genome.fa.s25.2.7.7.80.10.50.1000.19.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  19  of  196  ( 23409 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)
5457444--5457643	80	2.5	80	82	3	233	28	26	20	25	1.99
5473077--5473109	12	2.8	12	90	4	50	0	15	0	84	0.61
5476063--5476128	5	13.4	5	78	9	73	37	3	1	57	1.23
5477003--5477039	9	4.1	9	89	0	56	48	13	8	29	1.71
5477954--5477979	5	5.2	5	100	0	52	23	19	19	38	1.93
5478696--5478750	10	5.5	10	73	16	51	78	3	18	0	0.90
5479358--5479419	25	2.5	25	81	5	72	20	29	19	30	1.97
5486184--5486232	24	2.0	26	88	8	75	20	4	8	67	1.34
5489975--5490020	18	2.5	18	82	3	56	50	2	2	45	1.26
5495914--5496357	126	3.5	125	90	1	683	33	17	20	29	1.95
5503444--5503565	9	13.0	9	74	16	81	36	0	3	60	1.13
5503446--5503565	58	2.1	56	90	7	190	35	0	3	60	1.13
5503536--5503563	8	3.5	8	100	0	56	32	0	0	67	0.91
5505172--5505202	10	3.1	10	95	0	53	41	22	0	35	1.54
5510255--5510415	82	2.0	82	88	0	241	39	14	22	23	1.90
5523119--5523171	23	2.3	23	90	0	88	32	24	20	22	1.98
5530321--5530349	6	4.8	6	100	0	58	34	17	31	17	1.93
5536347--5536374	6	4.7	6	100	0	56	0	0	14	85	0.59
5537749--5537777	14	2.1	14	100	0	58	37	0	6	55	1.27
5537993--5538056	33	1.9	33	87	6	94	53	10	4	31	1.57
5550405--5550439	18	1.9	18	88	0	52	65	0	5	28	1.15
5551734--5552013	143	2.0	143	88	2	420	36	12	9	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5565663--5565720	29	2.0	29	83	12	75	27	13	15	43	1.85
5575099--5575123	12	2.1	12	100	0	50	16	24	36	24	1.94
5578737--5578854	57	2.1	57	98	0	227	27	9	22	40	1.84
5579649--5579709	23	2.7	23	75	10	63	67	6	4	21	1.33
5580486--5580670	92	2.0	92	94	0	325	29	22	12	35	1.91
5582769--5582825	25	2.3	24	81	6	60	52	7	14	26	1.66
5594811--5594869	24	2.4	24	77	2	64	50	0	25	23	1.49
5596124--5596180	28	2.0	28	83	12	73	61	0	3	35	1.13
5597447--5597488	20	2.2	20	86	4	59	21	4	4	69	1.26
5597442--5597488	19	2.4	19	82	3	58	21	4	4	70	1.22
5598010--5598099	40	2.3	40	86	9	123	24	24	28	22	1.99
5598031--5598119	40	2.3	39	78	3	106	24	28	24	22	2.00
5610237--5610573	114	2.9	112	78	6	320	28	17	22	31	1.96
5610252--5610630	114	3.3	112	75	7	318	29	17	22	30	1.97
5611177--5611247	21	3.3	21	92	2	106	21	0	40	38	1.53
5611240--5611302	7	9.0	7	77	6	56	17	1	52	28	1.54
5613175--5613230	30	2.0	29	82	10	71	30	3	14	51	1.59
5614121--5614162	21	2.0	22	85	4	59	38	0	2	59	1.10
5614357--5614433	40	1.9	40	97	0	145	46	19	5	28	1.71
5614431--5614469	20	2.0	20	94	0	69	53	5	5	35	1.45
5614475--5614540	25	2.6	25	90	4	89	50	19	3	27	1.63
5614462--5614552	16	5.6	16	73	17	71	46	21	2	29	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5614466--5614662	66	3.0	66	85	3	227	45	20	3	30	1.66
5614500--5614580	25	3.2	25	78	13	87	45	19	2	32	1.64
5614557--5614665	16	6.7	16	70	14	62	48	18	2	30	1.62
5614487--5614604	41	2.9	41	78	5	130	47	19	2	30	1.63
5614573--5614646	25	3.0	24	70	7	67	43	20	4	32	1.70
5620095--5620162	21	3.2	20	83	8	82	33	19	42	4	1.71
5622101--5622144	22	2.0	23	81	4	54	40	9	9	40	1.68
5622425--5622724	157	1.9	156	86	3	433	33	20	11	35	1.88
5622898--5622959	28	2.2	28	88	2	90	37	25	0	37	1.57
5622898--5622967	27	2.5	28	84	6	81	37	25	1	35	1.65
5624641--5624720	30	2.6	32	80	9	96	72	3	0	23	1.01
5624644--5624720	15	5.2	15	74	11	70	71	3	0	24	1.03
5627370--5627428	30	1.9	31	83	10	77	44	5	6	44	1.52
5629609--5629643	4	8.8	4	93	0	61	0	22	0	77	0.78
5643169--5643312	40	3.6	40	80	3	164	31	14	30	22	1.94
5652646--5652699	21	2.6	21	87	0	81	24	9	37	29	1.86
