genome.fa.s3.2.7.7.80.10.50.1000.9.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: Chr8
Parameters: 2 7 7 80 10 50 1000
Length:  70076365

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   

This is table  9  of  210  ( 25174 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)
2877785--2877824	20	2.2	19	86	13	57	35	25	5	35	1.78
2877886--2878063	89	2.0	89	89	0	275	40	14	8	37	1.76
2893663--2893700	9	4.3	9	86	3	51	55	0	2	42	1.14
2894127--2894151	13	1.9	13	100	0	50	32	8	4	56	1.47
2896206--2896270	21	3.1	21	70	0	67	16	20	18	44	1.87
2896180--2896313	42	3.2	42	83	0	169	18	20	18	41	1.90
2896180--2896342	84	1.9	84	81	4	195	17	21	19	41	1.90
2903826--2903887	21	3.0	21	70	13	56	45	3	1	50	1.27
2903952--2903995	19	2.2	19	92	8	70	68	0	0	31	0.90
2911817--2911860	22	2.0	23	86	8	65	38	2	4	54	1.33
2912867--2912896	12	2.5	12	94	0	51	20	26	13	40	1.89
2915843--2915915	1	73.0	1	87	0	92	91	1	5	1	0.51
2919685--2919797	19	5.8	19	82	4	145	34	15	11	38	1.83
2919687--2919796	40	2.8	40	90	2	161	35	13	11	39	1.82
2920064--2920113	23	2.1	24	82	10	59	46	8	2	44	1.44
2926197--2926251	25	2.2	24	81	15	67	45	12	10	30	1.77
2926478--2926528	21	2.4	22	83	3	68	58	17	9	13	1.61
2927495--2927549	25	2.2	24	81	15	67	45	12	10	30	1.77
2927776--2927826	21	2.4	22	83	3	68	58	17	9	13	1.61
2934583--2934611	15	1.9	15	100	0	58	48	13	13	24	1.79
2937005--2937092	22	3.8	22	75	16	79	22	30	1	45	1.60
2936992--2937092	38	2.8	38	86	7	140	24	29	0	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2937005--2937076	11	6.1	11	81	15	81	20	30	1	47	1.59
2937054--2937153	51	2.0	51	86	7	141	25	27	2	46	1.64
2937105--2937129	11	2.3	11	100	0	50	16	28	8	48	1.74
2937109--2937145	11	3.2	12	88	7	51	27	18	5	48	1.70
2937162--2937203	17	2.4	18	84	4	59	50	0	0	50	1.00
2938205--2939435	615	2.0	615	93	0	2081	30	19	22	27	1.98
2939853--2939878	11	2.4	11	100	0	52	38	7	0	53	1.30
2939852--2939993	40	3.4	41	79	5	160	38	2	1	57	1.19
2939903--2939968	29	2.2	30	86	5	89	36	1	0	62	1.05
2940893--2940952	21	2.9	20	73	11	59	40	23	20	16	1.91
2941668--2941694	13	2.1	13	100	0	54	29	37	0	33	1.58
2942190--2942271	16	5.2	16	69	14	55	1	24	3	70	1.10
2942752--2942787	16	2.2	16	90	0	54	0	30	0	69	0.89
2943080--2943204	48	2.6	48	94	1	214	44	2	10	43	1.51
2943327--2943398	37	1.9	37	91	0	117	45	15	2	36	1.60
2943330--2943395	17	3.7	17	71	11	60	46	15	3	34	1.61
2943526--2943603	38	2.0	39	90	7	124	20	2	25	51	1.60
2946869--2947258	124	3.1	124	89	1	618	30	19	15	34	1.93
2947554--2947639	41	2.0	43	88	6	131	23	19	37	19	1.94
2948087--2950035	973	2.0	974	99	0	3891	39	10	10	39	1.75
2951383--2951423	14	2.9	14	82	10	57	36	2	14	46	1.58
2953959--2954001	21	2.0	21	82	8	52	20	37	0	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2957403--2957485	43	1.9	43	87	0	121	28	6	13	51	1.64
2959191--2959230	19	2.0	21	85	9	57	37	0	0	62	0.95
2963934--2963989	24	2.3	26	82	11	66	23	7	3	66	1.33
2965624--2965663	20	2.0	20	100	0	80	15	25	25	35	1.94
2966627--2966661	2	17.5	2	100	0	70	51	0	0	48	1.00
2967221--2967255	16	2.2	16	94	0	61	17	25	14	42	1.86
2968671--2968703	16	2.1	16	100	0	66	24	0	18	57	1.40
2970722--2970937	43	5.0	43	99	0	423	27	4	23	43	1.73
2978354--2978388	17	2.0	18	88	5	54	65	0	0	34	0.93
2979429--2979474	24	2.0	24	82	4	58	41	21	0	36	1.54
2984157--2984289	1	133.0	1	100	0	266	100	0	0	0	0.00
2994927--2995026	50	2.0	50	90	3	157	32	18	11	39	1.85
2995142--2995214	38	1.9	38	100	0	146	17	10	13	57	1.64
3001128--3001161	6	5.7	6	96	0	59	35	0	35	29	1.58
3001324--3001543	72	3.1	72	90	0	359	20	23	26	30	1.99
