genome.fa.s1.2.7.7.80.10.50.1000.28.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  28  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)
11586666--11586993	93	3.5	93	86	2	374	26	14	21	36	1.93
11591132--11591206	31	2.4	31	84	4	89	37	24	14	24	1.93
11591189--11591244	23	2.4	23	81	0	76	26	30	17	25	1.97
11591276--11591461	55	3.4	55	75	3	167	44	30	12	12	1.80
11591671--11591790	63	1.9	63	85	0	168	31	17	31	19	1.95
11605452--11605520	4	18.0	4	91	5	83	55	0	0	43	1.00
11605452--11605520	6	12.0	6	80	14	83	55	0	0	43	1.00
11615720--11615779	31	1.9	31	93	6	104	45	6	8	40	1.61
11625821--11625870	21	2.4	21	82	0	55	38	14	8	40	1.75
11631062--11631109	21	2.3	20	75	10	51	16	22	4	56	1.58
11650379--11650410	16	1.9	17	93	6	57	37	6	6	50	1.53
11650979--11651030	21	2.5	21	84	6	61	67	5	0	26	1.13
11653268--11653337	22	3.2	21	71	16	61	42	2	2	51	1.31
11654911--11655070	80	2.0	78	93	2	275	38	8	1	50	1.44
11655089--11655154	19	3.5	18	76	17	71	25	0	0	74	0.82
11655082--11655158	25	3.1	25	75	7	75	27	0	0	72	0.85
11657210--11657277	28	2.5	26	75	20	68	38	1	1	58	1.16
11657505--11657572	29	2.5	27	73	17	68	61	2	0	35	1.11
11657491--11657569	30	2.6	31	80	7	83	60	2	0	36	1.10
11667398--11667473	25	3.1	25	75	11	77	38	7	14	39	1.75
11670444--11670468	2	12.5	2	100	0	50	48	0	0	52	1.00
11676656--11676688	8	4.2	8	88	3	50	87	0	12	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11678639--11678799	54	3.0	51	79	10	162	24	17	12	45	1.82
11678756--11678846	46	2.0	47	88	2	139	21	27	12	38	1.89
11679056--11679284	120	1.9	121	87	0	334	25	21	12	40	1.88
11679928--11680040	56	2.0	56	94	0	199	46	7	9	36	1.64
11680104--11680137	2	16.0	2	88	11	50	47	0	5	47	1.26
11680236--11680286	2	27.5	2	84	15	74	50	0	0	49	1.00
11680236--11680289	9	6.1	9	85	12	67	50	0	0	50	1.00
11694623--11694687	26	2.5	26	72	7	60	60	0	4	35	1.18
11695538--11695595	27	2.1	27	93	0	98	39	5	18	36	1.74
11695548--11695606	27	2.2	27	87	0	82	38	3	18	38	1.68
11696063--11696274	86	2.5	84	81	7	241	44	8	7	39	1.63
11696408--11696452	19	2.4	19	88	0	72	31	15	6	46	1.72
11696955--11697003	2	24.5	2	100	0	98	48	0	0	51	1.00
11698374--11698449	35	2.2	35	85	0	98	31	15	43	9	1.79
11698479--11698559	33	2.5	33	81	4	92	37	7	43	12	1.70
11699869--11700255	47	8.2	46	75	8	214	28	15	31	24	1.96
11699869--11700311	94	4.7	94	86	1	512	28	16	31	23	1.96
11699916--11700311	47	8.4	47	83	0	443	28	16	31	23	1.96
11700227--11700328	23	4.4	22	73	16	80	28	17	30	23	1.97
11700895--11701063	31	5.5	31	86	0	212	27	15	20	35	1.94
11701055--11701089	17	2.1	17	100	0	70	25	17	11	45	1.81
11703307--11703572	31	8.6	31	79	1	273	25	15	20	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11703298--11703572	62	4.4	62	80	1	318	25	16	21	37	1.93
11703307--11703571	124	2.1	124	87	1	379	25	15	20	38	1.92
11705106--11705239	52	2.5	51	85	8	171	37	10	3	48	1.55
11705164--11705210	16	3.1	16	82	17	64	42	10	0	46	1.38
11706199--11706362	31	5.3	31	86	0	238	25	18	18	37	1.94
11707351--11707412	31	2.0	31	83	0	79	30	19	22	27	1.98
11707358--11707421	31	2.1	31	84	0	83	32	15	20	31	1.94
11711343--11711583	55	4.4	54	77	9	168	43	29	12	13	1.81
11711343--11711575	110	2.1	110	81	6	276	43	30	12	13	1.81
11717685--11717710	3	8.7	3	100	0	52	30	0	0	69	0.89
11721356--11721417	29	2.1	30	88	8	92	62	1	4	30	1.25
11721356--11721431	29	2.6	29	80	12	84	56	1	7	34	1.37
11727784--11727814	14	2.2	14	94	0	53	64	0	3	32	1.09
11729519--11729543	3	8.3	3	100	0	50	64	0	0	36	0.94
11732614--11732652	12	3.3	12	92	3	62	46	20	5	28	1.72
