genome.fa.s20.2.7.7.80.10.50.1000.10.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  10  of  199  ( 23844 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)
3272625--3272686	18	3.3	19	82	11	74	32	0	3	64	1.09
3276620--3276668	25	1.9	25	83	4	62	40	0	4	55	1.19
3280281--3280314	18	1.9	18	88	5	52	55	2	0	41	1.15
3284121--3284175	21	2.6	21	79	0	65	32	36	7	23	1.82
3289620--3289689	31	2.2	32	80	14	83	25	15	14	44	1.84
3291812--3291874	29	2.2	29	82	5	74	61	1	1	34	1.15
3292623--3292672	20	2.6	19	80	3	55	36	22	2	40	1.65
3306993--3307052	29	2.1	29	81	6	68	51	3	3	41	1.35
3307628--3307674	22	2.3	20	82	13	60	65	0	2	31	1.04
3307630--3307676	21	2.2	22	88	3	69	70	0	2	27	0.99
3316477--3316521	22	2.2	20	88	8	63	55	2	4	37	1.32
3319758--3319834	29	2.6	29	79	4	82	49	15	12	22	1.78
3321677--3321710	16	2.1	16	88	0	50	35	2	35	26	1.72
3332062--3332087	2	13.0	2	100	0	52	50	0	50	0	1.00
3339626--3339684	30	2.0	29	86	3	82	59	5	0	35	1.20
3339668--3339718	25	2.1	24	92	3	84	64	0	0	35	0.94
3339908--3339955	19	2.4	20	82	6	62	33	0	6	60	1.22
3339908--3339957	20	2.6	19	79	17	59	32	0	6	62	1.20
3346430--3346524	45	2.1	45	100	0	190	40	9	8	42	1.68
3348254--3348316	29	2.2	28	88	5	92	44	6	0	49	1.28
3348267--3348323	29	2.0	29	89	3	89	45	7	0	47	1.30
3348553--3348662	19	5.8	18	76	15	98	39	10	0	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3348576--3348662	18	4.7	19	80	4	106	37	11	0	50	1.39
3348567--3348662	37	2.6	37	98	0	183	38	11	0	50	1.39
3348694--3348752	19	3.2	19	80	4	84	49	0	11	38	1.40
3349300--3349382	27	3.1	27	89	5	116	18	32	18	31	1.94
3349639--3349707	31	2.3	30	78	9	77	50	2	4	42	1.37
3352768--3352898	60	2.2	61	87	2	194	37	13	11	37	1.81
3358267--3358303	9	4.3	9	80	13	51	56	29	0	13	1.37
3361144--3361185	21	2.0	20	82	13	50	40	7	0	52	1.29
3363690--3363958	41	6.6	41	89	0	351	29	20	27	22	1.99
3365876--3365915	20	2.0	20	100	0	80	65	0	10	25	1.24
3367662--3367827	83	2.0	83	100	0	332	32	8	15	43	1.77
3373341--3374212	44	19.8	44	64	7	232	27	24	19	28	1.98
3373257--3374201	132	7.2	132	90	0	1293	27	24	19	28	1.98
3380403--3380432	10	2.8	11	90	10	53	76	6	6	10	1.15
3380825--3380868	18	2.5	17	85	3	52	9	18	34	38	1.82
3405350--3405380	10	3.1	10	95	0	53	38	0	6	54	1.26
3412593--3412624	15	2.1	16	94	5	57	84	6	3	6	0.86
3412546--3412883	162	2.1	162	98	0	660	59	6	4	29	1.43
3412755--3412786	15	2.1	16	94	5	57	84	6	3	6	0.86
3412828--3412901	30	2.4	30	77	6	76	47	9	5	37	1.59
3412900--3412978	27	2.9	27	78	12	65	60	1	2	35	1.18
3414357--3414507	59	2.5	60	84	5	191	41	11	19	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414946--3414988	20	2.2	19	88	12	61	41	2	0	55	1.12
3431465--3431490	9	2.9	9	100	0	52	7	57	0	34	1.27
3438266--3438326	28	2.2	28	90	0	95	32	21	1	44	1.62
3439990--3440110	50	2.4	50	79	2	127	18	25	22	33	1.96
3440001--3440113	25	4.5	25	81	8	113	18	23	22	35	1.96
3440066--3440129	25	2.6	25	82	5	85	18	25	26	29	1.98
3440564--3440621	29	2.0	30	89	3	91	48	48	0	3	1.18
3440546--3440613	6	11.3	6	70	17	52	52	44	1	1	1.19
3441842--3441910	28	2.4	28	74	13	68	27	7	1	63	1.29
3442031--3442098	26	2.5	27	83	9	86	30	5	2	60	1.35
3442031--3442114	28	3.1	27	80	10	82	29	7	2	60	1.36
3442162--3442233	26	2.8	26	81	4	76	27	8	5	58	1.50
3445554--3445597	22	2.0	22	100	0	88	18	36	18	27	1.94
3461142--3461218	29	2.6	29	82	8	93	42	14	14	28	1.84
3464498--3464580	40	2.1	40	100	0	166	44	9	9	36	1.70
3467911--3467954	17	2.6	17	82	10	56	54	20	4	20	1.62
