genome.fa.s20.2.7.7.80.10.50.1000.163.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  163  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)
48896222--48896250	15	1.9	15	100	0	58	27	0	13	58	1.36
48896937--48896973	3	12.3	3	100	0	74	32	0	0	67	0.91
48908516--48908550	16	2.2	16	100	0	70	37	11	0	51	1.38
48915755--48915832	20	3.9	19	76	14	68	39	21	29	8	1.84
48924910--48924947	12	3.2	12	85	3	51	23	2	5	68	1.23
48926563--48926666	44	2.3	45	93	3	183	45	28	2	23	1.67
48930333--48930469	20	7.3	20	61	14	67	32	6	11	48	1.65
48930337--48930485	37	4.0	37	96	0	253	33	6	12	46	1.68
48930379--48930476	17	5.4	17	64	13	52	31	4	13	51	1.60
48934188--48934224	16	2.4	16	90	4	58	43	13	0	43	1.44
48934406--48934433	12	2.3	12	100	0	56	35	17	0	46	1.49
48942980--48943016	12	3.1	12	84	0	56	21	24	21	32	1.98
48946679--48946706	7	4.0	7	100	0	56	28	42	0	28	1.56
48946894--48946959	31	2.1	31	86	5	89	39	13	7	39	1.73
48948272--48948313	22	2.0	21	90	9	68	57	0	0	42	0.99
48954434--48954483	21	2.3	22	82	3	57	56	6	4	34	1.43
48954435--48954477	13	3.1	14	87	9	54	60	4	2	32	1.30
48954824--48954857	5	6.8	5	93	0	50	47	0	11	41	1.40
48954813--48954858	15	3.1	15	81	3	58	47	0	8	43	1.34
48954342--48955316	501	2.0	496	83	7	1239	45	7	10	37	1.66
48954883--48955460	229	2.5	236	83	6	710	43	8	10	37	1.70
48957464--48957489	13	2.0	13	100	0	52	30	30	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48965198--48965271	9	8.2	9	75	8	62	28	9	24	37	1.86
48965198--48965267	18	3.9	18	79	7	79	27	10	25	37	1.88
48970122--48970168	18	2.4	20	75	17	53	46	4	6	42	1.48
48970310--48970363	25	2.0	26	86	10	74	40	5	5	48	1.50
48970717--48970754	15	2.5	15	86	0	58	47	2	0	50	1.15
48970781--48970814	13	2.5	14	95	4	61	35	0	0	64	0.94
48970947--48970977	6	5.2	6	100	0	62	80	0	0	19	0.71
48971342--48971542	91	2.2	89	83	3	233	36	18	8	36	1.82
48971695--48971744	26	1.9	26	88	8	75	58	2	2	38	1.21
48971712--48971788	34	2.2	34	80	13	86	61	2	2	33	1.24
48972064--48972107	19	2.2	20	88	4	63	29	6	0	63	1.20
48972064--48972201	9	14.4	9	67	19	57	32	4	1	61	1.24
48974713--48974763	11	4.7	11	79	13	61	39	0	0	60	0.97
48974713--48974788	32	2.5	30	84	4	89	39	0	1	59	1.06
48977547--48977594	23	2.1	23	84	0	60	33	20	27	18	1.96
48977731--48977791	25	2.4	25	76	10	70	44	19	21	14	1.86
48978127--48978165	5	7.6	5	82	5	51	41	17	0	41	1.50
48985225--48985297	24	3.1	23	80	7	83	39	19	23	17	1.92
48985322--48985369	23	2.1	23	84	0	60	37	20	25	16	1.93
48987745--48987861	62	1.9	60	82	5	146	51	4	2	41	1.35
48988677--48988768	45	2.0	45	100	0	184	32	20	13	33	1.91
48989834--48989890	15	3.9	14	77	15	53	33	1	0	64	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48989824--48989872	22	2.3	21	80	10	55	30	4	0	65	1.11
49008325--49008422	42	2.3	44	84	7	130	36	24	13	25	1.92
49022418--49022479	13	4.8	13	78	4	54	27	16	25	30	1.96
49042641--49042695	19	2.9	19	77	0	65	40	0	0	60	0.97
49048601--49048637	16	2.3	16	86	13	58	40	0	0	59	0.97
49048660--49048706	16	2.9	16	84	6	51	51	0	2	46	1.13
49048651--49048710	28	2.1	29	87	9	88	51	0	1	46	1.10
49048657--49048707	13	3.5	15	78	13	61	50	0	1	47	1.12
49048686--49048739	22	2.5	22	84	6	65	40	0	1	57	1.09
49052295--49052343	22	2.2	23	88	3	73	32	0	4	63	1.13
49064441--49064642	60	3.4	60	77	6	198	38	26	12	22	1.90
49068121--49068150	11	2.6	11	94	5	51	46	0	3	50	1.18
49068167--49068192	11	2.4	11	100	0	52	53	0	7	38	1.30
49084650--49084701	27	1.9	27	100	0	104	25	21	38	15	1.92
49085059--49085115	26	2.2	26	80	3	60	50	3	1	43	1.29
