genome.fa.s17.2.7.7.80.10.50.1000.12.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  12  of  173  ( 20651 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)
3280285--3280603	73	4.4	73	90	1	469	27	23	25	22	2.00
3280498--3280805	113	2.7	113	87	2	422	25	20	26	27	1.99
3281127--3281158	14	2.3	14	100	0	64	28	0	34	37	1.57
3281176--3281224	7	6.4	7	78	17	53	18	2	46	32	1.60
3281176--3281224	15	3.2	15	85	8	55	18	2	46	32	1.60
3281173--3281223	23	2.2	24	92	3	86	15	1	49	33	1.56
3281005--3281636	303	2.1	299	89	5	959	29	2	26	41	1.67
3281649--3281847	106	1.9	106	92	1	335	50	11	10	27	1.71
3281900--3282109	104	2.0	107	92	3	354	49	11	11	27	1.75
3281649--3282302	243	2.6	248	87	7	925	48	11	12	27	1.76
3283483--3283547	30	2.1	31	83	8	80	32	4	12	50	1.60
3302396--3302439	20	2.2	21	84	12	65	61	4	0	34	1.16
3302397--3302467	19	3.7	19	83	9	83	57	4	1	36	1.27
3302518--3302547	9	3.4	9	90	9	53	53	0	10	36	1.35
3305964--3306031	20	3.5	19	82	8	75	54	4	2	38	1.36
3305964--3306041	19	4.1	19	79	9	79	55	5	2	37	1.36
3309457--3309537	40	2.0	40	100	0	162	39	2	22	35	1.67
3309454--3309548	40	2.4	40	91	5	140	45	2	21	31	1.63
3323173--3323277	6	17.0	6	84	9	131	29	0	0	69	0.95
3332617--3332970	47	7.6	47	93	1	568	38	13	19	27	1.90
3332617--3332970	93	3.8	94	94	0	586	38	13	19	27	1.90
3332640--3332970	140	2.4	140	94	1	583	38	13	19	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3333815--3333929	43	2.7	42	79	12	126	28	28	20	22	1.98
3334159--3334191	17	2.1	16	88	11	50	24	0	18	57	1.40
3337746--3337788	18	2.5	17	81	11	52	16	4	0	79	0.90
3338961--3338993	17	2.1	16	88	11	50	24	0	18	57	1.40
3342655--3342756	16	6.2	16	93	4	177	24	0	37	38	1.56
3342655--3342756	33	3.1	33	97	1	188	24	0	37	38	1.56
3342655--3342756	49	2.1	49	94	3	179	24	0	37	38	1.56
3342737--3342827	45	2.0	45	85	2	121	27	6	28	37	1.82
3342981--3343022	15	2.9	15	86	10	61	54	0	0	45	0.99
3342972--3343013	15	2.7	16	85	14	61	54	2	0	42	1.13
3342978--3343026	16	2.9	18	74	20	52	57	0	0	42	0.99
3343208--3343259	15	3.6	15	80	12	56	53	1	0	44	1.11
3343343--3343383	16	2.5	17	85	14	52	53	0	2	43	1.13
3342975--3343384	120	3.4	120	94	2	711	50	5	1	41	1.36
3345547--3345589	21	2.0	21	95	0	77	27	0	37	34	1.57
3345570--3345602	16	2.1	16	94	0	57	33	0	36	30	1.58
3345581--3345675	45	2.1	44	88	1	136	34	5	27	32	1.79
3345837--3345871	18	2.0	17	88	5	52	54	0	0	45	0.99
3345795--3345867	27	2.7	27	76	8	76	52	2	0	45	1.15
3345756--3346027	144	1.9	147	92	3	469	46	2	3	46	1.35
3345981--3346015	18	2.0	17	88	5	52	54	0	0	45	0.99
3349707--3349740	17	2.0	17	94	0	59	47	2	17	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3358874--3358919	13	3.6	13	80	11	51	50	2	0	47	1.13
3365892--3365947	17	3.3	19	79	18	54	50	1	0	48	1.11
3365906--3365958	17	3.2	17	86	5	72	50	3	1	43	1.30
3368509--3368546	18	2.2	17	90	4	58	34	0	0	65	0.93
3368799--3368836	9	4.3	9	80	6	51	26	0	2	71	1.00
3371126--3371213	30	2.8	32	75	14	87	52	12	11	23	1.71
3372414--3372477	23	2.8	22	80	4	74	17	15	26	40	1.89
3374894--3375071	89	2.0	89	100	0	356	39	26	4	29	1.76
3380570--3380707	74	1.9	74	84	6	190	31	10	21	35	1.88
3380823--3380869	7	6.4	7	86	11	51	44	0	0	55	0.99
3380827--3380867	8	5.1	8	88	8	57	39	0	0	60	0.96
3380833--3380867	17	2.1	17	94	0	61	37	0	0	62	0.95
3383406--3383571	62	2.6	63	83	6	183	33	9	16	40	1.80
3383719--3383832	41	2.8	40	92	5	183	26	20	21	31	1.98
3389142--3389299	41	3.9	41	94	0	253	32	22	17	27	1.97