3001512--3001557	24	1.9	24	95	0	83	26	32	13	28	1.93
3002529--3002592	6	10.7	6	87	0	65	4	54	17	23	1.61
3002526--3002592	18	3.7	18	84	6	73	5	55	16	22	1.63
3002521--3002592	12	6.0	12	82	6	74	5	55	16	22	1.62
3016583--3016628	22	2.1	22	87	0	65	26	2	4	67	1.21
3017371--3017395	10	2.5	10	100	0	50	40	0	0	60	0.97
3034908--3034944	16	2.4	15	86	8	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3038033--3038116	31	2.7	32	81	7	93	38	7	4	50	1.51
3040049--3040088	21	2.0	21	85	9	57	27	15	5	52	1.63
3040866--3040911	20	2.4	19	85	3	65	36	0	4	58	1.18
3040866--3040906	20	2.1	20	90	4	66	39	0	4	56	1.21
3044437--3044905	234	2.0	235	99	0	931	25	12	14	47	1.79
3051489--3051528	21	1.9	21	100	0	80	30	17	2	50	1.59
3059758--3059786	3	9.7	3	100	0	58	65	0	34	0	0.93
3060015--3060081	25	2.8	24	76	17	68	40	2	7	49	1.46
3066848--3066888	20	2.0	20	100	0	82	43	21	19	14	1.87
3068128--3068155	2	14.0	2	100	0	56	50	0	0	50	1.00
3080266--3080297	16	1.9	17	93	6	57	56	0	0	43	0.99
3080288--3080364	39	1.9	40	92	5	129	33	1	9	55	1.39
3089988--3090130	72	2.0	70	86	2	196	32	17	21	28	1.96
3090753--3090820	3	22.7	3	71	16	52	58	2	5	32	1.37
3090796--3090835	18	2.1	20	86	9	57	67	0	5	27	1.11
3091737--3091816	38	2.1	38	97	0	151	41	13	8	36	1.76
3091797--3091840	22	2.0	22	91	4	72	40	13	4	40	1.65
3092131--3092170	21	1.9	21	85	10	55	42	2	0	55	1.13
3092429--3092466	13	2.9	13	88	0	58	39	23	13	23	1.90
3094849--3094932	38	2.1	41	84	8	111	54	2	1	41	1.21
3094935--3095071	12	11.0	12	71	20	79	70	1	27	1	1.05
3094966--3095064	17	5.9	16	77	16	58	71	2	25	1	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3094954--3095065	21	5.1	20	73	19	82	70	1	26	0	1.03
3094935--3095048	25	4.6	25	77	10	85	71	1	25	1	1.06
3094985--3095065	25	3.2	24	83	13	85	72	0	25	1	0.92
3099596--3099655	29	2.1	28	81	9	68	43	3	5	48	1.41
3108086--3108156	29	2.4	30	85	4	99	42	12	9	35	1.76
3108478--3108537	31	1.9	32	82	3	77	56	8	11	23	1.61
3108748--3108775	4	7.0	4	100	0	56	75	0	0	25	0.81
3112762--3112977	107	2.0	106	98	0	414	37	5	5	51	1.47
3113636--3113698	25	2.4	26	82	10	67	39	0	14	46	1.45
3119185--3119248	25	2.6	25	89	0	101	39	20	21	18	1.93
3122001--3122051	23	2.2	23	85	0	66	33	7	17	41	1.79
3124582--3124742	80	2.0	80	98	0	313	40	6	8	45	1.59
3124660--3125208	273	2.0	273	100	0	1098	32	15	12	39	1.85
3129006--3129030	13	1.9	13	100	0	50	16	0	44	40	1.47
3133044--3133082	5	7.6	5	82	5	51	41	0	17	41	1.50
3133792--3133978	92	2.0	92	97	0	356	35	27	6	29	1.83
3157084--3157108	13	1.9	13	100	0	50	36	8	16	40	1.77
3158085--3158114	15	2.1	14	93	6	51	0	10	0	90	0.47
3165719--3165768	25	2.0	25	96	0	91	46	4	0	50	1.20
3166570--3166608	17	2.2	18	86	9	53	66	0	0	33	0.92
3166570--3166611	19	2.2	19	87	8	59	66	0	0	33	0.92
3193270--3193319	4	12.5	4	100	0	100	24	0	26	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3214388--3214851	156	3.0	154	84	3	615	28	21	22	26	1.99
3227344--3227552	104	2.0	105	99	0	411	28	9	28	33	1.88
3228957--3229079	12	10.2	12	85	3	149	0	30	0	68	0.96
3229550--3229575	6	4.3	6	100	0	52	65	0	15	19	1.27
3232933--3232957	13	1.9	13	100	0	50	64	0	0	36	0.94
3235745--3235835	31	3.1	27	76	21	78	45	2	1	51	1.20
3238321--3238362	22	2.0	21	85	4	57	21	11	2	64	1.38
3238487--3238540	25	2.3	22	75	9	54	57	11	0	31	1.34
3248877--3248915	21	2.0	20	90	10	62	76	2	5	15	1.06
3249729--3249770	17	2.5	17	88	0	66	64	2	0	33	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   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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210