genome.fa.s20.2.7.7.80.10.50.1000.179.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  179  of  189  ( 22580 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)
53157324--53157374	19	2.8	19	80	16	63	27	0	7	64	1.21
53158817--53158854	18	2.1	18	100	0	76	50	23	5	21	1.69
53160288--53160345	30	1.9	30	82	6	73	50	6	3	39	1.46
53162569--53162626	27	2.1	28	87	3	82	31	8	25	34	1.86
53167165--53167222	27	2.1	28	87	3	82	31	8	25	34	1.86
53168159--53168196	18	2.1	19	85	5	51	28	2	5	63	1.30
53170099--53170178	31	2.6	31	91	0	133	52	8	3	35	1.50
53179037--53179092	5	11.4	5	75	11	53	35	3	19	41	1.69
53180149--53180182	17	2.0	17	88	0	50	26	0	5	67	1.13
53187637--53187663	8	3.4	8	100	0	54	66	0	0	33	0.92
53189602--53190023	106	4.0	106	93	1	711	32	18	18	30	1.96
53198322--53198379	24	2.3	24	82	5	62	60	0	0	39	0.97
53198323--53198380	25	2.4	23	80	11	62	60	0	0	39	0.97
53198395--53198429	18	2.0	18	88	5	54	71	5	2	20	1.19
53198412--53198484	31	2.2	34	80	11	89	64	2	1	31	1.16
53198789--53198869	32	2.5	33	80	6	94	38	2	1	58	1.20
53199692--53199795	52	2.0	52	94	0	181	16	25	11	46	1.81
53201002--53201034	11	2.9	12	91	8	52	0	48	0	51	1.00
53201500--53201565	3	21.3	3	75	6	60	30	1	6	62	1.29
53201507--53201568	23	2.8	22	87	4	81	32	1	8	58	1.37
53201507--53201576	23	3.0	23	79	10	63	31	2	10	55	1.47
53205879--53205915	13	2.9	12	88	11	56	27	24	8	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53214138--53214250	56	2.0	56	87	3	165	28	17	25	28	1.98
53214194--53214867	71	9.4	72	79	13	641	28	16	21	32	1.95
53214268--53214862	143	4.1	142	81	12	666	29	17	21	32	1.95
53214592--53214827	72	3.1	78	80	15	276	27	16	21	34	1.95
53214543--53214825	154	1.9	149	86	7	408	28	17	21	31	1.96
53279194--53279242	3	16.3	3	91	0	71	2	4	30	63	1.24
53280324--53280373	24	2.1	24	100	0	100	48	16	8	28	1.74
53293443--53293605	85	1.9	85	97	0	308	44	17	14	22	1.85
53303807--53303870	24	2.7	24	85	0	65	17	39	6	37	1.75
53307810--53307855	7	6.9	7	83	11	53	73	0	17	8	1.07
53307810--53307862	26	2.0	26	92	7	90	73	0	18	7	1.06
53330125--53330207	38	2.2	38	83	8	109	38	22	2	36	1.68
53332244--53332319	23	3.3	23	96	0	143	31	26	21	21	1.98
53332406--53332434	8	3.6	8	100	0	58	34	27	13	24	1.93
53332539--53332577	18	2.2	17	86	13	53	46	20	0	33	1.51
53339560--53339635	23	3.3	23	96	0	143	31	26	21	21	1.98
53339722--53339750	8	3.6	8	100	0	58	34	27	13	24	1.93
53349340--53349383	4	11.0	4	100	0	88	25	0	25	50	1.50
53351080--53351127	26	1.9	24	87	8	69	52	2	0	45	1.12
53361382--53361411	4	7.5	4	100	0	60	26	23	23	26	2.00
53369803--53369832	16	1.9	16	93	6	53	36	0	0	63	0.95
53370643--53370708	20	3.5	19	76	15	75	43	1	0	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53371767--53372050	96	2.9	97	87	2	385	42	6	23	27	1.79
53372379--53372404	5	5.2	5	100	0	52	80	0	0	19	0.71
53384232--53384272	20	2.1	19	86	4	55	46	9	4	39	1.58
53387807--53387846	21	1.9	21	85	10	55	72	5	5	17	1.21
53388552--53388582	16	1.9	16	93	0	53	35	6	0	58	1.24
53394200--53394301	50	2.0	50	100	0	204	27	24	15	32	1.96
53395931--53396080	73	2.0	74	89	1	230	28	23	11	37	1.89
53400091--53400150	30	2.1	28	93	6	102	45	13	28	13	1.81
53401519--53401550	16	2.0	16	100	0	64	18	6	18	56	1.62
53402715--53402770	26	2.2	26	87	12	80	28	26	16	28	1.97
53405020--53405104	22	3.6	22	75	15	64	44	0	3	51	1.18
53405065--53405111	20	2.4	20	82	3	60	44	0	2	53	1.12
53422875--53422919	21	2.1	22	87	4	65	75	2	2	20	1.01
53422938--53422984	20	2.3	20	85	0	58	68	0	4	27	1.08
53423361--53423640	87	3.2	88	85	4	352	33	8	17	40	1.80
