genome.fa.s25.2.7.7.80.10.50.1000.12.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   214   

This is table  12  of  214  ( 25680 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)
3360871--3361069	42	4.7	42	80	4	213	44	15	21	18	1.87
3360885--3361069	21	8.8	21	74	0	136	44	15	21	17	1.86
3360899--3361060	84	1.9	84	88	0	243	43	16	21	18	1.88
3375392--3375461	15	4.6	15	72	10	52	40	2	1	55	1.23
3376629--3376691	9	6.9	9	85	1	81	23	11	22	42	1.85
3383930--3383964	17	2.1	16	89	5	52	77	0	22	0	0.78
3383930--3383964	8	4.2	8	85	7	52	77	0	22	0	0.78
3384832--3384877	24	1.9	24	86	8	67	32	4	15	47	1.65
3385998--3386042	24	1.9	23	90	4	72	62	0	0	37	0.96
3397725--3397755	3	10.3	3	100	0	62	67	0	0	32	0.91
3400491--3400518	13	2.2	13	100	0	56	28	7	14	50	1.69
3412296--3412401	50	2.1	50	100	0	212	30	19	1	48	1.60
3418437--3418483	24	2.0	24	83	8	60	17	34	0	48	1.47
3422715--3422768	10	5.7	10	74	12	51	59	1	1	37	1.19
3423310--3423341	16	2.0	16	93	0	55	21	6	0	71	1.07
3423409--3423563	20	7.6	20	73	11	111	32	2	1	62	1.20
3423434--3423478	18	2.6	17	83	13	56	26	0	4	68	1.08
3423411--3423563	11	15.0	10	69	14	66	32	2	1	62	1.20
3423480--3423559	31	2.5	31	76	17	85	33	5	0	61	1.18
3423373--3423560	42	4.6	41	73	13	113	34	2	2	61	1.22
3430941--3431043	36	2.9	36	77	0	98	23	32	16	28	1.96
3432011--3432047	2	18.5	2	100	0	74	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3432852--3433051	9	20.2	9	68	20	57	61	2	5	30	1.32
3432906--3432953	19	2.5	20	79	6	62	64	2	0	33	1.05
3432999--3433024	10	2.6	10	100	0	52	69	0	7	23	1.14
3433219--3433312	9	10.2	9	68	11	57	27	3	1	68	1.12
3433219--3433312	27	3.4	28	79	13	97	27	3	1	68	1.12
3433241--3433283	19	2.3	18	81	14	52	23	4	0	72	1.04
3438359--3438444	43	2.0	43	90	4	138	23	23	1	52	1.54
3448325--3448386	21	3.0	21	83	2	63	8	8	12	70	1.32
3449729--3449794	31	2.1	31	100	0	132	39	13	0	46	1.43
3453805--3453830	11	2.4	11	100	0	52	38	7	0	53	1.30
3453827--3453887	9	6.4	9	75	17	61	24	1	1	72	1.03
3453781--3453899	39	3.0	40	87	6	181	31	3	0	63	1.16
3453879--3453938	26	2.3	27	82	2	68	30	1	3	65	1.19
3454091--3454147	29	1.9	30	89	3	89	38	0	42	19	1.51
3457111--3457152	17	2.6	16	85	7	57	30	2	0	66	1.04
3460846--3460898	15	3.7	15	78	19	51	52	5	33	7	1.53
3460855--3460902	12	4.1	11	81	7	51	52	4	35	8	1.51
3463242--3463276	16	2.1	17	89	5	54	45	0	2	51	1.16
3463325--3463363	13	2.9	13	85	14	53	53	0	0	46	1.00
3463085--3463422	168	2.0	169	96	0	624	50	0	1	47	1.16
3463087--3463466	168	2.2	167	90	4	539	50	0	2	46	1.22
3463464--3463511	15	3.5	15	68	26	52	54	0	4	41	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3478209--3478270	32	1.9	32	93	6	108	46	0	16	37	1.47
3479775--3479846	32	2.3	32	95	2	128	37	13	16	31	1.88
3483405--3483438	13	2.5	13	90	4	50	64	2	0	32	1.08
3483405--3483448	11	3.5	13	81	15	56	61	2	0	36	1.09
3483424--3483486	11	6.5	10	76	22	55	55	0	1	42	1.09
3483501--3483526	11	2.4	11	100	0	52	53	0	7	38	1.30
3488025--3488372	174	2.0	175	86	2	495	41	22	14	22	1.89
3503843--3503997	45	3.5	46	83	4	174	32	27	15	24	1.95
3509795--3509945	25	6.3	23	80	11	137	37	21	25	15	1.92
3509839--3509945	25	4.3	25	91	1	171	37	23	24	14	1.93
3510931--3510967	16	2.3	16	95	0	65	59	0	0	40	0.97
3510930--3510961	8	4.0	8	91	0	55	59	0	0	40	0.97
3512960--3513023	25	2.6	25	71	14	60	35	6	6	51	1.52
3515027--3515063	19	1.9	19	88	0	56	37	0	0	62	0.96
3515028--3515070	19	2.2	19	83	4	50	34	0	4	60	1.17