5659258--5659282	12	2.1	12	100	0	50	8	8	8	76	1.18
5659610--5659635	11	2.4	11	100	0	52	57	7	26	7	1.54
5668452--5668491	20	2.0	20	85	9	55	55	25	17	2	1.55
5669499--5669545	9	4.5	10	77	17	51	31	4	0	63	1.13
5670056--5670263	109	1.9	109	93	2	355	29	16	20	33	1.95
5674435--5674480	18	2.4	19	82	14	58	50	4	8	36	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5674447--5674483	18	2.1	18	100	0	74	43	5	5	45	1.49
5679506--5679562	26	2.2	26	87	9	82	49	1	1	47	1.22
5682325--5682664	51	6.7	51	80	5	343	29	15	25	29	1.96
5682325--5682664	102	3.4	100	86	4	411	29	15	25	29	1.96
5686483--5686530	16	3.0	16	82	8	53	43	25	0	31	1.55
5704710--5704763	27	2.0	27	100	0	108	25	11	22	40	1.87
5705383--5705444	30	2.1	30	87	0	88	40	8	19	32	1.81
5706123--5706154	16	2.0	16	93	0	55	31	0	9	59	1.29
5706576--5706620	22	2.0	22	95	0	81	24	13	24	37	1.91
5710242--5710294	25	2.1	25	100	0	106	16	16	26	39	1.91
5714129--5714160	16	2.0	16	93	0	55	34	0	6	59	1.23
5714989--5715031	12	3.4	12	80	20	52	9	9	0	81	0.88
5717260--5717288	15	1.9	15	100	0	58	13	20	17	48	1.81
5726451--5726565	44	2.6	44	85	9	153	28	22	14	33	1.94
5728938--5729175	49	4.8	49	81	8	266	53	13	8	23	1.67
5728938--5729175	99	2.4	99	84	6	293	53	13	8	23	1.67
5729068--5729203	55	2.6	50	79	12	148	52	11	8	27	1.64
5730745--5730818	33	2.3	33	77	13	82	9	14	8	67	1.41
5759096--5759130	2	17.5	2	100	0	70	48	0	51	0	1.00
5764547--5764694	72	2.1	72	100	0	296	27	27	26	19	1.99
5766274--5766334	27	2.2	28	77	13	74	52	3	1	42	1.27
5766281--5766346	27	2.4	27	83	14	75	56	3	3	37	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5767349--5767415	25	2.5	25	78	9	62	71	1	22	4	1.12
5770715--5770783	16	4.2	16	96	3	129	24	0	37	37	1.56
5770715--5770783	33	2.1	32	97	2	129	24	0	37	37	1.56
5770764--5770854	45	2.0	45	85	2	121	27	6	28	37	1.82
5770906--5771222	157	2.0	157	94	1	555	43	3	5	47	1.41
5771156--5771197	15	2.7	16	82	14	52	52	2	0	45	1.13
5771165--5771206	15	2.9	15	82	10	52	52	0	0	47	1.00
5771159--5771451	120	2.4	121	94	2	502	50	4	3	41	1.39
5771285--5771326	15	2.9	15	82	10	52	52	0	0	47	1.00
5774987--5775015	6	4.8	6	100	0	58	31	0	68	0	0.89
5785471--5785499	15	1.9	15	100	0	58	31	13	27	27	1.94
5787755--5787799	22	2.2	21	88	11	67	17	11	0	71	1.14
5788375--5788400	13	2.0	13	100	0	52	53	0	0	46	1.00
5789926--5790060	69	2.0	69	87	0	198	15	16	19	48	1.81
5792006--5792075	29	2.6	25	78	12	68	34	5	1	58	1.31
5792791--5793016	123	1.8	123	89	1	355	35	13	26	24	1.92
5813707--5813748	18	2.3	18	87	0	57	23	26	7	42	1.80
5814796--5814851	27	2.1	27	96	0	103	25	37	12	25	1.91
5815460--5815515	27	2.1	27	96	0	103	25	37	12	25	1.91
5814626--5816629	663	3.0	663	97	0	3711	29	20	18	31	1.96
5816125--5816178	27	2.0	27	96	0	99	24	37	12	25	1.91
5818627--5818882	125	2.0	126	87	2	363	27	16	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5818963--5819044	34	2.4	34	83	4	103	41	17	0	41	1.49
5819130--5819168	15	2.6	15	87	0	51	53	33	0	12	1.39
5819072--5819150	42	1.9	42	92	2	133	45	27	1	25	1.61
5822698--5822778	43	1.9	42	87	2	117	46	0	14	38	1.45
5822747--5822818	34	2.1	36	89	5	112	38	0	11	50	1.38
5822752--5822836	34	2.5	31	78	16	82	31	0	16	51	1.45
5822872--5823265	126	3.1	125	83	6	492	36	16	17	29	1.92
5838798--5838886	44	2.0	46	91	4	146	25	4	31	38	1.76
5838796--5838901	46	2.5	42	78	16	128	29	3	31	35	1.75
5839085--5839136	26	2.0	26	92	7	88	50	3	0	46	1.20

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