genome.fa.s20.2.7.7.80.10.50.1000.71.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  71  of  199  ( 23844 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)
19974480--19974549	33	2.1	34	81	7	81	25	22	20	31	1.98
19978609--19978646	6	5.9	7	90	9	55	15	26	0	57	1.38
19978609--19978647	20	2.0	20	90	9	64	15	25	0	58	1.37
19979942--19980002	27	2.3	27	83	13	81	27	26	19	26	1.99
19979941--19980044	54	1.9	53	81	9	122	25	25	19	29	1.98
19979954--19980229	27	10.3	27	72	10	154	27	23	18	31	1.97
19979957--19980164	26	7.7	28	74	12	125	28	24	16	30	1.96
19979969--19980198	52	4.3	53	73	11	173	27	22	18	31	1.97
19990223--19990262	17	2.3	17	95	4	71	45	5	5	45	1.47
19995659--19995750	40	2.3	41	86	1	123	13	20	27	39	1.89
19995786--19995996	110	1.9	109	84	2	280	22	20	26	30	1.98
19998737--19998778	13	2.9	14	80	13	50	45	2	0	52	1.13
19998863--19998888	10	2.6	10	100	0	52	42	0	0	57	0.98
19999110--19999136	14	1.9	14	100	0	54	37	25	0	37	1.57
20001985--20002028	9	4.9	9	81	10	54	43	0	31	25	1.55
20006496--20006617	11	11.6	11	71	20	75	59	1	3	36	1.24
20006506--20006539	17	2.0	17	88	0	50	64	0	0	35	0.94
20006476--20006617	51	2.7	51	76	10	153	61	2	2	33	1.22
20006523--20006573	23	2.3	22	93	3	84	62	1	1	33	1.17
20006470--20006603	40	3.2	40	80	10	121	60	2	2	35	1.21
20006505--20006617	52	2.2	51	87	4	156	58	1	2	37	1.23
20006552--20006590	18	2.2	17	90	4	60	61	2	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20006829--20006977	28	5.5	26	70	15	88	65	2	2	29	1.17
20006829--20006977	9	16.3	9	68	17	76	65	2	2	29	1.17
20006880--20006971	37	2.5	36	77	11	89	68	3	2	26	1.16
20018135--20018166	15	2.1	15	94	0	55	65	6	9	18	1.42
20022374--20022411	5	8.0	5	85	8	53	44	0	0	55	0.99
20022437--20022461	13	1.9	13	100	0	50	60	8	24	8	1.52
20033278--20033321	16	2.8	16	78	0	52	56	9	6	27	1.55
20036222--20036259	18	2.1	19	90	5	60	21	21	5	52	1.66
20045193--20045261	34	2.0	34	100	0	138	52	14	11	21	1.73
20048602--20048632	11	2.8	11	95	0	53	29	3	48	19	1.64
20052686--20052778	18	5.2	18	90	0	150	31	16	24	27	1.96
20052686--20052778	36	2.6	36	94	0	168	31	16	24	27	1.96
20065954--20066072	10	12.6	9	73	15	89	31	0	3	63	1.16
20065954--20066032	19	4.1	19	81	12	74	34	0	3	62	1.14
20065954--20066127	39	4.5	39	75	12	139	32	1	5	60	1.26
20066291--20066323	15	2.1	16	88	5	50	42	6	9	42	1.61
20079541--20079677	51	2.7	51	75	0	157	39	6	14	39	1.72
20082561--20082697	51	2.7	51	75	0	157	39	6	14	39	1.72
20084313--20084377	13	5.1	13	88	3	87	33	27	7	30	1.85
20084313--20084377	25	2.5	26	82	2	87	33	27	7	30	1.85
20092418--20092567	64	2.3	64	97	0	282	38	18	11	31	1.86
20092943--20093016	28	2.7	28	79	6	80	35	18	13	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20098306--20098341	18	2.0	18	100	0	72	55	5	11	27	1.57
20102634--20102677	21	2.2	20	83	4	52	18	18	15	47	1.83
20105684--20105723	19	2.1	19	85	0	53	12	10	10	67	1.42
20106473--20106518	24	1.9	24	86	0	65	63	0	0	36	0.95
20107159--20107267	31	3.6	31	68	21	86	42	0	19	38	1.51
20107954--20107992	20	2.0	21	90	10	64	33	0	0	66	0.92
20107951--20108031	20	4.3	19	71	20	62	28	1	2	67	1.11
20108000--20108044	20	2.2	20	84	11	56	20	0	6	73	1.05
20108173--20108248	31	2.5	31	77	0	80	47	13	15	23	1.81
20112461--20112543	25	3.2	25	70	12	69	49	26	0	24	1.51
20112899--20112938	21	1.9	21	90	10	64	22	25	27	25	2.00
20115655--20115719	28	2.3	28	97	0	121	46	10	10	32	1.73
20116190--20116228	19	1.9	19	85	10	51	66	0	2	30	1.05
20116306--20116360	14	3.8	15	71	7	51	40	7	10	41	1.68
20123475--20123504	6	4.8	6	95	4	51	53	0	30	16	1.44