3515327--3515352	13	2.0	13	100	0	52	30	15	23	30	1.95
3515358--3515382	6	4.2	6	100	0	50	16	0	0	84	0.63
3526383--3526423	22	1.9	22	90	5	66	17	7	4	70	1.28
3526497--3526562	35	1.9	34	90	3	105	36	0	0	63	0.95
3526519--3526593	21	3.5	21	81	5	71	40	1	1	57	1.16
3526552--3526592	22	1.9	21	85	5	55	43	2	2	51	1.28
3526661--3526685	9	2.8	9	100	0	50	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3526779--3526833	22	2.7	20	82	5	65	60	0	5	34	1.20
3530391--3530432	16	2.8	15	89	7	59	61	0	2	35	1.09
3530520--3530648	21	6.0	22	75	16	92	55	2	0	41	1.12
3530547--3530641	7	13.6	7	68	12	52	55	3	0	41	1.15
3530520--3530641	22	5.7	21	78	16	108	54	2	0	42	1.13
3530533--3530615	20	4.0	21	82	7	89	59	0	0	40	0.98
3530521--3530640	64	1.9	62	81	13	147	55	2	0	42	1.13
3531023--3531056	16	2.1	17	88	5	52	58	0	0	41	0.98
3537369--3537576	29	7.2	29	82	1	204	29	24	23	22	1.99
3537369--3537563	58	3.4	58	80	1	230	30	24	23	22	1.99
3537417--3537473	17	3.6	17	66	22	52	29	26	22	21	1.99
3537564--3537629	34	1.9	34	84	0	87	28	24	21	25	1.99
3544603--3544648	24	1.9	24	86	0	65	15	23	0	60	1.34
3556003--3556036	2	17.0	2	100	0	68	50	0	50	0	1.00
3558555--3558698	68	2.1	68	100	0	288	48	16	2	31	1.61
3561234--3561337	36	2.9	35	80	8	93	24	18	17	40	1.91
3564036--3564126	44	2.1	44	87	0	128	46	13	10	29	1.77
3568155--3568205	19	2.7	19	78	0	57	39	1	3	54	1.30
3575687--3575844	42	3.8	41	79	8	169	59	0	1	37	1.13
3575725--3575790	20	3.2	20	67	16	53	62	0	1	36	1.05
3575713--3575822	11	10.4	11	70	15	72	57	0	2	40	1.13
3578888--3578939	24	2.2	24	85	0	68	38	3	7	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3583398--3583438	21	2.0	21	85	0	55	56	4	12	26	1.56
3591120--3591153	17	2.1	17	94	5	61	0	11	0	88	0.52
3597149--3597175	5	5.4	5	100	0	54	77	0	0	22	0.76
3613086--3613180	40	2.4	40	94	0	172	23	23	29	24	1.99
3616715--3616870	75	2.1	75	96	0	285	36	27	16	19	1.93
3620332--3620423	40	2.3	40	88	5	143	65	1	2	31	1.12
3621637--3621673	16	2.4	16	90	4	58	59	5	2	32	1.34
3621791--3621912	60	2.0	60	87	3	174	53	13	1	31	1.49
3621900--3621967	23	3.2	21	78	17	86	55	16	0	27	1.41
3621905--3622368	19	23.3	19	68	22	123	56	13	0	30	1.40
3621929--3622114	80	2.3	80	94	0	336	55	13	0	30	1.39
3622102--3622149	8	5.6	8	81	13	60	58	14	0	27	1.37
3622088--3622163	27	2.8	27	100	0	152	55	14	0	30	1.40
3622088--3622192	54	1.9	54	83	7	133	57	14	0	28	1.38
3621889--3622365	101	4.8	100	78	13	527	56	12	0	30	1.39
3622373--3622445	27	2.7	27	91	0	119	15	28	26	30	1.96
3624098--3624145	20	2.4	20	75	0	51	66	2	0	31	1.03
3624099--3624177	31	2.5	31	78	11	81	62	1	0	36	1.04
3625487--3625523	9	4.1	9	85	0	56	48	13	8	29	1.71
3625582--3625644	30	2.1	30	82	11	76	20	49	0	30	1.49
3631211--3631247	18	2.1	18	100	0	74	21	8	16	54	1.68
3632316--3632350	13	2.8	12	83	8	52	28	0	2	68	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3632350--3632390	18	2.2	20	86	8	59	65	4	0	29	1.13
3632596--3632626	10	2.9	11	90	9	55	74	0	9	16	1.07
3635748--3635786	16	2.3	18	86	8	55	10	23	12	53	1.69
3636211--3636256	24	1.9	24	90	0	74	15	10	54	19	1.70
3636234--3636293	18	3.3	18	95	0	111	11	11	56	20	1.65
3644563--3644616	20	2.7	20	85	5	74	55	0	1	42	1.10
3644487--3644629	45	3.1	45	71	17	114	51	1	9	38	1.43
3644659--3644736	3	24.7	3	78	12	68	64	1	6	28	1.26
3644659--3644779	36	3.3	34	79	13	109	63	1	8	26	1.32
3646050--3646089	19	2.0	19	85	9	53	65	5	0	30	1.14

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   214