genome.fa.s25.2.7.7.80.10.50.1000.158.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  158  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)
46395034--46395089	7	8.0	7	77	15	62	14	17	0	67	1.22
46395043--46395089	13	3.4	13	85	8	58	12	17	0	70	1.17
46395034--46395079	20	2.2	21	92	3	76	13	17	0	69	1.19
46400019--46400043	7	3.6	7	100	0	50	56	0	12	32	1.36
46400660--46400716	20	2.9	19	77	15	53	68	3	12	15	1.34
46404616--46404746	40	3.3	40	81	5	124	32	16	22	27	1.96
46404632--46404747	40	2.9	40	84	1	126	34	18	20	26	1.96
46404793--46404903	41	2.7	41	90	5	172	18	18	32	29	1.96
46405422--46405463	21	2.0	21	85	0	57	21	4	19	54	1.62
46406824--46407068	122	2.0	122	92	1	411	32	21	16	29	1.95
46408906--46408992	42	2.1	42	82	2	104	27	13	26	32	1.94
46408920--46409139	43	5.2	43	80	1	219	26	17	28	27	1.98
46408960--46409139	85	2.1	85	81	1	207	26	18	28	26	1.98
46413926--46413977	22	2.4	22	83	6	70	57	19	15	7	1.62
46414895--46414978	38	2.2	38	76	0	87	61	0	1	36	1.04
46414973--46415001	6	4.8	6	100	0	58	82	0	0	17	0.66
46415594--46415663	28	2.6	25	74	22	63	48	1	1	48	1.19
46420239--46420281	22	2.0	22	85	0	59	18	11	13	55	1.68
46420612--46420703	19	4.8	19	91	0	157	38	10	15	35	1.82
46421764--46421958	98	2.0	98	93	0	336	28	10	24	36	1.88
46425488--46425522	13	2.8	12	87	12	52	88	8	0	2	0.61
46426772--46427604	44	18.9	44	66	7	184	27	17	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46426772--46427691	132	7.0	132	89	1	1380	27	17	24	30	1.97
46426894--46427542	88	7.4	89	64	10	240	28	17	24	29	1.97
46427523--46427716	44	4.4	44	70	15	114	27	15	25	30	1.96
46427920--46428011	19	4.8	19	91	0	157	38	10	15	35	1.82
46429072--46429263	98	2.0	98	96	0	357	27	10	23	37	1.89
46440840--46440885	24	1.9	24	90	0	74	41	17	21	19	1.90
46440929--46440988	26	2.3	25	86	8	84	36	21	26	15	1.93
46445839--46445881	19	2.4	18	80	7	52	72	16	2	9	1.21
46446566--46446606	21	2.0	21	85	0	55	36	17	2	43	1.62
46452754--46452821	20	3.3	20	82	11	93	45	10	8	35	1.69
46452765--46452832	21	3.3	21	84	12	104	47	11	5	35	1.65
46452754--46452832	41	1.9	41	94	0	140	45	11	7	35	1.69
46455657--46455753	40	2.4	40	100	0	194	28	20	21	28	1.98
46457647--46458840	397	3.0	397	98	0	2325	31	22	17	28	1.96
46462502--46462529	3	9.3	3	100	0	56	32	0	0	67	0.91
46467506--46467539	15	2.4	14	90	5	50	82	0	2	14	0.79
46475382--46475501	46	2.6	45	83	7	143	32	20	7	40	1.80
46475504--46475562	27	2.1	28	96	3	111	33	23	3	38	1.72
46481686--46481719	17	1.9	18	88	5	52	23	2	0	73	0.97
46482046--46482090	21	2.0	23	83	8	58	28	2	4	64	1.25
46484468--46484585	41	2.9	41	81	11	168	22	16	24	36	1.94
46485503--46485560	22	2.7	21	83	2	71	20	0	41	37	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46485495--46485559	15	4.5	14	82	5	67	20	0	43	36	1.52
46485475--46485560	7	12.0	7	71	14	59	20	0	41	37	1.53
46486847--46486893	23	2.0	23	88	8	69	0	27	0	72	0.85
46488821--46488850	15	2.1	14	93	6	51	63	0	0	36	0.95
46498760--46498851	23	4.0	22	76	16	69	53	2	2	42	1.25
46498947--46498993	25	1.9	25	86	4	69	42	4	0	53	1.20
46499131--46499199	14	5.1	14	71	23	58	37	1	0	60	1.06
46499132--46499199	20	3.3	20	78	13	68	38	1	0	60	1.06
46500509--46500541	7	4.7	7	96	0	57	12	33	30	24	1.91
46517546--46517640	50	1.9	49	89	2	145	28	25	17	28	1.98
46532298--46532331	2	17.0	2	93	0	59	0	2	50	47	1.16
46536769--46536871	43	2.4	41	87	9	143	47	12	5	33	1.65
46541101--46541206	53	2.0	53	88	3	160	42	15	8	33	1.77
46545842--46545958	62	1.9	61	84	5	157	47	4	4	43	1.42
46549800--46549891	18	4.9	18	73	13	62	61	5	3	29	1.34
46551358--46551392	17	2.0	18	88	5	54	57	2	0	40	1.14
