genome.fa.s14.2.7.7.80.10.50.1000.11.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   211   212   213   

This is table  11  of  213  ( 25468 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)
3177495--3177530	17	2.1	17	100	0	72	16	0	11	72	1.12
3180043--3180104	18	3.6	18	77	16	69	58	0	6	35	1.24
3180040--3180104	35	1.9	33	84	12	87	56	0	7	35	1.28
3181816--3181938	46	2.7	46	83	5	144	29	21	20	28	1.98
3182159--3182720	43	13.1	42	62	15	123	24	23	22	29	1.99
3182138--3182731	86	6.9	86	93	1	969	24	23	22	29	1.99
3182138--3182731	171	3.5	172	93	1	987	24	23	22	29	1.99
3191090--3191122	10	3.3	10	95	0	57	51	0	6	42	1.26
3191204--3191284	3	27.3	3	74	16	71	61	2	4	30	1.30
3198057--3198081	3	8.3	3	100	0	50	68	0	0	32	0.90
3199428--3199509	26	3.2	25	69	19	71	32	10	24	31	1.90
3199424--3199867	51	8.8	51	76	7	352	27	16	26	30	1.97
3199529--3199611	26	3.2	26	65	21	66	27	12	27	32	1.92
3199424--3199714	101	2.9	102	87	2	399	28	15	25	30	1.96
3199675--3199860	101	1.8	102	90	3	304	24	18	26	31	1.97
3199478--3199811	151	2.2	152	83	3	413	26	16	26	29	1.97
3204980--3205055	18	4.3	18	71	8	57	52	1	10	35	1.44
3205015--3205053	16	2.4	16	91	0	60	53	2	7	35	1.43
3205227--3205259	16	2.1	16	94	0	57	57	3	0	39	1.14
3205297--3205321	12	2.1	12	100	0	50	44	8	8	40	1.63
3205390--3205438	3	16.3	3	91	0	80	63	0	4	32	1.13
3208162--3208205	24	1.9	24	86	9	65	38	0	2	59	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3208393--3208434	16	2.6	16	92	0	66	42	7	2	47	1.43
3208408--3208462	22	2.5	22	84	0	74	43	1	1	52	1.22
3212795--3212827	14	2.4	14	94	0	57	48	21	3	27	1.64
3216006--3216056	18	2.8	18	82	5	59	27	17	0	54	1.43
3216910--3217080	87	2.0	87	84	4	229	22	14	22	39	1.91
3219216--3219240	13	1.9	13	100	0	50	0	8	0	92	0.40
3219973--3220010	4	9.5	4	86	11	51	23	2	0	73	0.95
3219961--3220006	21	2.2	22	80	11	60	23	2	2	71	1.08
3219973--3219999	13	2.1	13	100	0	54	22	0	0	77	0.76
3219973--3220023	16	3.2	16	81	13	52	21	7	0	70	1.12
3225010--3225109	46	2.2	46	98	1	191	25	15	18	42	1.88
3227515--3227588	29	2.5	29	82	4	85	24	13	14	47	1.81
3227912--3227939	9	3.1	9	100	0	56	57	10	0	32	1.33
3227921--3228054	59	2.3	58	96	1	250	46	9	4	39	1.57
3228070--3228111	16	2.6	16	92	0	66	42	7	2	47	1.43
3228085--3228139	22	2.5	22	84	0	74	43	1	1	52	1.22
3228093--3228152	29	2.1	29	84	6	77	50	1	1	46	1.21
3228833--3228909	29	2.6	29	83	4	91	46	14	14	24	1.81
3229700--3229734	3	11.7	3	100	0	70	31	0	0	68	0.90
3229735--3229920	73	2.5	73	99	0	363	27	6	24	40	1.80
3234136--3234167	3	10.7	3	100	0	64	31	0	0	68	0.90
3234168--3234426	73	3.5	73	98	0	500	27	6	25	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3242008--3242047	19	2.1	19	100	0	80	37	5	22	35	1.76
3243561--3243605	7	6.1	7	90	10	72	31	0	0	68	0.89
3244081--3244115	18	1.9	18	88	0	52	37	28	22	11	1.89
3251416--3251472	18	3.2	18	84	0	78	33	15	22	28	1.95
3254140--3254191	24	2.2	24	85	0	68	36	5	7	50	1.55
3258569--3258620	24	2.2	24	89	0	77	36	3	9	50	1.54
3271603--3271654	24	2.2	24	85	0	68	36	5	7	50	1.55
3276033--3276084	24	2.2	24	89	0	77	36	3	9	50	1.54
3284036--3284069	16	2.1	16	88	0	50	50	14	17	17	1.79
3288815--3288848	16	2.1	16	88	0	50	50	14	17	17	1.79
3299020--3299064	21	2.1	21	83	0	54	46	2	22	28	1.63
3300736--3300803	36	1.9	37	82	14	90	30	4	4	60	1.36
3300725--3300780	28	2.2	24	81	12	58	33	1	5	58	1.31
3301788--3301847	8	7.1	8	76	10	57	33	0	1	65	1.03
3304954--3304994	21	2.0	21	90	0	64	29	21	29	19	1.98
