genome.fa.s1.2.7.7.80.10.50.1000.6.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  6  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)
2726914--2726992	3	26.7	3	72	19	51	26	2	0	70	0.99
2726914--2726992	16	5.3	16	73	20	66	26	2	0	70	0.99
2726923--2726992	32	2.2	33	89	2	106	24	2	0	72	0.98
2727002--2727027	7	3.7	7	100	0	52	57	0	0	42	0.98
2727938--2727967	13	2.3	13	94	0	51	33	0	0	66	0.92
2727934--2728002	23	3.1	21	76	16	52	28	0	1	69	0.97
2741901--2741933	12	2.6	13	90	4	50	27	3	0	69	1.03
2745771--2745815	22	2.0	22	100	0	90	22	8	31	37	1.85
2750376--2750400	2	12.5	2	100	0	50	48	0	0	52	1.00
2754802--2754843	2	22.0	2	85	9	61	45	0	2	52	1.13
2766619--2766662	2	23.0	2	90	9	74	47	0	0	52	1.00
2799426--2799473	9	5.4	9	92	2	62	43	0	50	6	1.27
2799427--2799473	18	2.7	18	90	3	78	44	0	48	6	1.28
2817758--2817840	41	2.0	43	90	4	134	22	19	24	33	1.97
2833598--2833661	2	32.0	2	77	14	53	48	3	1	46	1.27
2855956--2855987	2	16.0	2	93	0	55	0	53	0	46	1.00
2856662--2856702	19	2.2	19	86	8	57	46	0	0	53	1.00
2858588--2858623	19	1.9	18	88	5	54	58	11	0	30	1.33
2865427--2865485	14	4.4	13	73	23	59	61	1	1	35	1.16
2865481--2865621	41	3.5	41	68	15	103	41	5	1	51	1.34
2889414--2889613	108	1.9	108	89	0	310	37	16	4	42	1.66
2891262--2891309	21	2.3	22	82	7	55	50	2	2	45	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2891676--2891725	22	2.2	23	82	13	68	52	0	2	46	1.12
2891813--2891869	22	2.6	21	89	8	87	47	3	3	45	1.37
2891813--2891871	11	5.4	11	75	0	64	47	3	3	45	1.36
2894926--2894992	29	2.3	29	82	5	82	31	4	17	46	1.68
2896141--2896165	13	1.9	13	100	0	50	52	0	0	48	1.00
2897308--2897356	15	3.3	15	86	11	64	30	0	18	51	1.47
2901211--2901240	13	2.4	12	94	5	51	36	0	0	63	0.95
2901599--2901661	21	3.0	21	77	11	74	47	1	1	49	1.20
2901664--2901709	14	3.4	14	81	3	58	13	4	2	80	0.95
2904132--2904175	16	2.6	17	86	10	56	6	18	0	75	1.02
2904135--2904196	13	4.7	13	76	21	58	6	19	0	74	1.03
2911867--2911922	2	28.0	2	100	0	112	50	0	0	50	1.00
2923459--2923506	2	24.5	2	91	4	80	47	2	0	50	1.12
2931074--2931139	34	2.0	33	87	3	96	34	34	7	22	1.83
2933102--2933157	25	2.3	24	82	11	69	66	1	0	32	1.03
2933102--2933152	27	2.0	25	84	7	66	66	1	0	31	1.03
2941903--2942070	84	2.0	83	87	7	243	48	4	10	36	1.58
2955145--2955186	17	2.5	16	81	11	57	64	0	7	28	1.20
2984160--2984193	3	11.3	3	93	0	50	26	0	5	67	1.13
2988981--2989129	2	77.5	2	83	15	190	48	0	0	49	1.11
2992685--2992848	84	1.9	85	90	1	258	37	10	12	39	1.79
3004779--3004886	53	2.0	53	94	0	189	26	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016037--3016061	12	2.1	12	100	0	50	48	16	28	8	1.74
3026004--3026041	7	5.4	7	100	0	76	0	13	55	31	1.38
3058298--3058350	24	2.2	25	78	18	60	56	0	0	43	0.99
3076937--3076984	2	25.5	2	79	12	57	50	0	50	0	1.00
3094690--3094773	42	2.0	42	95	0	150	30	16	23	28	1.96
