genome.fa.s21.2.7.7.80.10.50.1000.12.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_D08
Parameters: 2 7 7 80 10 50 1000
Length:  65987480

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   

This is table  12  of  211  ( 25274 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)
4134913--4134954	20	2.0	22	86	9	61	42	9	4	42	1.58
4141667--4141704	19	2.0	19	94	0	67	55	15	13	15	1.70
4148310--4148345	18	2.1	18	89	5	56	33	25	0	41	1.55
4148906--4148950	20	2.2	21	88	4	65	37	0	2	60	1.09
4149361--4149385	7	3.6	7	100	0	50	72	0	0	28	0.86
4150490--4150647	63	2.5	63	82	0	172	25	7	35	31	1.84
4150826--4150867	13	3.2	13	80	6	57	47	9	7	35	1.64
4153213--4153323	23	5.0	23	86	3	129	38	24	20	16	1.92
4157949--4158109	72	2.2	72	78	2	171	35	14	22	26	1.94
4158058--4158175	60	2.0	60	94	0	209	41	11	22	23	1.87
4158171--4158421	75	3.4	74	77	9	248	39	11	24	24	1.89
4158210--4158341	69	1.9	69	84	3	176	40	14	23	21	1.90
4164829--4164921	40	2.4	39	78	10	100	25	23	25	24	2.00
4164946--4165002	7	8.0	7	77	11	62	5	0	42	52	1.24
4164940--4164982	13	3.2	13	87	6	68	4	0	48	46	1.22
4165036--4165298	97	2.7	96	89	2	411	37	2	18	41	1.64
4165445--4165489	20	2.2	21	84	4	56	4	22	44	28	1.72
4165746--4165788	18	2.4	18	88	0	59	44	9	27	18	1.80
4165819--4165889	30	2.3	30	80	7	72	9	9	42	38	1.71
4165839--4165905	30	2.2	30	83	0	80	5	10	46	37	1.63
4166406--4166431	7	3.7	7	100	0	52	57	15	0	26	1.38
4170658--4170749	40	2.3	38	81	9	114	40	3	6	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4171278--4171353	31	2.5	29	81	10	82	48	13	7	30	1.70
4178254--4178305	25	2.1	25	85	3	70	34	0	1	63	1.06
4182511--4182560	25	2.0	26	88	4	75	18	10	10	62	1.54
4192327--4192379	4	13.0	4	81	15	56	0	20	1	77	0.87
4192327--4192381	15	3.7	15	78	9	67	0	20	1	78	0.85
4192319--4192378	26	2.3	26	91	0	93	0	23	1	75	0.90
4193388--4193483	30	3.2	29	71	12	77	25	18	9	46	1.79
4194034--4194163	19	7.3	16	73	15	71	62	0	3	33	1.16
4194145--4194216	21	3.5	20	76	12	58	59	2	1	36	1.20
4194190--4194241	19	2.7	20	76	8	63	63	3	3	28	1.30
4194021--4194278	9	27.6	9	69	14	114	61	1	3	32	1.25
4197891--4198057	19	9.1	19	67	25	69	32	2	3	60	1.29
4200128--4200177	21	2.5	21	84	9	61	54	2	32	12	1.49
4202373--4202419	23	2.0	23	100	0	94	29	0	29	40	1.57
4204308--4204392	14	6.2	14	79	5	66	48	32	2	16	1.59
4204305--4204380	18	4.1	18	88	6	107	47	35	2	14	1.58
4204332--4204430	4	25.2	4	82	11	107	46	27	4	22	1.69
4204314--4204430	24	4.9	24	77	14	107	46	29	4	20	1.70
4206887--4206914	12	2.3	12	100	0	56	42	17	14	25	1.87
4207185--4207223	20	2.0	20	89	0	60	33	7	30	28	1.85
4211903--4211934	6	5.3	6	92	0	55	0	46	3	50	1.17
4217014--4217073	27	2.3	26	82	2	75	63	1	0	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4218604--4218635	10	3.4	10	87	12	50	25	0	0	75	0.81
4223810--4223862	2	26.5	2	100	0	106	50	0	49	0	1.00
4231128--4231168	21	2.0	21	90	0	64	19	29	21	29	1.98
4235178--4235256	35	2.3	35	90	0	122	44	21	11	22	1.84
4236305--4236343	11	3.3	12	86	13	55	20	0	10	69	1.17
4238339--4238424	44	2.0	42	82	8	102	47	12	17	22	1.81
4240832--4240883	16	3.2	16	86	5	70	44	3	30	21	1.70
4241110--4241151	15	2.7	16	82	14	52	52	2	0	45	1.13
4241119--4241160	15	2.9	15	82	10	52	52	0	0	47	1.00
4241229--4241280	15	3.6	15	80	12	56	53	1	0	44	1.11
4241348--4241399	15	3.6	15	80	12	56	53	1	0	44	1.11
4241113--4241515	120	3.4	120	97	0	763	50	4	1	42	1.34
4241468--4241513	15	3.0	16	81	9	60	52	2	0	45	1.13
4241506--4241544	11	3.5	11	93	6	69	28	2	0	69	1.02
