genome.fa.s23.2.7.7.80.10.50.1000.180.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_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   215   216   217   218   

This is table  180  of  218  ( 26060 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)
54132939--54132978	21	1.9	21	94	0	71	22	30	20	27	1.98
54134609--54134666	6	9.7	6	96	0	107	32	1	17	48	1.57
54135800--54135877	28	2.8	28	100	0	156	38	16	10	34	1.83
54135799--54135887	28	3.2	28	93	0	142	35	16	12	34	1.87
54137533--54137586	28	2.0	25	89	10	81	27	11	5	55	1.57
54138503--54138531	13	2.2	13	100	0	58	34	31	24	10	1.89
54138772--54138835	11	5.7	11	80	9	67	21	28	1	48	1.59
54139980--54140005	7	3.7	7	100	0	52	26	0	15	57	1.38
54140502--54140576	30	2.5	30	76	6	80	32	40	16	12	1.84
54140653--54140695	18	2.4	19	84	7	54	20	30	9	39	1.84
54141208--54141257	21	2.4	21	89	0	82	44	30	0	26	1.55
54141309--54141391	22	3.5	25	79	16	81	44	32	2	20	1.64
54141318--54141407	21	4.2	21	90	2	135	44	32	2	21	1.64
54141318--54141407	43	2.1	42	91	2	144	44	32	2	21	1.64
54150861--54150905	23	2.0	23	82	8	56	51	2	2	44	1.26
54150855--54150942	32	2.8	31	81	6	88	51	1	4	43	1.29
54155664--54155740	36	2.1	36	82	0	91	37	3	9	49	1.53
54157613--54157664	10	5.3	10	80	11	54	67	0	30	1	1.02
54158944--54159154	105	2.0	105	100	0	422	19	19	13	46	1.83
54165129--54165237	39	2.8	39	90	1	164	37	14	24	22	1.92
54167843--54167867	10	2.5	10	100	0	50	20	0	8	72	1.10
54176654--54176696	21	2.0	22	82	8	54	25	0	23	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54181179--54181220	15	2.9	15	82	10	52	52	0	0	47	1.00
54181285--54181331	16	3.0	16	78	12	53	51	2	0	46	1.13
54181406--54181451	16	2.9	16	78	12	51	52	2	0	45	1.13
54181406--54181460	15	3.7	15	79	13	53	52	1	0	45	1.11
54181208--54181511	57	5.1	58	65	24	184	48	6	2	42	1.41
54181218--54181525	61	5.1	61	67	14	235	48	6	2	41	1.43
54181170--54181564	120	3.3	120	96	0	720	49	5	2	43	1.38
54187298--54187373	23	3.3	23	90	0	125	30	27	21	21	1.98
54193943--54194064	23	5.3	23	88	0	190	31	27	20	21	1.98
54196359--54196442	36	2.3	36	83	2	96	42	16	4	35	1.69
54196648--54196767	43	2.8	43	81	12	147	30	28	20	21	1.98
54199227--54199432	43	4.8	43	86	1	162	29	30	18	21	1.97
54199248--54199432	86	2.2	86	86	0	262	30	31	18	19	1.96
54199633--54199692	18	3.4	18	64	13	52	40	10	6	43	1.64
54204922--54204946	13	1.9	13	100	0	50	32	8	4	56	1.47
54205427--54205471	7	6.4	7	78	0	54	33	44	0	22	1.53
54205427--54205471	14	3.2	14	90	0	63	33	44	0	22	1.53
54205427--54205471	21	2.1	21	88	8	65	33	44	0	22	1.53
54205778--54205814	14	2.6	14	91	0	65	45	29	0	24	1.53
54206183--54206262	41	2.0	40	90	9	126	28	31	23	16	1.96
54206303--54206432	40	3.3	39	80	5	127	21	20	21	36	1.96
54206438--54206463	12	2.2	12	100	0	52	46	30	15	7	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54211423--54211464	16	2.8	15	78	7	50	11	4	33	50	1.60
54211700--54212473	126	6.2	126	87	1	953	38	15	17	28	1.90
54211700--54212470	251	3.1	250	85	2	972	38	15	17	28	1.90
54211700--54212473	377	2.1	377	84	1	1016	38	15	17	28	1.90
54213857--54213882	12	2.2	12	100	0	52	7	15	30	46	1.74
54213888--54213982	40	2.4	39	82	6	120	35	23	21	20	1.96
54214457--54214493	14	2.6	14	91	0	65	24	0	29	45	1.53
54214795--54214840	14	3.3	14	84	0	56	23	0	45	30	1.53
54215319--54215343	13	1.9	13	100	0	50	56	4	8	32	1.47
54238694--54238729	6	6.3	6	96	3	58	0	11	0	88	0.50
54241837--54241876	22	1.9	21	85	10	55	62	0	0	37	0.95
54252060--54252100	21	2.0	21	85	9	57	43	17	0	39	1.49
54254956--54255067	55	2.0	55	94	0	197	47	15	1	35	1.56
54258588--54258641	28	1.9	28	81	7	65	46	1	3	48	1.30