49087997--49088036	21	2.0	21	90	5	64	50	2	0	47	1.14
49088013--49088055	5	8.8	5	84	5	52	53	0	0	46	1.00
49090130--49090176	3	16.0	3	82	4	60	31	4	2	61	1.27
49097942--49097982	21	2.0	21	90	0	64	19	29	21	29	1.98
49105629--49105858	99	2.4	97	85	4	302	29	22	20	27	1.99
49106535--49106602	31	2.2	31	82	10	77	66	7	0	26	1.18
49106912--49106959	26	1.9	25	87	8	71	35	18	4	41	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49109253--49109294	20	2.1	20	86	0	57	47	0	4	47	1.23
49116351--49116428	38	2.1	38	95	0	138	60	11	14	14	1.60
49123032--49123100	26	2.7	26	90	0	102	27	24	8	39	1.85
49126774--49126806	14	2.4	14	94	0	57	42	18	0	39	1.50
49152307--49152340	18	1.9	18	88	5	52	14	17	0	67	1.23
49152709--49152743	18	2.0	17	94	5	61	42	0	0	57	0.99
49152859--49152893	16	2.2	16	100	0	70	62	11	5	20	1.48
49154442--49154476	17	2.0	18	88	5	54	17	37	25	20	1.94
49155137--49155176	6	6.7	6	88	11	64	82	0	2	15	0.77
49163059--49163084	2	13.0	2	100	0	52	50	0	50	0	1.00
49164952--49165013	18	3.6	18	77	12	67	37	0	4	58	1.20
49170883--49170916	17	2.0	17	88	0	50	35	0	29	35	1.58
49178199--49178402	98	2.1	98	92	0	338	46	11	5	36	1.64
49179382--49179419	19	2.0	19	85	10	51	52	0	2	44	1.14
49181731--49181767	16	2.4	16	90	4	58	8	0	18	72	1.08
49182335--49182368	13	2.5	14	90	4	52	44	0	5	50	1.26
49187482--49187606	62	2.0	62	95	0	223	34	22	15	28	1.94
49195134--49195162	6	4.8	6	100	0	58	65	17	0	17	1.27
49195252--49195278	9	3.0	9	100	0	54	22	11	22	44	1.84
49196947--49196997	25	2.1	24	85	3	66	33	3	0	62	1.13
49197923--49198007	9	9.4	9	70	19	61	65	2	1	30	1.12
49197957--49198007	17	2.9	18	74	8	52	66	1	1	29	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49197923--49198045	19	6.7	19	70	16	57	63	3	0	32	1.16
49198224--49198267	18	2.4	19	88	11	65	68	2	0	29	1.02
49202194--49202232	5	7.8	5	97	0	69	20	0	35	43	1.52
49204469--49204517	3	16.3	3	79	8	55	63	2	2	32	1.17
49205521--49205692	50	3.5	48	71	6	157	20	25	25	29	1.99
49205458--49205743	97	2.9	97	86	4	362	22	24	24	27	2.00
49205579--49205742	50	3.3	49	74	8	165	21	26	24	28	1.99
49205835--49205958	50	2.5	50	87	0	176	27	26	20	25	1.99
49205993--49206471	88	5.4	88	93	1	764	24	26	21	27	1.99
49207771--49207804	17	1.9	18	94	5	61	11	14	0	73	1.10
49207793--49207817	13	1.9	13	100	0	50	12	8	0	80	0.92
49208312--49208392	11	7.1	11	76	9	56	2	8	8	80	1.00
49208348--49208391	17	2.7	16	85	3	61	4	2	9	84	0.85
49208313--49208391	12	6.7	11	77	13	52	2	8	6	82	0.93
49209171--49209201	15	2.1	15	100	0	62	61	6	0	32	1.21
49214326--49214366	21	2.0	21	100	0	82	56	0	4	39	1.21
49214508--49214559	3	17.3	3	80	7	61	63	1	1	32	1.16
49216521--49216554	15	2.3	15	94	0	59	67	0	2	29	1.05
49217149--49217199	22	2.3	22	89	0	84	7	47	41	3	1.51
49217341--49217380	13	3.0	13	85	7	53	77	0	2	20	0.88
49217795--49217837	20	2.1	21	87	8	63	16	2	23	58	1.50
49218160--49218454	46	6.2	46	79	9	295	28	23	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49218160--49218410	97	2.6	95	91	2	385	27	23	19	29	1.98
49218160--49218454	97	3.1	94	86	5	317	28	23	18	29	1.98
49229765--49229806	22	1.9	22	90	9	68	59	7	9	23	1.53
49230602--49230644	20	2.1	21	87	8	63	18	4	20	55	1.60
49232766--49232813	20	2.3	20	82	3	60	27	16	22	33	1.96
49232766--49232804	21	1.9	21	89	5	62	28	17	20	33	1.96
49236655--49236851	43	4.6	43	86	6	249	28	25	16	29	1.97
49236655--49236851	84	2.3	86	85	3	256	28	25	16	29	1.97
49237196--49237544	68	5.1	68	90	0	491	41	15	13	29	1.86
49250390--49250427	19	2.0	20	84	5	51	71	5	18	5	1.25

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