genome.fa.s15.2.7.7.80.10.50.1000.14.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   212   213   214   215   216   217   218   219   220   221   222   

This is table  14  of  222  ( 26535 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)
4588042--4588094	27	2.0	27	81	7	63	30	7	5	56	1.50
4588219--4588284	26	2.6	26	83	4	82	43	6	3	46	1.43
4591708--4591750	22	2.0	22	90	4	70	30	9	2	58	1.42
4596175--4596273	51	1.9	51	85	0	135	37	3	18	41	1.66
4601845--4601879	3	11.7	3	93	0	61	34	0	0	65	0.93
4612795--4612839	22	2.0	22	82	8	54	62	11	6	20	1.50
4619958--4619987	14	2.1	14	100	0	60	6	13	46	33	1.69
4625473--4625517	18	2.5	19	82	10	58	40	0	0	60	0.97
4625469--4625560	29	3.2	28	76	11	89	34	0	2	63	1.07
4625472--4625526	10	5.7	10	75	14	53	38	0	0	61	0.96
4626038--4626067	15	1.9	15	93	6	51	23	6	0	70	1.11
4627990--4628036	21	2.2	22	88	11	71	31	2	0	65	1.04
4627990--4628036	23	2.2	20	85	11	58	31	2	0	65	1.04
4627990--4628051	21	3.0	20	77	13	61	37	1	0	61	1.06
4632214--4632276	10	6.6	10	75	8	60	60	0	6	33	1.22
4632216--4632301	28	3.1	28	78	8	86	63	1	5	29	1.24
4632215--4632288	38	2.0	37	89	7	114	63	0	6	29	1.20
4632295--4632341	24	2.0	24	83	8	60	65	2	10	21	1.33
4632751--4632777	7	3.9	7	100	0	54	14	0	0	85	0.61
4636084--4636111	5	5.6	5	100	0	56	60	0	39	0	0.97
4638242--4638598	179	2.0	179	93	0	615	41	17	14	26	1.87
4639663--4639707	18	2.5	18	85	7	56	35	13	22	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4639683--4639712	15	2.0	15	93	0	51	26	16	23	33	1.96
4639676--4639710	18	1.9	18	100	0	70	28	14	22	34	1.93
4643599--4643659	27	2.3	27	100	0	122	55	16	0	27	1.41
4649983--4650026	22	2.0	22	86	4	63	38	0	0	61	0.96
4650252--4650297	19	2.6	18	80	10	58	65	6	0	28	1.17
4657078--4657205	61	2.1	60	91	4	204	36	6	5	51	1.50
4658000--4658107	11	9.7	11	68	13	60	21	2	8	67	1.30
4660892--4660937	22	2.1	22	95	0	83	19	17	13	50	1.78
4660898--4660945	22	2.2	22	88	0	69	25	22	14	37	1.92
4661975--4662045	33	2.2	33	92	0	115	35	40	8	15	1.78
4662360--4662401	15	2.9	15	86	10	52	57	0	42	0	0.99
4667396--4667429	17	2.0	17	100	0	68	29	11	5	52	1.61
4669062--4669125	29	2.2	29	94	2	112	42	7	0	50	1.31
4669183--4669234	27	1.9	27	96	0	95	23	23	30	23	1.99
4669563--4669628	19	3.5	19	77	4	80	50	1	9	39	1.44
4669701--4669850	80	1.9	80	100	0	300	44	9	5	41	1.59
4669919--4669977	19	3.2	19	78	4	75	49	0	11	38	1.40
4671848--4671883	18	2.0	18	88	0	54	8	2	8	80	0.99
4671876--4671939	27	2.4	27	94	0	110	46	1	10	40	1.48
4687314--4687442	69	1.9	69	88	6	181	29	7	10	52	1.63
4688236--4688308	19	3.7	19	82	14	87	60	6	0	32	1.23
4690915--4690953	19	2.1	19	100	0	78	46	5	15	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693932--4693978	22	2.1	22	81	18	53	27	0	12	59	1.34
4694665--4694722	9	6.4	9	87	0	80	44	22	6	25	1.77
4694825--4694868	18	2.4	18	88	0	61	13	2	43	40	1.57
4699635--4699729	21	4.4	21	72	16	86	54	0	2	43	1.12
4702572--4702625	2	27.0	2	100	0	108	0	50	0	50	1.00
4710338--4710398	31	2.0	31	90	0	95	34	14	8	42	1.76
4715609--4715655	18	2.6	18	100	0	94	34	23	17	25	1.96
4716002--4716060	9	6.6	9	88	0	73	25	10	23	40	1.86
4717846--4717886	16	2.6	16	92	0	73	7	24	51	17	1.70
4724283--4724319	19	1.9	19	88	0	56	62	10	13	13	1.55
4728997--4729475	240	2.0	242	90	0	755	32	22	13	30	1.93
4731120--4731171	24	2.2	24	82	0	59	50	7	5	36	1.55
4733697--4733759	13	4.8	13	74	0	54	34	4	20	39	1.74
4733980--4734058	19	3.9	19	73	11	68	50	1	1	46	1.17
4734030--4734083	21	2.6	21	82	8	58	46	3	3	46	1.38