4247444--4247482	19	2.1	19	90	0	60	35	2	0	61	1.10
4249505--4249571	35	1.9	35	93	0	116	8	16	31	43	1.79
4251530--4251563	16	2.1	16	88	0	50	55	0	0	44	0.99
4253258--4253307	24	2.1	24	88	7	75	50	10	20	20	1.76
4253376--4253453	38	2.1	38	100	0	156	35	5	24	34	1.78
4256864--4256920	30	1.9	30	85	7	80	40	12	0	47	1.41
4257432--4257490	24	2.5	24	97	0	109	25	32	10	32	1.89
4264585--4264626	20	2.2	20	82	4	50	52	7	0	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4264611--4264659	21	2.3	21	82	6	55	51	10	4	34	1.55
4264628--4264727	39	2.5	40	81	3	121	43	11	3	43	1.55
4276865--4276913	12	3.8	13	78	15	57	38	0	2	59	1.09
4279665--4279763	39	2.6	39	89	7	143	30	3	0	66	1.06
4288752--4288785	16	2.1	17	88	5	52	58	2	0	38	1.13
4302733--4302760	12	2.3	12	100	0	56	35	21	0	42	1.53
4302901--4303029	43	3.0	43	78	13	124	32	20	24	23	1.98
4304164--4304205	15	2.9	15	79	17	52	40	4	2	52	1.35
4304148--4304205	29	2.0	29	82	0	71	39	5	5	50	1.47
4304168--4304205	14	2.6	15	84	16	53	42	5	2	50	1.39
4304810--4304878	20	3.4	19	77	16	68	24	13	4	57	1.53
4304810--4304878	21	3.4	21	76	13	72	24	13	4	57	1.53
4304824--4304890	21	3.2	21	70	17	59	23	16	4	55	1.60
4305109--4305153	19	2.3	19	84	3	54	13	15	4	66	1.39
4305186--4305277	20	4.6	20	70	12	62	19	13	9	57	1.63
4316836--4316870	7	4.7	7	86	13	52	0	11	2	85	0.69
4316838--4316867	16	1.9	16	93	6	53	0	13	3	83	0.77
4319557--4319745	59	3.2	57	68	19	152	41	3	4	50	1.37
4319584--4319782	66	3.2	64	68	19	186	41	3	6	49	1.42
4319546--4319843	120	2.5	120	91	2	483	42	3	4	50	1.38
4319619--4319806	61	3.1	61	69	17	183	42	2	6	49	1.40
4319671--4319722	15	3.6	15	80	12	56	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4320057--4320124	16	4.2	16	96	0	127	39	35	0	25	1.56
4320664--4320702	15	2.4	17	87	8	55	35	5	0	58	1.20
4326297--4326333	20	1.9	19	89	10	58	48	0	2	48	1.15
4332986--4333075	25	3.6	24	80	5	90	17	24	22	35	1.95
4332993--4333123	50	2.6	50	83	7	142	21	23	22	32	1.98
4333018--4333123	25	4.2	25	76	7	99	22	23	22	31	1.99
4332991--4333143	50	3.1	50	80	7	125	22	23	20	33	1.97
4355484--4355533	13	3.8	13	81	0	64	44	24	2	30	1.65
4369929--4370028	42	2.4	42	85	8	141	26	21	18	35	1.95
4370362--4370419	21	2.8	21	86	7	82	3	48	18	29	1.65
4370361--4370430	21	3.3	21	80	6	79	2	45	18	32	1.64
4374852--4375033	9	20.9	9	74	8	144	32	2	19	44	1.65
4374814--4375033	34	6.4	33	75	12	140	32	2	19	45	1.63
4374852--4374967	61	1.9	61	82	7	146	31	1	20	45	1.61
4375013--4375100	37	2.4	37	86	1	115	39	3	11	45	1.57
4375082--4375120	20	2.0	20	94	0	69	46	5	5	43	1.48
4375012--4375186	94	1.9	93	89	1	269	37	4	10	48	1.58
4375102--4375239	37	3.7	37	94	0	231	34	5	10	49	1.61
4375146--4375425	93	3.0	93	88	4	379	35	5	10	49	1.59
4375240--4375369	37	3.5	37	95	0	242	35	6	9	49	1.60
4375008--4375462	130	3.5	130	92	0	716	36	5	9	48	1.59
4375366--4375462	37	2.6	37	95	0	176	36	5	9	49	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4375180--4375512	93	3.6	93	89	3	449	36	5	9	49	1.58
4376933--4376977	23	2.0	23	95	0	81	22	6	42	28	1.79
4377132--4377472	147	2.3	147	82	2	389	37	21	13	27	1.91
4378793--4379180	114	3.4	112	78	7	388	27	27	21	23	1.99
4379075--4379151	41	1.9	40	81	7	93	29	28	16	24	1.97
4379209--4379299	40	2.3	40	100	0	182	17	28	23	30	1.97
4379630--4379763	59	2.2	61	80	10	152	35	17	6	40	1.76
4385312--4385361	25	2.0	25	84	7	66	50	0	8	42	1.32
4392720--4392749	12	2.6	12	94	5	53	23	0	0	76	0.78
4393376--4393419	21	2.1	21	86	0	61	40	11	13	34	1.81

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