genome.fa.s12.2.7.7.80.10.50.1000.123.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  123  of  128  ( 15303 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)
40644651--40644679	3	9.7	3	100	0	58	65	0	34	0	0.93
40652230--40652383	61	2.5	60	81	5	155	39	18	20	21	1.92
40652649--40652703	21	2.5	22	85	5	76	7	10	21	60	1.55
40652694--40652782	22	3.9	22	72	10	79	25	4	4	65	1.31
40658030--40658078	22	2.3	21	79	10	55	40	2	4	53	1.32
40658096--40658178	19	4.5	19	75	12	75	32	1	2	63	1.15
40661378--40661422	22	2.0	24	86	8	67	37	11	4	46	1.60
40661989--40662017	13	2.2	13	100	0	58	6	6	0	86	0.72
40662694--40662757	15	4.5	14	71	23	53	29	6	1	62	1.29
40662936--40663056	20	6.1	20	67	18	74	42	5	0	50	1.32
40662940--40663005	11	6.4	11	75	10	59	39	3	0	57	1.14
40663026--40663056	2	15.5	2	100	0	62	51	0	0	48	1.00
40663203--40663238	18	2.1	17	89	5	54	13	5	8	72	1.27
40665962--40666010	22	2.3	22	82	10	66	42	2	2	53	1.24
40666032--40666110	9	8.7	9	73	12	63	30	1	2	65	1.13
40666028--40666095	10	7.1	10	74	12	54	33	1	1	63	1.13
40668096--40668124	2	14.5	2	100	0	58	51	0	0	48	1.00
40669617--40669651	18	1.9	18	88	0	52	25	0	2	71	1.00
40671960--40672023	27	2.2	29	83	8	78	17	34	9	39	1.82
40690641--40690737	49	2.0	50	85	2	133	25	15	26	31	1.96
40701098--40701130	18	1.9	17	88	11	50	33	6	6	54	1.50
40704800--40704832	18	1.9	17	88	11	50	33	6	6	54	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40705706--40705787	18	4.3	18	69	14	58	62	1	2	34	1.16
40705756--40705809	21	2.5	22	80	14	60	61	3	1	33	1.25
40705716--40705809	21	4.7	21	70	19	58	60	2	3	34	1.24
40735584--40735610	11	2.5	11	100	0	54	48	22	22	7	1.75
40737557--40737584	11	2.5	11	100	0	56	21	28	7	42	1.79
40737557--40737597	11	3.7	12	90	6	52	24	24	4	46	1.72
40739575--40739652	40	2.0	40	82	10	97	23	28	26	21	1.99
40743980--40744010	16	1.9	16	93	0	53	70	3	9	16	1.26
40745705--40745857	23	6.5	23	70	11	85	39	18	17	24	1.91
40745699--40745885	24	7.8	24	69	11	125	41	17	16	25	1.89
40745739--40745965	47	4.8	47	90	1	294	41	15	16	25	1.88
40745646--40745810	72	2.3	71	84	5	208	40	18	14	26	1.90
40745773--40745933	23	6.8	24	71	7	116	42	14	18	24	1.88
40745783--40745951	23	7.2	23	67	11	101	42	14	18	25	1.88
40745772--40745965	47	4.1	47	93	0	307	42	14	17	24	1.87
40751150--40751211	24	2.5	25	77	15	67	17	24	24	33	1.96
40761661--40761687	14	1.9	14	100	0	54	14	11	7	66	1.43
40763561--40763598	19	2.0	19	94	0	67	36	7	26	28	1.84
40767224--40767358	42	3.2	42	80	10	150	42	15	17	24	1.88
40771352--40771414	12	4.8	13	74	14	58	44	3	1	50	1.27
40771724--40771766	22	2.0	22	90	0	68	9	13	27	48	1.73
40771838--40772192	42	8.4	42	83	3	401	31	20	21	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40772625--40772682	21	2.8	21	83	0	89	5	41	17	36	1.72
40772646--40772740	33	3.0	32	80	14	117	2	41	18	37	1.63
40772670--40772723	12	4.1	12	76	21	54	0	42	18	38	1.50
40772684--40772730	15	3.2	15	72	6	51	0	42	21	36	1.53
40772672--40772730	29	2.0	29	96	0	109	0	42	20	37	1.52
40772706--40772763	21	2.8	21	78	0	62	1	39	22	36	1.64
40779766--40779826	23	2.6	24	84	10	81	59	1	6	32	1.33
40781270--40781381	34	3.3	34	96	0	197	44	14	11	29	1.80
40782136--40782370	74	3.2	72	65	12	179	35	20	18	25	1.95
40782133--40782473	149	2.3	147	85	7	415	35	20	18	25	1.95
40782396--40782635	115	2.1	115	92	0	399	32	20	17	28	1.96
40782791--40782840	25	2.1	23	82	14	57	44	2	6	48	1.39
40783092--40783172	14	5.8	13	74	17	58	46	29	1	22	1.59
40783092--40783171	21	3.8	20	70	15	54	47	28	1	22	1.59
40784169--40784366	72	2.8	70	77	10	206	28	24	20	26	1.99