11733060--11733096	19	1.9	19	94	0	65	32	10	24	32	1.90
11735781--11735813	16	2.0	17	88	5	50	81	9	9	0	0.87
11736217--11736335	34	3.5	34	83	0	157	32	11	18	36	1.87
11736353--11736399	24	1.9	25	83	12	62	27	12	25	34	1.92
11736496--11736543	22	2.2	22	96	0	87	35	12	43	8	1.73
11736620--11736682	25	2.5	25	89	0	99	49	12	22	15	1.79
11736730--11736791	28	2.2	28	100	0	124	51	16	22	9	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11737084--11737109	2	13.0	2	100	0	52	50	0	0	50	1.00
11746497--11746570	35	2.1	34	85	7	96	59	16	1	22	1.44
11747426--11747523	31	3.2	31	69	16	87	25	17	21	35	1.95
11747429--11747703	60	4.6	60	74	7	234	26	18	17	37	1.93
11747426--11747712	121	2.4	121	77	6	303	25	19	18	36	1.94
11749665--11749705	17	2.4	17	88	8	57	0	4	7	87	0.65
11749753--11749802	22	2.2	23	85	3	66	8	14	8	70	1.34
11752283--11753839	253	6.2	251	80	5	1603	35	11	5	47	1.64
11753266--11753298	17	1.9	17	88	11	50	48	9	3	39	1.50
11754159--11755722	251	6.1	249	78	9	1351	48	6	10	34	1.62
11754152--11755722	504	3.1	499	79	10	1676	48	6	10	35	1.61
11755081--11755130	25	2.0	25	100	0	100	56	8	4	32	1.47
11755506--11755538	17	1.9	17	88	11	50	45	3	6	45	1.43
11755213--11755711	245	2.0	246	85	4	675	48	5	11	35	1.62
11755944--11756021	39	2.0	38	82	9	95	44	5	10	39	1.60
11756059--11756096	17	2.2	17	90	0	58	42	10	7	39	1.69
11761205--11761344	8	16.9	8	65	17	54	47	3	2	45	1.34
11769332--11769385	27	2.0	27	92	3	92	24	35	3	37	1.73
11771096--11771144	24	2.1	23	88	3	71	24	4	0	71	1.03
11771105--11771140	16	2.1	18	90	10	58	22	5	0	72	1.05
11771588--11771628	14	2.7	15	85	7	57	48	0	7	43	1.30
11772514--11772543	3	10.3	3	92	7	53	0	30	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11776518--11776551	2	17.0	2	100	0	68	50	0	0	50	1.00
11776664--11776821	79	2.0	78	97	1	298	36	13	6	42	1.70
11777424--11777465	22	1.9	22	95	0	75	28	7	21	42	1.79
11777486--11777537	21	2.5	22	84	9	72	26	9	19	44	1.81
11777513--11777561	22	2.2	22	92	0	80	24	10	18	46	1.79
11777572--11777656	23	3.7	23	80	0	107	34	27	12	25	1.93
11777621--11777697	23	3.4	22	82	7	75	35	29	11	23	1.90
11777715--11777756	21	2.0	21	86	9	59	33	23	21	21	1.97
11777723--11777790	21	3.2	21	76	15	59	39	23	13	23	1.90
11777892--11777925	10	3.4	10	87	0	50	58	14	5	20	1.57
11777900--11778040	60	2.3	61	87	4	198	42	18	7	31	1.79
11786627--11786668	6	7.2	6	97	2	77	30	52	0	16	1.44
11788510--11788602	46	2.0	46	100	0	186	51	4	10	33	1.56
11790998--11791312	103	3.0	103	88	4	427	18	19	22	40	1.91
11795430--11795572	70	2.0	70	95	0	259	41	12	18	27	1.86
11802908--11802949	12	3.4	12	86	3	57	2	7	2	88	0.69
11803000--11803031	6	4.9	7	88	11	50	0	9	0	90	0.45
11802865--11803039	90	2.0	88	94	4	307	16	9	9	64	1.47
11802998--11803031	13	2.6	13	90	0	59	0	8	0	91	0.43
11806078--11806128	26	2.0	26	88	7	77	56	1	1	39	1.22
11806111--11806154	22	2.0	22	90	0	70	40	0	0	59	0.98
11806131--11806159	15	1.9	15	100	0	58	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11806170--11806235	4	16.5	4	90	0	96	0	56	0	43	0.99
11806170--11806235	6	11.0	6	90	0	96	0	56	0	43	0.99
11811305--11811346	21	2.1	19	86	8	57	54	0	0	45	0.99
11813463--11813502	21	1.9	21	94	0	71	5	50	5	40	1.46
11813462--11813508	21	2.2	20	85	10	67	6	51	6	36	1.53
11817700--11817931	23	10.1	23	72	9	150	29	11	34	24	1.91
11817721--11817896	70	2.5	70	80	7	182	30	13	31	25	1.93
11817985--11818127	23	6.2	23	72	6	110	27	13	32	26	1.94
11817939--11818057	45	2.6	45	88	4	168	26	16	31	25	1.97
11818091--11818268	81	2.2	80	86	1	239	28	12	34	24	1.92

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