genome.fa.s22.2.7.7.80.10.50.1000.15.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_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  15  of  172  ( 20605 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)
3957585--3957657	25	2.9	25	72	0	74	30	19	27	23	1.98
3961010--3961056	19	2.4	19	82	13	60	10	10	42	36	1.74
3962134--3962170	9	4.1	9	92	0	65	29	10	13	45	1.77
3969979--3970023	3	15.0	3	100	0	90	33	0	0	66	0.92
3972445--3972474	11	2.7	11	89	0	51	50	0	3	46	1.18
3976065--3976596	289	1.8	290	82	6	693	39	9	12	38	1.76
3981900--3982034	65	2.1	65	98	0	261	28	18	20	32	1.96
3986295--3986384	20	4.8	19	72	12	60	56	3	1	38	1.23
3991099--3991226	51	2.5	50	78	12	145	50	2	5	41	1.38
4001821--4001887	8	7.8	9	75	23	56	64	1	4	29	1.22
4001821--4001887	3	23.3	3	75	22	56	64	1	4	29	1.22
4003596--4003772	41	4.2	41	68	17	130	29	22	19	28	1.98
4003596--4003915	44	7.6	41	72	13	161	29	23	19	28	1.98
4003568--4004091	126	4.1	125	82	9	479	28	22	19	29	1.98
4003674--4004223	44	12.7	43	77	8	467	27	22	20	30	1.98
4003800--4004222	175	2.4	175	93	0	731	26	22	21	29	1.99
4003670--4004231	131	4.3	131	81	7	533	27	21	20	30	1.98
4004010--4004339	131	2.5	131	82	6	321	25	23	20	29	1.99
4004232--4004746	86	6.0	87	90	3	620	24	24	22	28	1.99
4004572--4004709	44	3.2	44	67	11	104	25	26	21	27	1.99
4007191--4007230	14	2.9	14	88	0	53	0	22	0	77	0.77
4007247--4007281	14	2.4	14	90	4	52	0	5	11	82	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4007239--4007280	20	2.1	20	82	8	50	2	4	9	83	0.88
4010934--4011000	8	7.8	9	75	23	56	64	1	4	29	1.22
4010934--4011000	3	23.3	3	75	22	56	64	1	4	29	1.22
4012679--4012982	126	2.4	126	90	2	461	29	21	19	29	1.97
4012785--4013334	44	12.7	43	76	8	449	27	22	20	30	1.98
4012911--4013333	175	2.4	175	93	0	722	26	22	21	29	1.99
4012781--4013342	131	4.3	131	80	7	506	27	21	20	30	1.98
4013121--4013450	131	2.5	131	81	6	312	26	23	20	29	1.99
4013343--4013857	86	6.0	87	90	3	620	24	24	22	28	1.99
4013683--4013820	44	3.2	44	67	11	104	25	26	21	27	1.99
4016352--4016409	6	9.7	6	82	14	50	1	1	10	86	0.73
4016359--4016408	15	3.4	14	89	10	73	0	2	10	88	0.61
4016360--4016398	5	7.8	5	85	8	53	0	0	12	87	0.55
4016351--4016393	19	2.3	19	80	11	52	2	0	11	86	0.67
4016360--4016410	20	2.5	20	84	6	68	0	1	11	86	0.66
4024427--4024466	19	2.2	19	86	4	55	22	7	0	70	1.12
4032562--4032603	22	2.0	21	85	4	57	23	7	0	69	1.13
4036996--4037327	180	1.9	180	86	1	479	40	8	10	40	1.71
4045666--4045727	24	2.6	24	94	0	106	27	8	38	25	1.84
4050432--4050505	36	2.1	36	92	0	121	33	13	20	32	1.91
4058552--4058590	16	2.5	16	83	4	53	23	2	2	71	1.10
4059768--4059815	22	2.3	20	85	7	60	43	2	2	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4062136--4062160	11	2.3	11	100	0	50	92	0	8	0	0.40
4062560--4062657	29	3.3	29	82	7	99	47	10	14	27	1.76
4062560--4062635	29	2.5	31	87	4	102	47	10	13	28	1.76
4064341--4064388	24	2.0	24	87	0	69	35	4	8	52	1.51
4067007--4067075	24	2.9	24	88	0	102	42	1	4	52	1.30
4068252--4068285	3	11.3	3	100	0	68	32	0	0	67	0.91
4072097--4072189	44	2.1	45	88	6	136	32	5	30	32	1.80
4072416--4072727	56	5.2	56	69	19	236	52	4	1	41	1.31
4072503--4072665	28	5.5	28	64	25	84	54	3	1	41	1.24
4072503--4072567	18	4.2	16	72	18	57	60	0	1	38	1.07
4072530--4072567	18	2.2	17	90	4	58	63	0	2	34	1.09
4072301--4072868	122	4.8	121	91	5	852	52	4	1	41	1.30
4072625--4072689	18	4.2	16	72	18	57	60	0	1	38	1.07
4072652--4072689	18	2.2	17	90	4	58	63	0	2	34	1.09
4072674--4072861	102	1.8	102	97	0	358	50	4	1	44	1.30