3308935--3308977	20	2.2	20	87	8	61	46	2	0	51	1.13
3309610--3309657	19	2.6	18	76	6	51	41	2	0	56	1.11
3311473--3311512	20	2.0	20	100	0	80	20	20	20	40	1.92
3323813--3323843	15	2.1	15	100	0	62	38	9	12	38	1.77
3325221--3325262	22	2.0	21	85	4	57	71	2	19	7	1.20
3339184--3339226	19	2.3	19	91	0	68	13	27	37	20	1.91
3339245--3339300	21	2.7	20	83	8	67	25	35	28	10	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3354418--3354461	22	2.0	22	95	0	79	9	20	27	43	1.82
3354533--3354694	43	3.8	43	89	1	236	24	32	17	24	1.97
3354533--3354694	85	1.9	86	87	1	236	24	32	17	24	1.97
3355620--3355657	15	2.4	17	86	8	53	68	2	0	28	1.03
3358861--3358885	4	6.2	4	100	0	50	24	0	0	76	0.80
3359008--3359106	50	2.0	50	93	0	171	42	32	2	23	1.65
3359187--3359254	21	3.2	21	73	10	57	36	38	1	23	1.64
3359297--3359330	17	2.0	17	88	0	50	41	0	0	58	0.98
3359970--3360001	15	2.1	15	94	0	55	40	34	0	25	1.56
3360191--3360242	23	2.3	23	90	6	79	32	40	3	23	1.72
3360571--3360766	41	4.8	41	92	0	311	32	26	20	19	1.97
3360818--3360943	40	3.2	40	78	8	132	21	17	20	40	1.91
3364900--3364964	23	3.0	22	78	12	64	63	1	6	29	1.28
3365417--3365472	23	2.5	23	85	5	71	55	5	7	32	1.50
3365524--3365597	24	3.3	23	81	7	80	59	8	5	27	1.48
3365524--3365597	21	3.3	21	78	14	76	59	8	5	27	1.48
3365515--3365600	21	3.8	24	75	10	63	60	6	5	26	1.45
3365676--3365712	18	2.0	18	89	5	56	54	2	5	37	1.38
3370323--3370347	10	2.5	10	100	0	50	88	0	0	12	0.53
3376950--3377156	44	4.7	44	67	9	143	27	25	17	29	1.97
3376996--3377189	44	4.4	44	68	8	128	27	25	17	29	1.97
3376890--3377919	133	7.8	133	89	1	1324	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)
3391631--3391689	29	2.0	30	83	3	75	33	5	11	49	1.62
3392585--3392618	14	2.4	14	90	5	50	55	0	5	38	1.24
3394711--3394755	18	2.4	18	85	10	56	71	4	0	24	1.05
3396132--3396200	21	3.3	20	76	17	63	37	42	2	17	1.64
3396964--3397064	41	2.5	41	85	6	134	36	21	18	22	1.95
3397122--3397196	39	1.9	40	91	2	125	28	21	18	32	1.97
3397849--3397932	42	2.1	39	86	6	114	48	2	0	48	1.14
3409923--3410050	63	2.0	63	92	0	211	28	17	18	35	1.94
3411219--3411261	18	2.5	18	92	7	72	60	0	4	34	1.17
3413546--3413655	40	2.8	39	79	6	123	32	22	25	19	1.97
3413545--3413681	40	3.4	39	77	6	114	36	21	22	18	1.95
3413991--3414023	15	2.3	15	94	5	59	33	0	33	33	1.58
3414138--3414176	7	5.6	7	84	0	51	17	0	48	33	1.48
3414138--3414184	14	3.4	14	81	0	58	21	0	46	31	1.51
3414129--3414184	21	2.7	21	75	10	53	21	0	46	32	1.52
3414300--3414333	14	2.4	14	90	0	50	23	0	29	47	1.52
3414212--3414463	129	1.9	128	79	7	276	33	1	19	45	1.59
3421188--3421242	28	2.0	28	100	0	110	25	21	14	38	1.92
3427005--3427038	17	2.0	17	94	0	59	79	0	17	2	0.86
3427005--3427038	9	3.9	9	84	7	52	79	0	17	2	0.86
3427435--3427549	44	2.6	45	84	2	142	36	13	21	27	1.92
3429232--3429288	26	2.1	27	83	3	71	28	1	5	64	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3431537--3431561	3	8.3	3	100	0	50	68	0	0	32	0.90
3432210--3432244	18	1.9	18	88	11	54	37	0	0	62	0.95
3432756--3432784	2	14.5	2	100	0	58	48	0	51	0	1.00
3435014--3435052	17	2.4	17	86	4	53	58	2	10	28	1.44
3441813--3441844	3	10.7	3	100	0	64	65	0	0	34	0.93
3444904--3444950	22	2.2	22	85	11	62	44	2	0	53	1.12
3447167--3447227	18	3.2	18	82	13	86	26	21	14	37	1.92
3447174--3447233	18	3.0	21	83	14	90	26	20	16	36	1.93
3447811--3447855	3	15.0	3	100	0	90	0	33	0	66	0.92
3448499--3448574	24	3.2	24	94	0	125	48	9	5	36	1.58

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   211   212   213