46553427--46553505	21	3.9	21	88	3	108	15	25	16	43	1.87
46553423--46553505	42	2.0	40	88	4	121	16	25	15	42	1.88
46555972--46556027	29	1.9	29	85	7	78	8	21	10	58	1.58
46556049--46556134	3	29.7	3	72	19	67	33	4	0	61	1.17
46559614--46559654	18	2.2	20	86	8	59	17	2	12	68	1.31
46559613--46559657	17	2.4	19	82	13	58	17	2	13	66	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46559614--46559663	20	2.6	19	81	12	50	18	4	12	66	1.39
46560863--46560921	22	2.7	21	72	15	57	32	1	5	61	1.28
46562439--46562489	21	2.4	21	86	0	75	27	7	33	31	1.85
46567852--46567891	20	2.1	20	86	9	57	32	12	2	52	1.52
46577382--46577642	132	2.0	132	86	1	371	38	22	10	28	1.87
46581858--46581905	21	2.3	20	83	13	62	0	35	2	62	1.07
46584764--46584879	41	2.8	41	96	1	205	30	24	19	25	1.98
46592305--46592419	41	2.8	41	97	2	214	29	24	20	26	1.99
46597319--46597481	62	2.6	62	75	6	159	23	26	23	25	2.00
46610934--46610972	9	4.3	9	90	0	51	71	0	0	28	0.86
46610945--46610970	3	8.7	3	100	0	52	69	0	0	30	0.89
46614272--46614319	24	2.0	25	84	12	64	41	18	20	18	1.90
46615211--46615261	24	2.1	24	92	0	84	41	21	23	13	1.89
46615224--46615269	24	1.9	24	90	0	74	43	19	26	10	1.84
46615305--46615352	25	1.9	25	91	0	78	35	22	25	16	1.95
46616700--46616980	124	2.3	125	83	4	354	28	15	23	32	1.95
46620182--46621618	61	23.9	60	77	16	1191	28	0	22	48	1.52
46620342--46620407	23	2.8	23	90	2	96	28	0	22	48	1.51
46620146--46621628	117	12.4	118	83	11	1249	28	0	22	48	1.52
46620182--46621630	94	16.1	88	79	15	1306	28	0	22	48	1.52
46620703--46620907	28	7.0	26	79	13	108	27	0	24	47	1.52
46620828--46620899	23	2.8	25	83	10	85	30	0	25	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46621013--46621111	23	3.9	23	74	23	72	29	0	23	47	1.52
46621247--46621307	29	2.3	25	75	20	61	26	0	26	47	1.52
46621355--46621410	23	2.4	23	100	0	112	26	0	26	46	1.53
46621472--46621527	23	2.4	23	96	0	103	25	0	26	48	1.52
46620164--46621621	33	48.2	33	76	17	1211	28	0	22	48	1.52
46621576--46621655	23	3.4	24	79	6	83	30	1	23	45	1.61
46623995--46624035	22	1.9	22	90	5	66	34	0	34	31	1.58
46624007--46624065	30	2.0	30	89	0	91	33	0	33	32	1.58
46624037--46624104	22	3.1	21	83	8	82	39	0	27	32	1.57
46629408--46629455	23	2.0	25	88	12	73	33	2	0	64	1.05
46629409--46629460	24	2.2	22	83	16	61	34	1	0	63	1.06
46635196--46635254	30	2.0	30	86	0	82	37	8	25	28	1.85
46635704--46635801	23	4.3	23	90	0	151	21	20	24	33	1.97
46635703--46635801	46	2.2	46	94	0	171	22	20	24	33	1.97
46635931--46636003	38	1.9	38	89	8	114	46	1	20	31	1.59
46648876--46648923	26	1.9	24	84	16	62	75	0	10	14	1.06
46654762--46654804	21	2.0	21	86	9	59	30	9	20	39	1.84
46658698--46658737	20	2.0	20	85	9	55	35	10	12	42	1.76
46665011--46665038	12	2.3	12	100	0	56	42	28	21	7	1.79
46669991--46670098	37	2.7	39	76	15	114	34	22	16	26	1.95
46671000--46671178	51	3.5	51	91	0	288	29	24	15	31	1.95
46673656--46673725	33	2.2	32	82	12	83	47	2	2	47	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46676742--46676787	16	2.9	16	78	12	51	45	0	2	52	1.13
46676613--46677025	120	3.5	120	94	2	701	42	2	5	49	1.37
46676661--46676955	59	4.8	65	66	21	197	42	2	6	48	1.42
46676836--46676883	18	2.8	18	74	22	50	43	0	0	56	0.99
46676836--46676907	16	4.5	16	72	19	53	44	0	1	54	1.08
46676682--46676985	57	5.1	57	65	26	166	42	2	5	49	1.39
46676982--46677023	15	2.7	16	82	14	52	45	0	2	52	1.13
46676973--46677014	15	2.9	15	82	10	52	47	0	0	52	1.00
46689579--46689610	8	3.9	8	92	8	55	12	0	0	87	0.54
46689579--46689623	9	5.1	9	89	2	56	17	0	0	82	0.68

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