3479352--3479392	18	2.2	18	87	12	57	24	2	7	65	1.30
3486455--3486487	15	2.1	16	88	5	50	24	15	9	51	1.72
3488116--3488213	49	2.0	50	88	8	146	40	5	1	53	1.30
3488129--3488234	49	2.2	48	81	8	124	40	7	1	50	1.42
3492443--3492532	41	2.2	41	100	0	180	31	17	18	32	1.95
3492554--3492587	18	1.9	17	94	5	59	0	58	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3492647--3492709	25	2.4	27	77	17	71	4	33	1	60	1.27
3495498--3495574	14	5.0	15	71	20	52	42	15	9	32	1.78
3495514--3495553	20	2.0	20	90	0	62	50	12	10	27	1.72
3495502--3495568	34	1.9	35	90	3	109	46	13	8	31	1.74
3495537--3495576	14	2.9	14	84	0	53	42	17	7	32	1.77
3498001--3498053	20	2.7	20	80	14	56	37	0	0	62	0.96
3504464--3504491	3	9.3	3	100	0	56	67	0	0	32	0.91
3506431--3506506	33	2.3	32	77	6	80	36	17	19	26	1.94
3512224--3512429	45	4.6	45	94	1	344	33	16	22	27	1.95
3519663--3519687	13	1.9	13	100	0	50	0	16	0	84	0.63
3524668--3524712	23	1.9	24	82	13	58	35	8	28	26	1.87
3526110--3526142	15	2.1	16	88	5	50	51	9	0	39	1.34
3526707--3526731	4	6.2	4	100	0	50	0	0	24	76	0.80
3535375--3535405	3	10.7	3	93	6	55	70	29	0	0	0.87
3539630--3539672	20	2.2	20	100	0	86	23	9	16	51	1.73
3549453--3549581	47	2.9	43	67	21	102	48	3	3	44	1.36
3549718--3549752	18	2.0	17	88	5	52	45	0	0	54	0.99
3549988--3550039	16	3.2	16	88	0	77	34	34	0	30	1.58
3552564--3552729	37	4.5	37	96	0	305	25	18	17	37	1.93
3552693--3552961	46	5.6	46	84	10	340	28	22	14	34	1.93
3552736--3552955	52	4.3	52	85	8	299	27	22	14	35	1.93
3552693--3552961	98	2.7	98	93	0	457	28	22	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3556009--3556037	15	1.9	15	100	0	58	20	10	0	68	1.18
3559467--3559566	27	3.7	27	91	0	146	31	21	28	20	1.98
3559676--3559721	22	2.1	22	95	0	83	26	0	15	58	1.37
3559571--3560107	19	26.3	19	67	24	137	30	0	13	55	1.43
3559716--3559911	61	3.4	59	72	20	196	32	0	10	56	1.37
3559790--3559837	8	5.6	8	76	13	51	29	0	14	56	1.39
3559776--3560047	27	10.0	27	69	19	156	30	0	13	55	1.39
3559711--3559917	115	1.8	114	93	1	360	31	0	11	56	1.39
3559828--3559997	80	2.1	80	93	0	295	31	0	12	56	1.36
3559973--3560106	23	5.8	23	85	10	177	29	0	17	52	1.45
3559993--3560106	42	2.6	42	88	5	174	28	0	18	52	1.45
3559672--3560107	195	2.3	190	81	9	576	30	0	14	55	1.42
3559804--3560240	88	5.1	88	74	15	221	31	0	14	54	1.44
3560134--3560180	23	2.0	23	100	0	94	29	0	17	53	1.44
3560362--3560398	16	2.4	16	90	4	58	32	2	5	59	1.34
3563975--3564028	18	2.8	20	78	13	69	64	1	0	33	1.04
3565586--3565626	9	4.6	9	87	0	64	2	43	0	53	1.13
3565769--3565808	21	1.9	21	90	10	64	15	35	10	40	1.80
3565758--3565816	21	2.6	24	71	20	63	15	40	6	37	1.74
3568045--3568074	11	2.7	11	100	0	60	23	20	26	30	1.98
3569401--3569638	100	2.4	101	89	1	370	29	23	14	31	1.95
3575906--3575950	18	2.5	17	82	10	54	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3578643--3578669	12	2.2	12	100	0	54	44	0	0	55	0.99
3594263--3594314	23	2.2	23	81	18	63	53	1	1	42	1.23
3594289--3594343	26	2.0	26	89	10	83	58	0	1	40	1.09
3594295--3594379	39	2.2	40	85	12	122	63	0	2	34	1.07
3594328--3594368	11	3.5	11	84	12	55	60	0	2	36	1.10
3594300--3594377	41	2.0	40	94	5	140	61	0	2	35	1.10
3594330--3594368	12	3.2	12	82	13	53	64	0	2	33	1.08
3594315--3594397	20	4.1	20	73	14	80	62	0	1	36	1.03
3597316--3597613	75	4.0	74	81	8	306	37	11	24	26	1.89
3601924--3601973	19	2.7	19	76	20	61	38	8	0	54	1.30

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