3389164--3389315	82	1.9	82	87	2	216	34	23	16	26	1.95
3390854--3390897	19	2.2	20	88	4	63	34	6	2	56	1.38
3391123--3391151	14	2.0	15	93	6	51	51	20	0	27	1.47
3393294--3393327	2	17.0	2	100	0	68	50	0	50	0	1.00
3400845--3400877	13	2.5	13	95	0	57	57	6	9	27	1.53
3408325--3408381	27	2.2	26	84	9	71	28	8	0	63	1.24
3408498--3408540	22	1.9	23	85	4	61	58	4	0	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3408599--3408800	43	4.7	43	83	1	244	24	17	29	28	1.98
3409091--3409128	19	2.0	20	90	10	62	52	0	0	47	1.00
3415482--3415536	26	2.1	26	96	0	101	16	10	20	52	1.73
3419281--3419387	54	2.0	54	87	7	155	26	26	16	30	1.97
3439624--3439689	10	6.8	10	72	16	50	34	4	3	57	1.34
3439618--3439677	27	2.2	26	77	8	66	33	3	3	60	1.30
3446797--3446842	23	2.0	23	86	0	65	43	13	15	28	1.83
3446799--3446848	23	2.2	23	81	0	55	50	12	12	26	1.74
3453353--3453392	16	2.3	18	83	12	57	32	0	10	57	1.32
3454508--3454635	69	1.9	68	85	1	175	48	10	7	33	1.65
3459907--3459935	2	14.5	2	100	0	58	48	0	0	51	1.00
3466386--3466487	45	2.3	45	79	3	107	39	18	20	21	1.93
3467954--3468014	24	2.5	23	80	15	61	49	4	0	45	1.23
3467962--3468045	35	2.4	33	84	9	105	48	4	0	46	1.23
3472268--3472353	44	2.0	43	88	2	127	41	5	5	46	1.52
3476916--3476961	19	2.3	20	96	3	85	34	8	19	36	1.83
3477720--3477778	30	2.0	29	81	12	68	45	6	10	37	1.65
3479484--3479538	17	3.1	17	76	19	58	65	3	0	30	1.10
3479484--3479538	18	3.1	18	74	10	58	65	3	0	30	1.10
3480020--3480068	24	2.1	24	85	14	68	51	0	2	46	1.12
3481837--3481883	23	2.0	23	100	0	94	34	8	0	57	1.29
3482024--3482101	19	4.2	19	83	3	104	35	11	0	52	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3482037--3482107	37	1.9	37	100	0	142	39	11	0	49	1.39
3482325--3482393	19	3.7	18	84	3	84	37	8	0	53	1.32
3482664--3482734	37	1.9	37	97	0	133	49	1	11	38	1.48
3482670--3482738	19	3.7	19	82	5	97	52	1	10	36	1.44
3482670--3482747	19	4.1	19	81	5	68	52	1	11	34	1.46
3482812--3482882	27	2.6	28	86	6	94	16	28	23	30	1.97
3482813--3482898	27	3.2	26	83	4	93	18	25	23	32	1.97
3482936--3482983	24	2.0	24	95	0	87	52	0	8	39	1.32
3488191--3488230	16	2.5	17	92	8	66	50	0	0	50	1.00
3488433--3488473	18	2.4	18	84	8	59	56	0	0	43	0.99
3488433--3488486	18	3.3	16	78	12	56	53	1	0	44	1.11
3489032--3489058	2	13.5	2	100	0	54	0	51	0	48	1.00
3493919--3493957	20	1.9	21	89	5	62	33	10	17	38	1.84
3499994--3500137	72	2.0	70	90	2	225	61	5	27	5	1.41
3507225--3507262	19	2.0	19	85	10	51	39	7	2	50	1.46
3509321--3509362	19	2.2	20	83	12	52	38	4	0	57	1.20
3511630--3511716	30	2.9	30	79	17	83	37	3	0	58	1.15
3511631--3511757	40	3.2	40	91	1	200	37	3	0	58	1.20
3511693--3511750	29	2.0	29	90	6	91	37	3	1	56	1.26
3511641--3511757	11	11.3	11	70	23	76	37	3	0	58	1.21
3513197--3513787	152	3.9	152	96	0	1069	22	14	26	36	1.93
3518572--3518648	14	5.0	15	71	20	52	42	14	9	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3518588--3518627	20	2.0	20	90	0	62	50	12	10	27	1.72
3518576--3518642	34	1.9	35	90	3	109	46	13	8	31	1.74
3520309--3520581	138	2.0	138	94	1	485	28	14	17	39	1.89
3520841--3520935	28	3.4	28	73	23	76	49	3	0	47	1.17
3520910--3520967	26	2.3	25	77	13	66	50	0	0	50	1.00
3520888--3520963	22	3.4	22	75	12	66	46	1	0	52	1.08
3524285--3524313	14	2.0	15	93	6	51	82	3	0	13	0.79
3526524--3526572	18	2.6	19	81	15	57	38	0	6	55	1.25
3536306--3536358	21	2.5	22	78	12	65	62	22	7	7	1.47
3545824--3545855	3	10.7	3	100	0	64	65	0	34	0	0.93

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