genome.fa.s6.2.7.7.80.10.50.1000.92.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  92  of  109  ( 13028 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)
29217809--29217874	35	1.9	35	90	3	107	30	10	15	43	1.80
29217824--29217863	20	2.0	20	85	0	53	27	12	12	47	1.77
29220437--29221285	37	22.9	37	99	0	1680	40	16	2	40	1.63
29224263--29224529	126	2.1	126	85	1	356	35	17	16	31	1.92
29224363--29224715	186	1.9	186	88	2	539	34	18	17	30	1.94
29227528--29227597	25	2.7	26	72	26	67	47	5	0	47	1.26
29227623--29227647	11	2.3	11	100	0	50	72	0	0	28	0.86
29227993--29228028	18	2.0	18	88	0	54	38	11	25	25	1.88
29229445--29229605	43	3.7	43	81	8	157	22	19	25	32	1.97
29232753--29233000	123	2.0	124	98	0	480	29	16	16	37	1.90
29235359--29235417	30	2.0	30	89	0	91	44	3	22	30	1.69
29236321--29236377	29	2.0	29	92	0	96	49	12	10	28	1.73
29237141--29237193	27	2.0	27	92	7	90	22	16	22	37	1.94
29239346--29239461	62	1.9	59	85	5	160	42	2	4	50	1.35
29245867--29246021	42	3.7	42	84	11	201	27	16	27	28	1.97
29248468--29248526	25	2.3	27	80	16	72	27	22	5	45	1.73
29251432--29251473	21	2.0	22	90	4	68	30	4	26	38	1.77
29252934--29252977	18	2.4	18	81	7	54	36	9	0	54	1.32
29253981--29254022	21	2.0	21	86	4	59	38	0	0	61	0.96
29254055--29254096	13	2.9	14	80	13	50	54	0	0	45	0.99
29254059--29254095	16	2.3	16	86	13	58	59	0	0	40	0.97
29254581--29254621	19	2.2	19	86	8	57	58	7	0	34	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29254581--29254621	20	2.1	19	86	4	55	58	7	0	34	1.26
29261837--29261910	11	6.3	12	76	19	59	4	24	2	68	1.19
29264476--29264519	18	2.4	18	84	3	52	34	2	2	61	1.21
29265958--29266045	31	2.9	31	81	6	110	39	19	9	31	1.83
29266494--29266560	24	2.8	24	86	4	91	50	4	16	28	1.64
29287292--29287449	78	2.0	79	98	1	309	41	12	2	43	1.56
29293567--29293630	31	2.1	30	88	2	92	35	17	6	40	1.75
29299598--29299632	17	2.1	17	89	10	54	37	0	5	57	1.23
29312581--29312653	23	3.2	23	86	7	112	21	20	27	30	1.98
29316519--29316629	37	2.8	39	77	9	109	32	24	18	25	1.97
29317594--29317635	13	3.5	13	75	18	54	50	0	0	50	1.00
29317590--29317635	23	2.1	21	92	8	74	47	0	0	52	1.00
29332814--29332841	1	28.0	1	100	0	56	0	0	0	100	0.00
29333178--29333205	1	28.0	1	100	0	56	0	0	0	100	0.00
29336495--29336538	21	2.1	21	100	0	88	18	38	13	29	1.89
29338308--29338402	45	2.1	46	98	2	183	44	23	10	22	1.83
29339142--29339173	2	16.5	2	93	6	57	50	0	0	50	1.00
29345411--29345476	31	2.1	31	85	0	87	40	9	10	39	1.71
29346741--29346766	5	5.2	5	100	0	52	0	19	61	19	1.35
29348034--29348092	31	1.9	31	82	6	75	64	3	3	28	1.26
29348708--29348767	26	2.2	28	77	14	72	31	1	6	60	1.33
29348918--29348952	17	2.1	17	89	10	54	65	5	8	20	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29353782--29353837	28	1.9	28	85	7	76	32	19	12	35	1.89
29359304--29359354	15	3.4	15	75	20	61	13	33	29	23	1.93
29359293--29359357	30	2.2	30	94	0	112	20	35	26	18	1.95
29360400--29360450	20	2.5	20	93	0	84	31	15	35	17	1.92
29360419--29360463	20	2.2	20	84	0	54	37	20	28	13	1.90
29364318--29364351	17	2.0	17	100	0	68	52	23	5	17	1.66
29364660--29364745	26	3.3	27	75	16	67	75	6	1	16	1.07
29364660--29364724	26	2.5	26	78	14	73	75	7	1	15	1.10
29364660--29364736	6	12.5	6	74	15	59	75	6	1	16	1.08
29370316--29370381	9	7.2	9	83	10	80	39	28	9	22	1.85
29370317--29370351	17	2.1	17	88	0	52	37	28	11	22	1.89
29370314--29370388	20	3.5	20	79	15	78	41	28	8	22	1.82
29370351--29370393	11	4.2	11	82	14	56	46	25	6	20	1.76
29371748--29371793	19	2.4	19	96	0	83	26	19	28	26	1.99
29384210--29384321	49	2.3	49	80	6	120	53	8	3	33	1.49