4072866--4072904	20	2.0	20	84	0	51	43	2	12	41	1.56
4083805--4083859	21	2.6	21	88	0	83	60	0	0	40	0.97
4085388--4085487	41	2.4	42	81	10	114	29	22	17	32	1.96
4085422--4085687	95	2.8	94	81	7	256	29	18	18	33	1.95
4085663--4085912	44	5.6	43	70	10	171	32	20	16	31	1.95
4085785--4085910	45	2.8	44	83	5	155	29	24	15	30	1.96
4087222--4087279	25	2.3	24	85	8	80	3	5	10	81	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087213--4087279	8	8.2	8	76	14	66	2	5	10	80	0.99
4087881--4087941	30	2.0	31	90	3	97	50	1	14	32	1.53
4096597--4096637	6	6.8	6	83	10	57	85	0	14	0	0.60
4097225--4097410	42	4.4	43	85	6	222	30	19	23	26	1.98
4097225--4097410	85	2.2	85	83	7	236	30	19	23	26	1.98
4097860--4097916	21	2.7	21	83	0	78	3	38	19	38	1.69
4101284--4101579	9	33.7	9	70	17	194	32	2	20	44	1.66
4101392--4101768	21	18.3	21	68	21	101	31	2	18	47	1.60
4101311--4101530	55	4.3	52	76	13	183	31	2	20	45	1.64
4101490--4101522	17	1.9	17	93	0	57	30	3	18	48	1.63
4101587--4101638	22	2.4	21	87	3	68	38	1	19	40	1.63
4101634--4101679	7	6.6	7	78	16	51	26	0	13	60	1.32
4101621--4101786	27	6.7	26	71	12	127	33	1	13	51	1.50
4101668--4101799	31	4.2	31	65	18	92	33	1	15	50	1.53
4101729--4101774	7	6.6	7	78	16	51	28	0	10	60	1.30
4101587--4101848	95	2.7	95	95	2	456	33	2	15	48	1.59
4102511--4102593	27	3.1	27	63	13	73	34	18	4	42	1.71
4102503--4102608	52	2.0	52	96	0	194	33	18	4	42	1.72
4104396--4104431	14	2.6	13	87	12	54	41	36	0	22	1.54
4104396--4104437	14	3.0	14	80	13	50	42	33	2	21	1.66
4104396--4104468	28	2.6	28	78	6	67	45	32	1	20	1.60
4104418--4104536	35	3.4	35	76	3	105	46	26	2	24	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4104484--4104536	14	3.8	14	76	0	52	49	26	1	22	1.60
4104523--4104617	43	2.4	39	79	15	97	44	34	2	18	1.62
4104565--4104651	21	4.3	21	69	15	58	41	37	3	17	1.66
4104554--4104645	37	2.5	37	78	8	98	42	38	3	16	1.64
4104849--4105521	113	5.9	113	84	4	838	28	25	20	24	1.99
4104849--4105521	226	3.0	225	90	3	1021	28	25	20	24	1.99
4110329--4110622	94	3.1	95	80	6	303	37	4	16	41	1.68
4110661--4111170	126	4.0	126	93	0	867	35	18	20	25	1.95
4112199--4112239	21	1.9	22	85	5	57	9	19	39	31	1.84
4112613--4112680	30	2.3	30	84	5	93	8	16	44	30	1.78
4113183--4113243	7	8.7	7	96	0	113	55	16	0	27	1.41
4113176--4113243	21	3.2	20	91	4	100	55	16	0	27	1.41
4114414--4114459	11	4.2	11	78	18	51	43	0	32	23	1.54
4114420--4114463	10	4.1	10	83	13	52	45	0	29	25	1.54
4122785--4122817	6	5.5	6	100	0	66	84	0	15	0	0.61
4123304--4123337	5	6.8	5	100	0	68	38	0	0	61	0.96
4134101--4134167	32	2.2	31	84	10	84	50	4	1	43	1.31
4139049--4139092	17	2.6	17	82	7	54	77	2	0	20	0.88
4142125--4142318	46	4.3	46	79	15	158	36	13	21	28	1.92
4142073--4142281	52	4.1	51	82	9	257	34	13	22	29	1.92
4142059--4142282	98	2.3	98	90	0	349	34	13	22	29	1.93
4142245--4142390	37	4.0	37	90	1	233	35	16	21	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4152346--4152491	44	3.2	46	69	20	128	46	2	2	49	1.25
4152349--4152516	91	1.8	91	96	0	309	47	2	2	47	1.30
4152662--4152720	24	2.4	25	81	13	70	44	0	1	54	1.10
4152843--4152947	44	2.5	40	76	15	113	31	29	4	34	1.78
4152841--4152950	45	2.6	44	81	8	131	31	29	5	33	1.80
4152931--4152982	16	3.2	16	94	0	86	34	36	0	28	1.58
4154025--4154099	38	2.0	37	82	17	93	40	1	6	52	1.36
4154546--4154612	27	2.5	28	76	16	77	31	0	0	68	0.90
4155774--4155804	9	3.4	9	90	0	53	25	12	22	38	1.90
4155858--4155894	9	4.1	9	89	0	56	48	13	8	29	1.71

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