54258683--54258767	44	1.9	44	95	0	152	51	10	5	31	1.60
54259472--54259503	13	2.5	13	94	0	55	18	28	3	50	1.62
54259497--54259521	13	1.9	13	100	0	50	44	24	0	32	1.54
54262423--54262455	17	1.9	17	100	0	66	30	12	27	30	1.92
54265559--54265610	22	2.3	23	80	9	63	13	11	9	65	1.47
54266832--54266876	21	2.2	21	84	11	58	44	0	2	53	1.13
54275099--54275133	15	2.3	15	90	0	52	37	37	2	22	1.69
54275139--54275187	22	2.2	22	81	0	62	30	38	6	24	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54275202--54275248	15	3.3	15	79	8	53	38	31	0	29	1.58
54275518--54275559	14	2.9	14	86	6	57	35	35	0	28	1.58
54275514--54275560	15	3.3	15	85	8	62	40	31	0	27	1.57
54275035--54275633	312	1.9	314	89	3	922	42	26	2	28	1.68
54275926--54276065	41	3.4	41	82	1	165	30	29	20	20	1.97
54278814--54278857	22	2.0	22	86	8	63	40	9	11	38	1.73
54279221--54279260	16	2.6	15	85	14	55	0	25	0	75	0.81
54279272--54279326	26	2.2	26	84	9	71	10	21	45	21	1.82
54279726--54279782	20	2.8	20	81	5	62	1	35	0	63	1.05
54280015--54280137	29	4.2	29	81	4	149	39	4	20	35	1.74
54280337--54281588	74	16.6	76	82	12	729	36	19	15	28	1.93
54280336--54281606	77	16.9	75	85	8	1599	36	19	15	27	1.93
54282481--54282522	9	4.6	9	77	16	50	2	2	9	85	0.77
54282466--54282529	11	5.5	11	78	14	67	1	4	9	84	0.83
54293865--54293907	21	2.0	20	86	8	59	41	9	11	37	1.74
54294265--54294331	7	9.9	7	74	16	61	1	17	0	80	0.79
54294265--54294331	13	4.9	14	71	18	61	1	17	0	80	0.79
54294378--54294408	13	2.3	14	94	5	55	6	32	38	22	1.80
54294784--54294842	20	3.0	20	81	13	70	0	35	0	64	0.94
54295077--54295200	29	4.2	29	78	5	124	41	1	17	38	1.59
54295077--54295200	59	2.1	59	84	3	160	41	1	17	38	1.59
54299387--54299414	7	4.0	7	100	0	56	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54302058--54302121	19	3.3	18	75	20	58	57	1	3	37	1.24
54302056--54302121	20	3.3	20	79	12	64	57	1	3	37	1.23
54302234--54302306	19	3.8	18	76	18	67	64	1	2	31	1.16
54302234--54302309	20	3.9	20	75	11	77	63	1	2	32	1.17
54302234--54302309	11	7.7	10	71	16	61	63	1	2	32	1.17
54302333--54302384	19	2.7	20	85	8	72	40	0	0	59	0.97
54303440--54303502	28	2.2	29	83	11	85	22	1	14	61	1.41
54303457--54303501	13	3.3	13	76	11	54	20	0	15	64	1.29
54305852--54305903	24	2.2	24	82	0	59	55	9	3	30	1.50
54307279--54307321	12	3.5	12	81	15	52	48	2	11	37	1.52
54308672--54308728	20	3.0	18	78	12	51	54	1	3	40	1.28
54309248--54309291	10	4.2	10	85	8	52	25	2	0	72	0.96
54309248--54309283	10	3.6	10	88	0	54	22	2	0	75	0.94
54309238--54309295	20	3.0	20	74	20	59	29	1	0	68	0.99
54309269--54309310	20	2.2	19	86	4	57	35	2	2	59	1.23
54311943--54312009	26	2.6	26	85	0	80	16	14	35	32	1.90
54313155--54313255	29	3.5	29	75	5	105	19	36	23	19	1.95
54316101--54316156	3	18.7	3	100	0	112	67	0	0	32	0.91
54316456--54316515	31	1.9	31	96	0	111	43	18	8	30	1.79
54322056--54322085	12	2.5	12	88	0	51	0	13	16	70	1.18
54327528--54327796	41	6.6	41	86	1	360	22	28	20	28	1.98
54330632--54330674	21	2.0	21	95	0	77	34	11	13	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54335026--54335089	27	2.4	27	86	5	85	32	18	18	29	1.95
54342985--54343012	13	2.2	13	100	0	56	39	14	7	39	1.73
54344644--54344914	41	6.6	41	92	0	434	29	18	26	25	1.98
54363052--54363232	90	2.0	90	100	0	362	29	14	15	39	1.88
54365522--54365566	24	2.0	22	82	8	54	60	2	6	31	1.35
54374257--54374294	19	2.0	20	89	5	60	36	5	21	36	1.76
54378781--54378815	15	2.3	15	95	0	61	60	20	5	14	1.54
54379146--54379271	63	2.0	63	85	1	171	48	15	6	30	1.69
54379191--54379271	32	2.6	32	71	9	76	48	16	4	30	1.67
54379146--54379236	31	2.8	33	67	14	82	51	14	6	27	1.66

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   215   216   217   218