29384739--29384790	25	2.1	25	85	7	70	65	3	1	28	1.21
29386388--29386429	22	1.9	22	85	9	59	26	16	16	40	1.90
29388441--29388819	188	2.0	189	99	0	751	42	8	11	36	1.73
29391127--29391269	71	2.0	72	98	1	279	11	23	20	43	1.85
29391710--29391739	2	15.0	2	92	0	51	46	3	0	50	1.18
29395055--29395146	43	2.1	43	86	6	123	75	4	11	8	1.18
29395518--29395562	20	2.2	21	88	4	65	73	0	13	13	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29397218--29397456	44	5.4	43	70	13	164	26	23	25	24	2.00
29397199--29397526	88	3.8	88	89	2	493	26	23	26	24	2.00
29397533--29397644	44	2.5	44	78	5	111	29	16	23	30	1.96
29399366--29399415	21	2.4	22	80	16	61	22	6	6	66	1.36
29399801--29400085	111	2.6	111	89	3	432	29	16	21	32	1.95
29402556--29402592	9	4.1	9	92	0	65	29	10	13	45	1.77
29402646--29402676	9	3.4	9	90	0	53	38	22	12	25	1.90
29404065--29404098	17	2.0	17	94	0	59	14	52	17	14	1.74
29409738--29409778	7	5.9	7	86	11	57	73	0	14	12	1.11
29409738--29409778	21	2.0	21	90	0	64	73	0	14	12	1.11
29411129--29411891	132	5.8	132	86	4	961	29	18	23	28	1.98
29411884--29412165	44	6.4	44	85	4	372	31	14	24	29	1.95
29412698--29412731	17	2.0	17	94	0	59	14	52	17	14	1.74
29413620--29413671	3	17.3	3	80	7	52	30	7	0	61	1.24
29413603--29413674	36	2.1	34	86	5	99	29	12	0	58	1.35
29413691--29413753	21	3.0	20	70	6	54	33	3	6	57	1.40
29417334--29417398	34	1.9	33	84	9	87	41	12	7	38	1.71
29425534--29425580	25	1.9	25	83	12	62	17	2	12	68	1.31
29432240--29432342	47	2.2	45	79	6	109	54	4	6	33	1.48
29439312--29439551	45	5.3	45	88	0	327	20	19	19	40	1.92
29444039--29444105	9	7.4	9	87	0	98	26	8	20	43	1.82
29462406--29462489	42	2.0	42	97	0	159	21	22	9	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29462461--29462509	23	2.1	23	96	0	89	18	32	4	44	1.68
29464103--29464139	19	2.1	17	90	10	56	56	0	24	18	1.41
29464349--29464379	7	4.6	7	96	4	55	12	0	0	87	0.55
29466496--29466530	3	11.7	3	100	0	70	34	0	0	65	0.93
29472121--29472177	19	3.3	19	68	27	63	43	8	17	29	1.79
29472115--29472178	32	2.0	32	100	0	128	40	9	18	31	1.83
29477644--29477705	31	2.0	31	93	0	106	33	8	11	46	1.69
29480462--29480486	6	4.2	6	100	0	50	84	0	0	16	0.63
29482142--29482182	21	2.0	21	90	0	64	46	14	2	36	1.58
29483086--29483153	31	2.2	31	81	5	84	36	10	7	45	1.66
29486699--29486731	14	2.2	16	89	10	52	54	0	0	45	0.99
29489349--29489387	2	19.5	2	100	0	78	51	0	0	48	1.00
29489603--29489667	29	2.2	29	83	8	78	35	1	20	43	1.61
29499480--29499504	2	12.5	2	100	0	50	0	0	48	52	1.00
29501456--29501795	121	2.8	121	86	1	475	43	18	16	21	1.87
29510473--29510512	16	2.4	16	87	4	53	62	0	0	37	0.95
29514344--29514383	20	2.0	20	85	4	55	37	7	0	55	1.29
29515436--29515516	34	2.6	31	80	14	103	45	3	1	49	1.27
29523647--29523687	3	13.3	3	94	5	73	65	0	0	34	0.93
29532394--29532444	16	3.0	17	74	8	50	49	0	0	50	1.00
29536289--29536332	22	2.1	21	87	8	63	25	2	4	68	1.20
29547173--29547211	18	2.2	17	86	13	53	33	0	20	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29547437--29547783	23	15.1	23	81	4	414	26	19	23	30	1.98
29547437--29547771	69	4.9	69	99	0	652	26	19	24	30	1.98
29549382--29549527	49	2.9	48	81	4	157	25	12	27	34	1.92
29549382--29549527	50	2.9	49	83	2	175	25	12	27	34	1.92
29552714--29552744	9	3.4	9	90	0	53	25	12	22	38	1.90
29553801--29553826	5	5.2	5	100	0	52	19	19	19	42	1.90
29554632--29554663	3	10.7	3	100	0	64	31	0	0	68	0.90
29555449--29555499	22	2.4	22	83	3	59	21	29	17	31	1.96
29555459--29555500	22	1.9	22	90	0	66	21	30	16	30	1.95
29560452--29560511	28	2.1	28	90	0	93	8	31	5	55	1.51

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