genome.fa.s1.2.7.7.80.10.50.1000.77.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:  37323695

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   

This is table  77  of  93  ( 11113 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)
29545850--29545968	43	2.8	43	88	2	159	20	37	20	21	1.94
29550114--29550157	3	15.3	3	86	13	58	29	0	0	70	0.88
29550116--29550158	14	3.1	14	75	24	54	27	0	0	72	0.85
29550114--29550160	17	2.9	17	81	12	64	31	0	0	68	0.90
29551520--29551565	9	5.0	9	80	15	58	15	0	0	84	0.62
29551520--29551565	18	2.5	18	86	13	67	15	0	0	84	0.62
29551517--29551565	16	3.3	15	81	16	57	16	0	0	83	0.64
29555461--29555525	32	2.0	34	90	9	100	44	0	4	49	1.23
29555461--29555527	34	2.0	34	88	8	93	46	0	4	47	1.22
29556772--29556797	3	8.7	3	100	0	52	30	34	0	34	1.58
29560639--29560663	3	8.3	3	100	0	50	32	0	0	68	0.90
29561784--29561818	17	2.1	17	88	0	52	25	17	22	34	1.96
29571116--29571191	24	3.2	24	73	3	73	25	11	32	30	1.91
29571139--29571361	23	9.6	23	64	7	101	26	18	31	22	1.97
29571117--29571470	46	7.7	47	83	3	389	26	17	31	24	1.97
29571258--29571385	23	5.5	23	70	8	80	27	21	29	21	1.98
29572095--29572169	31	2.4	31	82	8	82	28	14	18	38	1.90
29573577--29573893	145	2.2	144	85	2	440	28	22	17	30	1.97
29576037--29576198	31	5.2	31	68	5	112	24	34	17	22	1.96
29576037--29576230	62	3.1	62	85	0	253	24	33	17	24	1.96
29576512--29576561	23	2.2	23	100	0	100	42	0	8	50	1.32
29582859--29582933	31	2.4	31	86	4	107	32	20	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29587380--29587426	24	2.0	24	86	0	67	36	21	14	27	1.93
29588395--29588425	12	2.6	12	89	0	53	70	0	0	29	0.87
29588759--29588821	13	4.8	13	75	14	58	41	0	0	58	0.98
29588756--29588827	13	5.7	12	73	15	56	40	0	0	59	0.97
29588755--29588827	25	2.9	24	84	10	83	39	0	0	60	0.97
29589073--29589115	20	2.3	19	80	8	52	37	0	4	58	1.19
29589428--29589547	39	3.2	37	76	18	113	52	0	0	47	1.00
29589458--29589524	35	1.9	35	85	11	93	47	0	0	52	1.00
29589505--29589548	17	2.4	18	81	11	54	54	0	0	45	0.99
29589438--29589540	52	2.0	51	81	7	118	51	0	0	48	1.00
29592874--29592946	29	2.5	28	80	10	76	43	10	17	27	1.83
29596756--29596813	27	2.1	27	87	0	80	3	58	1	36	1.25
29601550--29601617	30	2.2	30	86	2	100	45	7	17	29	1.75
29617311--29617363	27	2.0	26	82	14	63	50	11	1	35	1.49
29626672--29626733	4	17.2	4	72	21	57	72	0	27	0	0.85
29626670--29626733	17	3.6	17	89	10	94	71	0	28	0	0.86
29626672--29626733	28	2.2	29	88	2	90	72	0	27	0	0.85
29637347--29637371	2	12.5	2	100	0	50	48	0	0	52	1.00
29652582--29652615	6	5.5	6	89	3	50	2	0	11	85	0.71
29684202--29684269	13	5.1	13	68	18	50	30	0	22	47	1.52
29684188--29684353	27	6.0	27	74	19	112	35	1	18	44	1.58
29684227--29684481	85	3.0	85	92	1	413	37	1	16	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29684137--29684353	112	2.0	108	89	3	335	35	1	17	44	1.60
29684186--29684392	112	1.9	112	82	5	249	37	1	17	43	1.58
29687107--29687160	25	2.2	25	89	0	81	37	1	11	50	1.49
29687251--29687301	22	2.3	22	82	0	57	62	15	9	11	1.53
29690929--29690958	15	2.0	15	93	0	51	53	0	3	43	1.17
29693035--29693077	18	2.4	18	84	7	52	9	34	0	55	1.32
29699709--29699752	23	1.9	24	86	9	65	56	0	22	20	1.42
29700685--29700803	37	3.2	37	92	0	202	26	9	38	25	1.86
29700861--29700897	2	18.5	2	89	10	58	0	2	45	51	1.15
29705272--29705426	39	4.0	38	80	5	148	21	17	17	43	1.87
29705241--29705388	78	1.9	78	82	8	185	18	16	19	44	1.87
29705249--29705425	78	2.3	77	78	7	178	20	15	17	46	1.84
29705362--29705452	39	2.3	39	79	3	94	24	23	8	43	1.81
29709228--29709412	24	8.0	24	67	12	82	38	18	17	24	1.92
29709388--29709490	45	2.3	45	86	3	136	33	19	19	27	1.96
