genome.fa.s25.2.7.7.80.10.50.1000.11.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  11  of  196  ( 23409 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)
3183578--3183603	7	3.7	7	100	0	52	15	0	69	15	1.20
3183877--3183913	9	4.1	9	92	0	65	29	10	13	45	1.77
3195477--3195515	13	3.0	13	96	0	69	15	5	46	33	1.68
3195735--3195791	25	2.3	25	81	6	62	3	29	0	66	1.08
3199048--3199142	38	2.5	38	85	0	127	36	14	16	31	1.90
3200806--3200849	19	2.3	19	96	0	79	31	11	0	56	1.35
3206492--3206555	31	2.0	31	82	14	78	35	1	4	57	1.29
3212859--3212912	28	1.9	28	92	0	90	38	3	0	57	1.17
3215411--3215451	15	2.7	16	81	11	50	63	0	2	34	1.08
3216665--3216725	27	2.3	27	82	0	77	18	24	32	24	1.97
3219796--3220016	21	10.4	21	68	21	113	57	11	0	31	1.35
3219801--3219863	19	3.2	19	86	6	72	57	9	0	33	1.31
3219918--3220012	48	2.0	47	93	6	165	56	12	0	30	1.36
3219785--3220092	61	4.9	62	73	17	230	57	11	0	31	1.34
3220104--3220129	7	3.7	7	100	0	52	61	0	0	38	0.96
3221537--3221593	3	18.7	3	80	3	60	56	1	3	38	1.27
3222994--3223048	27	2.0	27	85	0	74	25	29	20	25	1.99
3235902--3235947	12	4.0	11	81	10	56	23	15	13	47	1.80
3237358--3237443	23	3.8	22	76	6	82	16	17	25	40	1.90
3237364--3237477	46	2.4	46	81	8	115	18	16	23	41	1.90
3242207--3242281	37	2.0	38	89	2	116	56	8	20	16	1.65
3245995--3246039	21	2.1	21	87	0	63	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3246884--3247181	42	7.1	39	75	11	170	22	5	54	18	1.63
3246884--3247021	63	2.2	63	97	0	258	21	5	55	18	1.62
3246901--3247126	105	2.2	105	97	0	425	22	5	55	16	1.61
3246927--3247342	63	6.3	63	77	12	336	21	5	54	19	1.63
3246964--3247189	42	5.4	42	76	15	191	23	5	54	16	1.62
3247158--3247222	33	2.0	33	84	0	85	15	3	56	24	1.53
3247207--3247293	24	3.8	23	70	14	72	19	5	56	18	1.61
3247218--3247340	42	2.8	43	83	8	160	20	4	54	20	1.62
3247240--3247309	21	3.3	21	76	7	70	20	4	57	18	1.57
3247262--3247322	18	3.1	18	75	24	68	26	4	54	14	1.61
3253726--3253774	22	2.2	22	92	0	80	28	30	20	20	1.98
3258826--3259013	42	4.5	42	78	5	191	44	15	21	18	1.86
3258830--3259012	63	2.9	63	77	0	197	45	15	21	18	1.85
3258843--3259004	84	1.9	84	87	0	234	43	16	21	19	1.88
3258829--3259009	21	8.6	21	74	0	119	44	15	21	18	1.87
3273330--3273399	15	4.6	15	72	10	52	40	2	1	55	1.23
3274432--3274474	18	2.4	18	88	0	59	41	41	4	11	1.62
3274567--3274629	9	6.9	9	85	1	81	23	11	22	42	1.85
3281880--3281919	20	2.1	20	90	9	66	82	0	17	0	0.67
3282789--3282842	25	2.3	24	81	9	67	37	3	7	51	1.48
3284087--3284129	14	3.1	13	75	18	50	23	2	2	72	1.08
3284543--3284582	21	1.9	21	89	0	62	67	5	2	25	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3284543--3284588	21	2.3	20	81	7	58	69	4	2	23	1.17
3296405--3296450	3	15.3	3	100	0	92	67	0	0	32	0.91
3304141--3304169	5	5.8	5	100	0	58	82	17	0	0	0.66
3310986--3311091	50	2.1	50	100	0	212	30	19	1	48	1.60
3317135--3317181	24	2.0	24	83	8	60	17	34	0	48	1.47
3321421--3321474	10	5.7	10	74	12	51	59	1	1	37	1.19
3322015--3322046	16	2.0	16	93	0	55	21	6	0	71	1.07
3322112--3322151	11	3.6	11	86	0	62	27	0	2	70	1.01
3322113--3322221	22	5.3	21	74	12	77	29	1	2	66	1.16
3322138--3322182	18	2.6	17	83	13	56	26	0	4	68	1.08
3322138--3322267	11	12.9	10	69	11	54	33	3	1	62	1.20
3322115--3322267	10	15.0	10	69	16	75	32	2	1	63	1.19
3322184--3322263	31	2.5	31	76	17	85	33	5	0	61	1.18
3322156--3322264	42	2.6	41	77	12	105	33	3	0	62	1.13
3329669--3329771	36	2.9	36	77	0	98	23	32	16	28	1.96