20126828--20126880	16	3.3	16	82	10	56	60	1	18	18	1.46
20129547--20129605	26	2.3	26	88	5	84	38	10	18	32	1.84
20134569--20134790	40	5.7	40	84	9	278	25	27	22	24	2.00
20142664--20142886	119	1.9	120	85	6	319	25	27	22	24	2.00
20142662--20142886	40	5.7	40	86	6	305	25	28	22	24	2.00
20163384--20163606	119	1.9	120	85	6	310	24	27	23	24	2.00
20163363--20163606	40	6.1	40	85	6	300	24	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20171511--20171733	119	1.9	120	85	6	319	25	27	22	24	2.00
20171490--20171733	40	6.1	40	83	6	282	25	27	22	25	2.00
20173733--20173856	62	2.0	63	82	1	151	29	29	17	22	1.97
20177520--20177567	25	1.9	25	86	0	69	47	4	22	25	1.69
20180238--20180262	7	3.6	7	100	0	50	32	40	0	28	1.57
20182969--20183051	34	2.5	33	85	11	109	24	22	22	30	1.99
20183317--20183387	27	2.7	27	82	2	81	32	19	14	33	1.92
20193726--20193755	10	3.0	10	90	0	51	76	0	13	10	1.01
20194561--20194656	29	3.3	30	76	13	85	70	1	23	4	1.11
20194594--20194648	9	6.8	8	74	17	51	74	1	21	1	1.01
20194594--20194648	4	13.5	4	78	14	51	74	1	21	1	1.01
20194561--20194647	5	16.4	5	71	19	52	72	1	21	4	1.09
20194561--20194656	12	8.4	11	73	14	54	70	1	23	4	1.11
20200967--20201016	15	3.3	15	83	10	57	20	8	4	68	1.32
20201071--20201392	109	3.0	109	87	1	452	31	16	16	35	1.91
20208141--20208301	83	1.9	83	97	0	304	25	22	21	30	1.99
20210918--20210958	16	2.5	17	84	4	57	29	0	2	68	1.03
20212527--20212613	41	2.1	41	91	0	138	44	12	17	25	1.83
20219908--20219933	8	3.2	8	100	0	52	15	0	0	84	0.62
20222229--20222274	19	2.4	19	82	10	58	60	4	0	34	1.16
20222229--20222282	11	5.5	10	75	16	51	62	3	0	33	1.12
20231362--20231405	23	1.9	23	90	0	70	31	11	20	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20235740--20235774	15	2.3	15	95	0	61	31	8	17	42	1.79
20237724--20237806	30	2.9	29	90	3	123	27	25	24	22	2.00
20237916--20237992	26	3.0	26	76	0	82	38	23	20	16	1.92
20238167--20238444	27	10.3	27	86	5	348	20	18	15	44	1.86
20238168--20238444	81	3.4	80	88	1	401	20	18	15	45	1.86
20245474--20245498	13	1.9	13	100	0	50	32	4	24	40	1.73
20246423--20246495	34	2.1	35	87	2	103	31	8	15	45	1.75
20246604--20246735	43	3.0	43	71	18	128	23	15	26	34	1.95
20263976--20264016	4	11.0	4	85	15	61	75	0	0	24	0.80
20263976--20264014	14	2.7	14	88	4	60	76	0	0	23	0.78
20263981--20264016	18	2.1	17	94	5	63	75	0	0	25	0.81
20265821--20265880	31	2.0	30	93	3	102	36	1	8	53	1.41
20266304--20266345	19	2.2	19	83	8	50	73	2	2	21	1.06
20276164--20276193	15	2.0	15	93	0	51	6	23	20	50	1.71
20280631--20280680	18	3.0	17	85	8	59	42	0	2	56	1.11
20280596--20280803	91	2.3	91	93	0	344	45	2	4	47	1.37
20280616--20280778	28	5.6	28	69	20	84	44	1	4	49	1.29
20280636--20280778	44	3.2	43	70	20	130	46	1	3	48	1.27
20280830--20281018	59	3.2	57	68	19	152	41	3	4	50	1.37
20280857--20281055	66	3.2	64	68	19	186	41	3	6	49	1.44
20280819--20281116	120	2.5	120	94	1	517	42	2	5	50	1.37
20280892--20281079	61	3.1	61	69	17	192	42	1	6	48	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20280944--20280995	15	3.6	15	80	12	56	44	0	1	53	1.11
20281073--20281114	15	2.7	16	82	14	52	45	0	2	52	1.13
20281064--20281105	15	2.9	15	82	10	52	47	0	0	52	1.00
20281327--20281395	16	4.2	16	90	3	93	40	31	0	27	1.57
20290904--20290963	31	1.9	31	93	0	102	36	8	8	46	1.64
20295448--20295631	43	4.3	44	88	4	270	29	31	17	21	1.96
20295888--20295978	43	2.1	43	87	2	130	43	9	10	35	1.73
20296776--20296869	25	3.7	26	78	4	86	30	2	21	45	1.63
20296766--20296857	41	2.2	41	82	0	112	30	2	21	45	1.64
20296766--20296881	9	13.8	9	70	13	86	31	2	20	44	1.65

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