40785133--40785190	30	2.0	30	82	3	73	32	1	6	58	1.35
40786073--40786099	14	1.9	14	100	0	54	25	0	0	74	0.83
40789793--40789844	27	1.9	27	92	0	86	50	19	7	23	1.73
40792365--40792411	22	2.2	22	84	3	60	57	4	0	38	1.18
40792371--40792913	270	2.0	271	98	1	1054	44	11	9	34	1.73
40800390--40800432	10	4.2	10	80	13	52	72	0	6	20	1.08
40800403--40800461	17	3.5	17	81	2	75	79	0	5	15	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40800398--40800461	12	5.8	12	75	17	50	79	0	4	15	0.89
40806041--40806663	308	2.0	309	99	0	1230	42	9	12	35	1.76
40811373--40811402	14	2.1	14	93	0	51	16	36	30	16	1.91
40816408--40816593	87	2.1	88	90	2	286	27	20	18	32	1.96
40816718--40817201	132	3.7	132	92	1	783	28	25	16	29	1.96
40816888--40817201	44	7.2	44	67	15	150	28	25	16	29	1.97
40817195--40818070	89	9.8	89	86	0	1115	23	23	24	28	1.99
40818198--40818551	182	1.9	182	97	1	674	30	13	16	39	1.87
40819578--40819665	11	7.8	11	76	13	81	2	21	0	76	0.90
40819578--40819666	17	5.2	17	82	10	94	2	21	0	76	0.90
40819578--40819640	6	10.7	6	81	10	76	1	20	0	77	0.85
40822514--40822565	19	2.7	20	82	5	63	46	11	17	25	1.81
40824375--40824399	13	1.9	13	100	0	50	68	0	8	24	1.16
40826551--40826604	27	2.0	28	85	3	74	46	1	9	42	1.46
40828620--40828674	13	4.3	13	76	17	53	52	10	3	32	1.54
40828620--40828705	26	3.5	24	76	10	77	53	12	2	31	1.51
40831153--40831194	7	6.3	7	91	5	61	16	2	0	80	0.81
40831153--40831192	13	3.1	13	86	13	64	15	2	0	82	0.77
40831156--40831192	6	5.8	6	90	6	56	13	2	0	83	0.74
40833081--40833114	14	2.4	14	95	0	59	38	41	5	14	1.70
40835435--40835489	28	2.0	28	88	0	83	60	9	16	14	1.59
40841943--40841989	23	2.0	24	83	4	60	23	27	4	44	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40842288--40842450	86	1.9	86	98	0	317	39	12	7	39	1.73
40846265--40846480	109	2.0	109	100	0	432	34	15	18	31	1.92
40854812--40854875	32	2.0	32	100	0	128	37	21	25	15	1.93
40862945--40862988	20	2.2	20	87	0	61	31	34	6	27	1.83
40862945--40862999	20	2.8	20	77	5	58	34	32	5	27	1.80
40870327--40870408	40	2.1	39	97	2	155	39	2	7	51	1.43
40874939--40874979	17	2.4	17	95	0	73	29	19	2	48	1.61
40879937--40879977	20	2.0	20	100	0	82	56	4	14	24	1.58
40882564--40882613	21	2.4	21	83	12	59	60	4	0	36	1.16
40887017--40887129	61	1.9	61	85	5	160	49	5	3	41	1.42
40887017--40887148	61	2.2	58	81	6	149	51	4	3	40	1.40
40887565--40887604	19	2.1	19	86	9	55	32	2	5	60	1.32
40888478--40888536	21	2.7	22	89	5	93	49	5	6	38	1.52
40894318--40894363	1	46.0	1	95	0	74	95	0	0	4	0.26
40894321--40894362	22	1.9	22	100	0	84	95	0	0	4	0.28
40894319--40894405	24	3.6	24	80	0	102	82	4	1	11	0.86
40894319--40894402	12	6.8	12	77	8	71	82	4	1	11	0.88
40897995--40898093	47	2.1	48	84	5	130	35	30	14	20	1.92
40898095--40898249	44	3.5	44	93	0	247	31	21	14	32	1.94
40901468--40901506	19	2.0	20	90	10	62	53	0	10	35	1.35
40905133--40905171	17	2.2	18	86	4	53	35	25	12	25	1.92
40920190--40921216	513	2.0	513	100	0	2054	20	25	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40923494--40923536	23	1.9	22	86	13	61	72	2	0	25	0.97
40923753--40923891	60	2.3	60	83	5	172	42	12	5	38	1.67
40925640--40925684	3	15.0	3	100	0	90	0	0	66	33	0.92
40930630--40930687	27	2.1	27	100	0	116	27	13	5	53	1.61
40935223--40935322	49	2.0	50	98	1	193	34	16	14	36	1.88
40937716--40937753	3	12.7	3	100	0	76	34	0	0	65	0.93
40938011--40938043	17	1.9	17	88	11	50	30	12	6	51	1.63
40941592--40941631	15	2.7	15	84	3	55	7	30	0	62	1.23
40946774--40946823	3	17.0	3	76	19	52	68	2	0	30	1.01
40946787--40946823	15	2.6	14	91	8	65	72	0	0	27	0.84

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