.12
51490230--51490342	42	2.8	40	86	6	163	61	0	3	35	1.14
51496616--51496648	15	2.3	15	89	5	50	39	3	0	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51502700--51502733	14	2.4	14	90	0	50	29	0	8	61	1.26
51509646--51509686	20	2.0	21	85	4	57	63	4	2	29	1.28
51524443--51524493	25	2.0	26	84	3	68	41	1	0	56	1.10
51524508--51524551	22	2.0	23	86	4	63	40	2	2	54	1.25
51525422--51525472	25	2.0	25	81	7	59	39	29	11	19	1.87
51528172--51528217	22	2.1	22	100	0	92	56	17	0	26	1.41
51528402--51528436	18	1.9	18	88	0	52	31	14	25	28	1.95
51530531--51530557	3	9.0	3	100	0	54	33	33	0	33	1.58
51533810--51533884	34	2.2	34	97	0	141	52	4	24	20	1.63
51534859--51534921	30	2.1	31	85	8	87	53	1	0	44	1.10
51534920--51534964	23	2.0	24	86	8	67	42	6	0	51	1.28
51535484--51535542	29	2.0	29	80	9	66	52	15	5	27	1.63
51544420--51544450	11	2.7	11	95	5	53	29	0	3	67	1.06
51547240--51547295	16	3.4	16	76	13	69	41	8	0	50	1.34
51547252--51547305	17	3.2	17	75	15	67	38	11	0	50	1.38
51547237--51547304	33	2.1	33	100	0	136	38	8	0	52	1.33
51550528--51550584	30	1.9	30	82	13	73	47	3	0	49	1.18
51550762--51550811	26	1.9	26	88	8	75	38	22	2	38	1.65
51553958--51554020	27	2.2	29	80	16	85	46	11	22	20	1.82
51553968--51554022	27	2.0	27	96	0	101	40	12	25	21	1.89
51555043--51555246	106	1.9	106	92	0	345	31	17	19	31	1.94
51555648--51555683	18	1.9	19	88	5	56	66	2	5	25	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51563793--51563845	16	3.3	16	91	0	88	37	3	33	24	1.74
51564034--51564079	18	2.6	17	93	6	74	56	0	2	41	1.11
51564049--51564232	41	4.6	41	65	22	95	52	4	2	40	1.33
51564068--51564250	59	3.0	61	70	12	189	51	4	2	42	1.34
51571245--51571281	17	2.2	17	86	13	51	67	0	0	32	0.91
51571245--51571275	15	2.0	16	93	6	55	64	0	0	35	0.94
51571364--51571413	23	2.1	24	85	10	68	46	2	2	50	1.24
51586115--51586338	68	3.0	69	79	17	261	35	7	11	46	1.67
51586174--51586373	82	2.4	83	90	3	307	34	6	9	50	1.60
51586183--51586373	83	2.3	82	91	2	303	35	6	9	48	1.62
51593676--51593732	28	2.0	28	100	0	114	22	17	10	49	1.77
51594919--51594971	21	2.3	24	81	18	69	35	0	3	60	1.15
51594919--51594970	20	2.4	22	84	12	63	34	0	3	61	1.14
51595510--51595557	24	2.0	24	87	0	69	37	6	4	52	1.46
51596810--51596840	3	10.0	3	93	6	53	67	0	0	32	0.91
51597241--51597280	20	2.0	20	90	0	62	30	10	10	50	1.69
51597226--51597292	34	1.9	35	90	3	109	34	8	10	46	1.70
51606522--51606601	19	4.2	19	73	12	56	28	5	1	65	1.22
51606517--51606609	46	2.0	47	81	10	111	30	5	1	63	1.23
51606540--51606639	29	3.6	28	78	15	84	30	5	0	65	1.14
51607293--51607332	16	2.5	16	91	0	62	35	32	5	27	1.79
51608028--51608076	9	5.2	9	85	9	71	18	12	30	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51608024--51608076	20	2.8	19	88	8	81	18	11	28	41	1.85
51608133--51608157	12	2.1	12	100	0	50	16	24	36	24	1.94
51608210--51608546	84	4.0	84	83	6	394	33	10	14	41	1.80
51609227--51609295	28	2.4	30	83	7	90	31	2	0	65	1.08
51609799--51609858	21	2.8	22	81	18	65	45	0	0	55	0.99
51609799--51609866	24	3.0	23	77	14	63	42	0	0	57	0.98
51612076--51612127	27	1.9	27	84	0	68	51	11	9	26	1.68
51619867--51619904	17	2.2	18	90	4	60	26	5	5	63	1.37
51619937--51620001	28	2.7	23	75	17	60	36	10	3	49	1.53
51620182--51620245	27	2.4	25	78	14	67	35	9	3	51	1.50

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   176   
          177   178   179   180   181   182   183   184   185