53423714--53423752	20	2.0	20	85	10	53	64	0	0	35	0.94
53428374--53428406	16	2.1	16	94	0	57	66	0	0	33	0.92
53441706--53441767	32	1.9	32	100	0	124	66	16	3	14	1.38
53449354--53449396	21	2.2	19	83	8	50	67	2	0	30	1.03
53450003--53450042	18	2.2	18	86	8	55	65	10	0	25	1.24
53450187--53450229	22	2.0	22	81	9	52	58	11	11	18	1.63
53450487--53450525	18	2.2	18	85	0	51	35	5	0	58	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53460117--53460172	27	2.1	27	100	0	112	25	14	23	37	1.92
53461997--53462086	31	2.7	33	78	15	87	46	1	0	52	1.07
53462104--53462139	19	2.0	19	89	10	58	58	5	0	36	1.22
53466866--53466896	16	1.9	16	93	0	53	48	6	6	38	1.55
53467809--53467845	19	1.9	19	88	0	56	48	2	2	45	1.30
53474020--53474058	18	2.2	18	85	0	51	46	10	17	25	1.80
53476361--53476393	16	2.1	16	88	5	50	27	0	0	72	0.85
53476607--53476659	26	2.1	26	85	3	72	28	1	1	67	1.11
53487435--53487527	42	2.2	42	82	1	105	25	19	26	27	1.99
53487435--53487635	43	4.7	43	74	6	160	25	19	25	29	1.99
53488118--53488159	20	2.0	21	90	9	68	33	0	4	61	1.17
53488508--53488545	18	2.1	18	90	9	60	42	0	5	52	1.24
53488518--53488552	18	1.9	18	88	0	52	37	0	8	54	1.31
53489703--53489759	5	11.2	5	83	16	73	40	0	0	59	0.97
53489772--53489867	40	2.3	40	89	3	147	63	8	28	0	1.23
53491119--53491223	24	4.4	24	84	7	126	16	20	20	41	1.90
53491119--53491224	49	2.2	49	83	8	130	16	20	20	42	1.89
53493147--53493359	116	1.8	117	92	3	367	32	24	15	26	1.96
53493587--53493799	116	1.8	117	92	3	367	32	24	15	26	1.96
53493123--53494003	440	2.0	440	100	0	1762	31	21	15	31	1.94
53494601--53494698	33	2.9	35	73	19	91	50	0	3	46	1.17
53499855--53499903	14	3.6	14	81	13	66	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53500211--53500263	24	2.1	25	82	10	63	52	7	0	39	1.30
53501657--53501722	22	3.0	23	73	20	68	43	0	1	54	1.09
53501691--53501736	19	2.3	21	78	10	53	39	0	2	58	1.10
53502897--53502961	31	2.1	31	83	8	80	24	7	20	47	1.76
53506624--53506679	17	3.1	19	74	7	55	39	1	1	57	1.20
53507196--53507407	106	2.0	103	96	2	388	31	25	8	34	1.85
53509868--53509910	18	2.4	19	80	11	54	44	0	2	53	1.13
53517343--53517440	35	2.9	34	79	11	105	50	0	4	45	1.20
53517368--53517428	24	2.5	23	80	15	61	45	0	4	49	1.23
53517839--53517879	12	3.5	12	81	15	50	73	7	19	0	1.07
53518875--53518960	39	2.3	38	81	4	102	22	17	18	41	1.90
53518918--53519051	45	3.0	46	82	4	173	23	16	17	42	1.89
53519034--53519074	6	6.7	6	83	5	55	17	19	17	46	1.85
53527186--53527214	15	1.9	15	100	0	58	51	0	13	34	1.42
53532564--53532602	18	2.2	17	86	13	53	33	0	20	46	1.51
53541418--53541461	13	3.2	13	79	17	52	36	13	4	45	1.64
53549293--53549327	12	2.9	12	86	0	52	22	8	2	65	1.34
53549326--53549363	8	4.8	8	87	6	51	15	2	0	81	0.80
53556126--53556176	26	2.0	26	92	0	84	15	19	33	31	1.93
53559517--53559672	13	11.8	13	71	8	109	45	4	8	41	1.56
53559534--53559619	27	3.2	26	74	9	84	47	5	8	38	1.57
53559499--53559648	53	2.8	53	90	0	237	44	4	10	40	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53559561--53559699	66	2.1	66	80	0	152	43	3	10	41	1.57
53559827--53559881	20	2.9	19	86	10	69	58	1	0	40	1.09
53562181--53562222	15	2.9	15	82	10	52	52	0	0	47	1.00
53562172--53562436	120	2.2	120	96	1	487	48	6	1	43	1.38
53562312--53562346	18	2.0	17	88	5	52	54	0	0	45	0.99
53562210--53562393	59	3.1	59	66	22	157	47	7	1	42	1.41
53562220--53562407	61	3.1	61	68	14	181	47	7	2	42	1.44
53562543--53562708	37	4.7	36	70	18	143	49	4	1	43	1.34
53571335--53571389	16	3.7	15	78	14	60	32	3	16	47	1.64
53571328--53571389	29	2.1	29	93	0	106	33	3	16	46	1.63

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