29709321--29709573	114	2.2	114	85	2	339	36	18	18	26	1.94
29709171--29709461	69	4.2	69	88	2	388	36	19	17	25	1.94
29709245--29709649	183	2.2	183	92	0	677	36	19	18	25	1.94
29709433--29709644	69	3.1	69	84	1	255	36	19	18	25	1.95
29709480--29709644	24	7.1	24	62	13	67	38	19	17	24	1.93
29709172--29709628	252	1.8	252	89	0	727	36	19	17	26	1.94
29709570--29709664	45	2.1	45	86	0	127	34	22	17	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29709667--29709800	29	4.9	28	70	16	84	41	11	14	32	1.83
29709698--29709756	26	2.3	26	79	5	66	47	11	15	25	1.79
29709731--29709827	29	3.3	29	83	8	101	37	14	12	36	1.84
29710911--29711096	55	3.4	54	77	3	174	15	14	30	39	1.87
29711123--29711202	31	2.6	31	82	4	99	28	17	22	31	1.97
29712679--29712986	31	10.0	31	81	2	352	38	20	17	22	1.93
29713649--29713709	14	4.1	14	78	12	59	50	6	9	32	1.61
29713659--29713716	31	2.0	28	83	10	71	55	5	8	31	1.52
29713656--29713717	14	4.3	14	74	20	56	54	4	8	32	1.51
29715181--29715480	31	9.7	30	72	8	235	40	19	19	21	1.92
29715210--29715483	93	2.9	93	85	2	345	41	19	18	21	1.91
29715846--29716331	156	3.1	156	82	4	536	29	18	17	35	1.93
29717964--29718256	31	9.5	31	81	7	251	36	21	17	25	1.94
29717964--29718256	62	4.7	62	79	4	306	36	21	17	25	1.94
29717970--29718256	93	3.1	91	81	4	308	36	21	17	25	1.94
29718781--29719035	47	5.4	47	84	1	334	23	34	15	26	1.94
29718780--29719037	93	2.8	94	87	2	376	23	34	15	25	1.95
29718783--29719035	140	1.8	140	85	1	364	23	34	15	26	1.95
29721344--29721392	23	2.1	24	88	3	73	51	0	8	40	1.32
29739069--29739208	70	2.0	71	94	1	246	55	3	5	35	1.41
29739121--29739895	392	2.0	393	91	2	1281	51	6	8	33	1.57
29739947--29740010	17	4.0	15	76	23	60	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29739949--29739996	18	2.6	19	90	6	73	72	0	0	27	0.84
29739947--29739996	19	2.9	18	86	13	70	72	0	0	28	0.86
29739947--29740003	23	2.4	23	81	18	73	71	0	0	28	0.86
29739912--29740169	130	2.0	130	96	1	475	62	4	6	27	1.38
29740076--29740127	4	13.2	4	77	18	56	71	0	0	28	0.87
29740076--29740134	12	5.0	11	80	13	64	72	0	0	27	0.84
29740079--29740133	24	2.3	24	87	12	78	72	0	0	27	0.85
29740076--29740127	18	3.1	16	78	21	61	71	0	0	28	0.87
29739983--29740161	44	4.1	43	66	22	122	62	3	5	27	1.35
29744708--29744790	40	2.1	39	81	2	94	46	2	1	49	1.22
29757145--29757184	2	20.5	2	84	5	55	0	50	2	47	1.14
29760448--29760499	21	2.4	21	78	15	61	53	5	25	15	1.63
29763013--29763040	2	14.0	2	100	0	56	50	0	0	50	1.00
29771300--29771352	22	2.4	22	80	0	61	52	3	39	3	1.37
29774273--29774305	5	6.6	5	90	10	50	3	15	0	81	0.80
29776325--29776382	28	2.1	28	100	0	116	39	13	22	24	1.90
29786519--29786565	20	2.3	20	100	0	94	31	8	21	38	1.83
29793831--29793855	4	6.2	4	100	0	50	24	48	0	28	1.52
29799525--29799586	22	2.8	22	82	4	63	24	8	20	46	1.77
29799620--29799679	22	2.8	21	72	5	57	25	10	20	45	1.81
29799783--29799847	22	3.0	22	88	4	78	44	15	10	29	1.80
29799971--29800096	60	2.1	60	80	5	139	40	19	9	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29803187--29803218	2	16.0	2	100	0	64	50	0	0	50	1.00
29804905--29804934	2	15.0	2	92	0	51	46	0	3	50	1.18
29805421--29805514	23	4.1	23	81	0	107	26	10	39	23	1.87
29805437--29805565	46	2.8	45	78	9	129	30	12	37	20	1.89
29805460--29805628	67	2.5	67	76	11	159	31	14	33	21	1.93
29805544--29805628	23	3.8	23	76	10	95	30	15	29	24	1.95
29805658--29805807	47	3.2	47	80	2	169	30	18	29	22	1.97
29806349--29806471	64	1.9	65	81	5	151	26	11	25	36	1.90
29806498--29806672	31	5.6	31	88	0	251	31	16	20	32	1.94
29806498--29806672	93	1.9	93	90	2	280	31	16	20	32	1.94

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