genome.fa.s1.2.7.7.80.10.50.1000.54.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  54  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)
20670603--20670627	13	1.9	13	100	0	50	40	20	16	24	1.91
20671070--20671129	31	1.9	32	89	3	95	30	11	25	33	1.91
20675347--20675426	37	2.2	37	90	4	135	25	37	10	27	1.88
20679801--20680147	174	2.0	173	93	1	588	31	15	17	35	1.91
20694962--20695117	54	2.9	54	88	0	222	25	37	14	22	1.93
20698063--20698125	21	3.0	21	88	0	90	20	26	22	30	1.98
20703292--20703438	36	4.2	36	83	4	185	35	6	13	44	1.71
20709397--20709545	42	3.5	42	82	0	172	23	20	32	22	1.98
20709588--20709623	12	3.0	12	87	0	54	44	5	5	44	1.50
20723155--20723290	36	3.8	36	87	0	200	25	39	15	19	1.91
20733164--20733199	2	18.5	2	94	5	65	50	0	0	50	1.00
20733226--20733344	43	2.8	43	87	3	161	25	33	16	24	1.96
20739229--20739373	29	5.0	28	81	9	146	40	11	12	36	1.78
20739236--20739395	29	5.4	31	76	12	133	38	10	11	40	1.75
20739263--20739394	60	2.2	60	83	6	160	37	9	11	40	1.74
20742146--20742209	29	2.2	29	97	0	119	43	10	26	18	1.83
20749088--20749130	22	2.0	20	86	8	59	37	11	25	25	1.90
20760323--20760467	29	5.0	28	81	12	157	40	10	13	36	1.78
20760323--20760488	60	2.8	58	82	6	199	38	10	12	39	1.76
20760522--20760680	79	2.0	78	97	1	300	33	16	15	34	1.90
20762354--20762429	25	3.2	25	64	21	72	35	26	2	35	1.71
20762377--20762449	21	3.3	21	65	20	58	32	26	1	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20762354--20762449	46	2.1	46	100	0	192	34	26	2	37	1.68
20763913--20764068	37	4.2	37	90	3	260	25	35	9	28	1.88
20769058--20769105	25	1.9	25	82	0	60	27	16	29	27	1.97
20774400--20774521	37	3.3	38	85	5	178	28	9	35	27	1.87
20782628--20782747	58	2.1	57	92	4	197	36	18	9	35	1.83
20785844--20785886	23	2.0	22	81	9	52	62	6	18	11	1.50
20786716--20786740	13	1.9	13	100	0	50	44	0	8	48	1.32
20798660--20798799	68	2.1	66	88	5	201	32	26	12	27	1.93
20800885--20801006	43	2.8	43	81	7	133	27	16	36	19	1.93
20801328--20801488	60	2.7	60	75	12	154	27	19	22	29	1.98
20808790--20808839	9	5.2	10	77	13	52	2	30	0	68	1.01
20813477--20813567	35	2.8	32	76	15	103	32	23	14	29	1.94
20815223--20815441	35	6.2	36	80	3	198	44	13	5	36	1.68
20815223--20815441	71	3.1	70	76	5	228	44	13	5	36	1.68
20818959--20819007	17	2.9	17	90	0	80	16	20	32	30	1.94
20831878--20831916	19	2.1	19	85	9	53	43	10	33	12	1.77
20832538--20832691	76	2.0	75	96	1	281	41	8	10	39	1.70
20835205--20835376	89	1.9	89	85	2	238	28	12	25	34	1.92
20835306--20835409	53	1.9	54	86	1	147	29	14	22	33	1.93
20837321--20837345	13	1.9	13	100	0	50	12	8	0	80	0.92
20840153--20840197	14	3.2	14	84	9	56	2	13	0	84	0.72
20840152--20840201	5	10.8	5	79	12	54	2	16	0	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20840145--20840201	27	2.1	27	83	6	71	1	17	0	80	0.79
20840168--20840215	4	12.5	4	85	14	50	0	18	0	81	0.70
20840159--20840216	11	5.6	11	78	17	54	0	20	0	79	0.74
20840343--20840488	35	4.2	33	82	9	159	30	29	11	28	1.92
20840343--20840488	69	2.1	69	83	9	183	30	29	11	28	1.92
20840526--20840607	34	2.3	36	81	4	96	40	35	6	18	1.75
20840917--20840968	17	2.9	18	78	21	56	11	23	0	65	1.25
20848852--20848995	29	5.0	28	85	7	180	36	13	10	38	1.80
20848830--20848994	59	2.8	57	83	6	204	40	12	9	37	1.75
20855368--20855415	20	2.4	20	85	0	60	20	31	25	22	1.98
20855510--20855544	16	2.1	18	89	10	56	57	0	5	37	1.23
20856846--20856987	29	5.0	28	83	7	169	35	13	11	40	1.80
20856824--20856984	57	2.8	56	79	10	171	39	12	9	38	1.76
20858477--20858518	19	2.2	19	86	0	57	38	11	9	40	1.75
20859433--20859475	17	2.7	15	82	10	50	23	0	13	62	1.31