4734781--4734825	18	2.6	17	86	10	56	64	4	0	31	1.13
4735867--4736112	125	2.0	125	95	0	438	29	20	15	34	1.94
4737507--4737861	176	2.0	176	96	0	656	28	19	17	34	1.94
4751187--4751229	11	3.7	11	79	11	50	37	2	2	58	1.24
4752775--4753787	350	2.9	350	96	0	1870	37	11	16	34	1.85
4756778--4756804	7	3.9	7	100	0	54	14	70	0	14	1.17
4756893--4756926	2	17.0	2	93	0	59	0	50	2	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4757627--4757676	3	16.7	3	100	0	100	0	34	0	66	0.92
4760745--4760776	15	2.1	15	94	0	55	15	6	0	78	0.95
4762754--4762836	19	4.2	21	70	20	72	31	2	0	66	1.05
4762778--4762809	16	2.0	16	93	0	55	34	0	0	65	0.93
4762756--4762849	30	3.2	30	79	11	106	32	3	0	63	1.10
4763747--4763910	83	2.0	83	93	0	283	28	10	20	40	1.86
4769326--4769494	89	1.9	89	91	0	275	39	14	14	31	1.87
4771473--4771760	147	2.0	146	97	0	549	48	18	5	27	1.70
4773102--4773157	24	2.4	23	81	3	58	58	5	1	33	1.31
4775512--4775538	3	9.0	3	100	0	54	33	33	0	33	1.58
4784844--4784883	20	2.0	20	90	0	62	10	35	25	30	1.88
4791461--4791502	16	2.6	16	82	17	52	28	4	0	66	1.12
4791483--4791516	11	2.8	12	86	13	52	35	0	0	64	0.94
4791527--4791561	17	2.0	18	88	5	54	37	31	8	22	1.85
4798163--4798193	3	10.3	3	100	0	62	32	0	0	67	0.91
4801972--4802041	31	2.3	31	82	0	86	35	10	18	35	1.84
4804800--4804863	30	2.1	31	82	2	76	35	1	14	48	1.53
4808548--4808590	22	2.0	22	81	9	52	27	11	4	55	1.55
4811981--4812038	20	2.7	21	76	17	57	37	0	1	60	1.07
4813366--4813399	16	2.1	16	88	0	50	14	5	35	44	1.70
4814328--4814447	37	3.2	37	88	4	172	25	22	16	35	1.95
4814396--4814612	52	4.2	52	84	8	293	26	23	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4814448--4814618	46	3.6	46	84	9	227	28	22	14	34	1.94
4814395--4814618	98	2.3	98	92	0	376	27	23	14	34	1.94
4817741--4817944	49	4.0	50	83	10	241	32	29	13	24	1.94
4817825--4817943	58	2.0	59	98	1	231	31	31	13	23	1.93
4817834--4817924	28	3.2	28	66	22	80	27	31	15	25	1.95
4819201--4819320	37	3.2	37	88	4	172	25	22	16	35	1.95
4819269--4819485	52	4.2	52	84	8	293	26	23	14	35	1.93
4819321--4819491	46	3.6	46	84	9	227	28	22	14	34	1.94
4819268--4819491	98	2.3	98	92	0	376	27	23	14	34	1.94
4829109--4829163	28	2.0	28	82	7	67	52	9	3	34	1.50
4829321--4829373	26	2.0	27	88	3	81	47	11	13	28	1.77
4829754--4829786	17	2.0	17	88	5	50	42	18	15	24	1.88
4830371--4830466	50	1.9	50	86	0	138	23	26	19	30	1.98
4830646--4830674	11	2.6	11	100	0	58	37	0	0	62	0.96
4830659--4830710	21	2.4	21	84	9	61	28	0	5	65	1.16
4839127--4839161	9	3.9	9	88	0	52	42	11	11	34	1.77
4841366--4841400	17	2.1	17	88	0	52	51	17	5	25	1.67
4844491--4844515	11	2.3	11	100	0	50	56	0	0	44	0.99
4849564--4849598	18	1.9	18	88	0	52	62	2	0	34	1.10
4852160--4852189	6	4.8	6	95	4	51	16	0	0	83	0.65
4863268--4863326	3	19.3	3	82	3	73	62	0	3	33	1.12
4863786--4863824	15	2.6	15	79	0	51	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4869957--4869989	12	2.7	12	95	4	57	72	3	0	24	0.98
4869956--4869992	13	2.8	13	88	12	58	70	2	0	27	1.01
4871768--4871818	14	3.7	14	78	5	59	47	37	0	15	1.46
4871784--4871825	21	2.0	21	86	9	59	42	38	0	19	1.51
4871779--4871830	14	3.7	15	80	12	58	44	34	0	21	1.52
4880121--4880175	24	2.3	23	78	9	56	67	0	0	32	0.91
4881160--4881193	16	2.1	16	94	0	59	11	35	0	52	1.38
4882063--4882096	11	3.1	11	100	0	68	35	11	8	44	1.72
4883305--4883344	20	2.0	20	85	0	53	50	15	10	25	1.74
4890561--4890594	3	11.3	3	100	0	68	32	32	0	35	1.58

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   212   213   214   215   216   217   218   219   220   221   222