3330722--3330754	2	16.5	2	100	0	66	51	0	48	0	1.00
3331917--3331962	18	2.5	18	86	10	58	23	4	2	69	1.17
3331930--3331974	18	2.6	18	86	10	58	26	4	0	68	1.08
3331948--3332011	28	2.2	28	83	8	76	35	1	0	62	1.05
3337011--3337096	43	2.0	43	90	4	138	23	23	1	52	1.54
3346985--3347026	19	2.2	20	91	4	68	7	7	14	71	1.29
3346985--3347026	20	2.2	19	86	4	57	7	7	14	71	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3348367--3348432	31	2.1	31	100	0	132	39	13	0	46	1.43
3352296--3352321	11	2.4	11	100	0	52	38	7	0	53	1.30
3352318--3352380	10	6.4	10	70	29	55	23	1	0	74	0.90
3352322--3352353	16	2.0	16	100	0	64	25	0	0	75	0.81
3352271--3352391	40	3.0	39	82	10	156	31	3	0	65	1.09
3352329--3352407	29	2.7	29	84	11	115	26	2	0	70	0.99
3352271--3352392	41	3.0	41	81	13	164	31	3	0	65	1.09
3352271--3352413	27	5.2	28	73	16	122	32	2	0	65	1.07
3352584--3352640	29	1.9	30	89	3	89	38	0	42	19	1.51
3355637--3355678	17	2.6	16	85	7	57	30	2	0	66	1.04
3359399--3359446	12	4.1	11	81	7	51	52	6	35	6	1.52
3360422--3360458	18	2.2	18	85	9	51	70	2	0	27	1.01
3361033--3361078	18	2.3	21	71	21	53	52	0	8	39	1.33
3361718--3361756	13	2.9	13	85	14	53	53	0	0	46	1.00
3361857--3361905	15	3.5	15	68	21	52	53	0	4	42	1.20
3376607--3376668	32	1.9	32	93	6	108	46	0	16	37	1.47
3378173--3378244	32	2.3	32	95	2	128	37	13	16	31	1.88
3381818--3381893	16	4.8	16	79	8	84	63	0	1	35	1.03
3381809--3381883	29	2.6	29	81	8	100	61	0	1	37	1.05
3381820--3381881	30	2.1	30	93	3	108	64	0	1	33	1.03
3386361--3386708	174	2.0	175	86	2	486	40	22	14	22	1.90
3402243--3402397	45	3.5	44	81	7	161	33	26	15	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3403906--3403939	14	2.3	15	90	5	52	44	8	2	44	1.50
3408197--3408347	25	6.3	23	79	11	128	37	21	25	15	1.93
3408241--3408347	25	4.3	25	89	1	162	37	22	24	15	1.93
3409331--3409367	16	2.3	16	95	0	65	59	0	0	40	0.97
3409330--3409361	8	4.0	8	91	0	55	59	0	0	40	0.97
3411362--3411425	25	2.6	25	71	14	60	35	6	6	51	1.52
3413728--3413753	13	2.0	13	100	0	52	30	15	23	30	1.95
3413759--3413783	6	4.2	6	100	0	50	16	0	0	84	0.63
3424787--3424827	22	1.9	22	90	5	66	17	7	4	70	1.28
3424923--3424998	21	3.5	21	81	3	71	40	1	1	56	1.16
3424957--3424997	22	1.9	21	85	5	55	43	2	2	51	1.28
3425046--3425107	31	2.0	31	84	6	81	35	0	1	62	1.05
3425120--3425164	20	2.3	19	80	3	54	48	2	11	37	1.51
3425181--3425235	22	2.7	20	77	5	56	58	0	5	36	1.21
3428793--3428834	16	2.8	15	89	7	59	61	0	2	35	1.09
3428949--3429043	7	13.6	7	70	12	61	54	3	0	42	1.16
3428922--3429017	20	4.5	20	82	13	95	56	0	0	43	0.99
3428922--3429043	40	2.8	40	85	10	136	54	2	0	43	1.13
3428923--3429043	64	1.9	62	82	12	149	53	2	0	43	1.14
3435776--3435983	29	7.2	28	79	4	166	30	25	22	22	1.99
3435776--3435970	58	3.4	58	81	1	230	30	24	22	22	1.99
3435776--3435983	87	2.4	87	80	2	231	30	25	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3435824--3435881	17	3.7	17	67	21	54	27	27	24	20	1.99
3435971--3436048	34	2.3	35	84	2	95	29	25	20	24	1.99
3454391--3454424	2	17.0	2	100	0	68	50	0	50	0	1.00
3456943--3457086	68	2.1	68	100	0	288	48	16	2	31	1.61
3459623--3459726	36	2.9	35	80	8	93	24	18	17	40	1.91
3462425--3462515	44	2.1	44	85	0	119	46	12	10	30	1.76
3474198--3474271	18	4.0	18	77	17	80	56	0	1	41	1.07
3474189--3474294	11	10.3	11	71	21	70	55	0	2	41	1.14
3474229--3474314	42	2.0	42	84	4	111	59	0	3	37	1.15
3474326--3474354	10	2.9	10	100	0	58	0	31	62	6	1.22

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