20859427--20859475	15	3.5	15	74	20	52	22	0	12	65	1.26
20859458--20859500	20	2.2	20	83	8	52	27	2	6	62	1.33
20860608--20860634	14	1.9	14	100	0	54	29	0	11	59	1.32
20866294--20866412	43	2.8	43	90	0	184	21	21	36	20	1.95
20866304--20866425	43	2.8	43	89	0	181	22	18	38	19	1.93
20866411--20866473	20	3.2	19	88	2	90	25	4	41	28	1.75
20869092--20869133	5	8.6	5	84	5	59	19	4	0	76	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20872894--20872958	20	3.2	20	75	16	55	26	3	10	60	1.45
20873494--20873612	61	2.0	58	95	3	202	27	10	16	44	1.80
20874455--20874553	32	3.0	33	73	10	94	35	25	15	24	1.94
20874464--20874553	35	2.7	32	76	8	92	33	26	15	24	1.95
20876417--20876779	180	2.0	179	94	1	645	23	9	32	33	1.86
20889005--20889077	29	2.4	29	84	4	92	31	10	12	45	1.76
20890859--20890891	2	16.5	2	100	0	66	51	0	0	48	1.00
20890964--20890998	2	17.5	2	100	0	70	48	0	0	51	1.00
20894259--20894459	54	3.7	54	85	2	251	22	15	40	20	1.91
20908075--20908126	20	2.6	20	87	0	68	46	23	3	26	1.69
20909054--20909104	2	26.0	2	84	4	68	50	0	1	47	1.12
20909328--20909381	2	28.5	2	85	10	78	50	0	1	48	1.11
20910607--20910700	35	2.6	36	94	1	163	27	40	12	19	1.88
20915341--20915408	30	2.3	30	84	0	82	57	4	5	32	1.43
20915629--20915667	14	2.7	15	92	4	62	56	0	0	43	0.99
20915632--20915668	15	2.5	15	90	0	56	62	0	0	37	0.96
20915825--20915855	10	3.0	10	95	4	53	67	0	0	32	0.91
20917036--20917060	5	5.0	5	100	0	50	20	0	0	80	0.72
20923571--20923614	16	2.8	16	82	0	52	13	20	27	38	1.90
20934512--20934559	13	3.7	14	71	18	50	62	0	0	37	0.95
20934512--20934567	15	3.3	19	67	25	52	62	0	0	37	0.95
20935439--20935465	14	1.9	14	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20941341--20941411	36	2.0	37	83	10	94	22	1	23	52	1.55
20943840--20943864	13	1.9	13	100	0	50	48	8	0	44	1.32
20945104--20945140	19	1.9	19	94	0	65	43	27	0	29	1.55
20947044--20947076	17	1.9	17	88	11	50	42	15	3	39	1.62
20947237--20947295	28	2.1	28	90	6	93	40	10	8	40	1.69
20950154--20950191	19	2.0	19	94	0	67	42	28	0	28	1.56
20957224--20957261	19	2.0	19	94	0	67	42	28	0	28	1.56
20958544--20958654	32	3.4	32	77	16	127	35	27	12	24	1.92
20958561--20958671	35	3.3	33	80	16	138	32	26	12	28	1.93
20958517--20958694	67	2.6	68	85	7	229	34	26	12	25	1.92
20958541--20958697	32	4.6	33	75	14	115	36	27	13	22	1.92
20969611--20969652	21	2.0	21	90	9	68	38	21	9	30	1.85
20969546--20969698	50	3.1	51	81	6	154	38	16	7	37	1.76
20970147--20970212	21	3.1	21	86	0	96	24	7	21	46	1.76
20970147--20970226	21	3.8	21	83	5	90	23	7	20	48	1.74
20970348--20970394	22	2.1	22	88	4	67	23	4	10	61	1.46
20970307--20970394	21	4.0	23	79	7	69	25	4	15	54	1.60
20970317--20970405	21	4.1	21	74	8	63	26	3	13	56	1.53
20970433--20970475	21	2.0	21	86	0	59	34	6	16	41	1.75
20970440--20970483	21	2.1	21	87	8	63	36	4	15	43	1.68
20972254--20972320	31	2.1	33	86	5	93	16	22	11	49	1.78
20972504--20972550	24	1.9	25	83	12	62	34	25	12	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20972545--20972618	34	2.2	34	82	4	87	39	22	6	31	1.80
20972901--20972964	32	1.9	34	84	6	87	7	32	1	57	1.37
20974631--20974718	28	3.0	28	80	8	86	37	9	12	40	1.75
20978615--20978677	22	2.9	22	97	0	117	30	3	23	42	1.70
20988920--20988964	20	2.3	20	78	21	51	17	0	33	48	1.48
20989821--20989859	19	2.1	19	82	17	55	82	0	2	15	0.79
20989823--20989857	8	4.2	8	88	3	52	85	0	2	11	0.69
20990433--20990488	21	2.6	21	88	8	78	71	0	8	19	1.12
20996552--20996579	8	3.5	8	100	0	56	85	0	14	0	0.59
20996991--20997056	20	3.3	20	77	10	73	65	0	21	13	1.27

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