3121266--3121296	10	3.1	10	95	0	53	19	16	12	51	1.76
3123762--3124267	66	7.6	66	79	6	303	21	29	22	26	1.99
3123967--3124315	132	2.6	132	79	4	337	20	30	23	25	1.98
3126261--3126338	22	3.6	22	73	3	68	46	17	8	26	1.78
3126356--3126397	22	1.9	22	95	0	75	45	23	4	26	1.73
3163467--3163530	32	2.0	32	87	0	92	42	3	1	53	1.26
3163588--3163627	19	2.1	18	90	9	62	25	2	0	72	0.97
3163824--3163867	22	2.0	22	90	0	70	45	13	0	40	1.44
3169179--3169272	2	49.0	2	81	16	101	51	1	0	46	1.08
3173040--3173179	45	3.1	45	82	8	169	31	14	17	37	1.89
3173142--3173203	24	2.6	24	89	0	88	27	14	19	38	1.90
3173108--3173351	69	3.5	69	89	1	328	30	15	15	38	1.88
3173211--3173333	24	5.2	24	69	9	83	28	12	17	42	1.85
3173341--3173381	21	2.0	21	85	0	55	43	21	7	26	1.79
3174228--3174311	41	2.0	41	100	0	168	19	33	9	38	1.84
3178382--3178441	30	2.0	30	93	0	102	40	6	16	36	1.75
3179891--3180017	67	1.9	67	98	0	245	48	16	8	26	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3190047--3190176	12	10.8	12	68	6	84	49	4	41	4	1.44
3190047--3190176	24	5.4	24	92	0	206	49	4	41	4	1.44
3193205--3193233	2	14.5	2	100	0	58	0	51	0	48	1.00
3200937--3200980	16	2.8	16	78	0	52	31	9	13	45	1.75
3208103--3208159	28	2.0	28	96	0	105	31	8	7	52	1.59
3215370--3215457	22	4.0	22	79	1	88	29	9	14	46	1.76
3221224--3221291	28	2.4	29	75	9	68	54	4	0	41	1.20
3224435--3224466	2	16.0	2	100	0	64	50	0	0	50	1.00
3235772--3235835	30	2.1	30	94	0	110	34	6	3	56	1.40
3235907--3235970	33	1.9	33	87	0	92	48	6	4	40	1.49
3256198--3256394	65	3.0	65	93	0	349	15	23	14	46	1.82
3264644--3264690	25	1.9	24	87	12	69	27	19	12	40	1.88
3265132--3265313	60	3.0	60	98	0	346	16	17	25	40	1.90
3265158--3265311	29	5.2	29	67	22	104	16	15	25	41	1.88
3282736--3282790	24	2.3	24	96	0	101	21	23	34	20	1.97
3282970--3283031	30	2.1	30	90	0	97	24	3	50	22	1.64
3282979--3283031	15	3.5	15	97	0	97	26	1	47	24	1.62
3298518--3298542	3	8.3	3	100	0	50	0	68	0	32	0.90
3299394--3299568	94	1.9	94	85	2	244	37	9	13	40	1.77
3300107--3300139	16	2.1	16	94	0	57	48	6	15	30	1.69
3306978--3307057	40	2.0	41	90	2	126	20	20	22	37	1.94
3307311--3307378	28	2.4	28	79	11	77	45	2	2	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3307478--3307518	21	2.0	21	85	9	57	34	17	12	36	1.87
3335320--3335407	28	3.1	27	85	9	115	40	2	4	52	1.34
3335336--3335462	27	4.6	27	79	4	96	41	4	5	48	1.47
3335813--3335851	2	20.0	2	94	5	71	48	0	0	51	1.00
3338862--3338901	20	2.1	19	90	4	62	60	10	0	30	1.30
3340771--3340827	17	3.5	17	73	9	55	47	7	0	45	1.30
3342118--3342166	21	2.3	23	76	16	61	51	0	2	46	1.12
3381714--3381760	21	2.2	20	82	14	51	6	17	21	55	1.64
3382977--3383026	24	2.2	24	85	7	68	76	0	2	22	0.89
3382977--3383052	24	3.2	25	76	12	63	71	1	3	23	1.11
3388029--3388071	12	3.4	12	78	12	50	30	0	0	69	0.88
3388037--3388126	20	4.7	20	71	15	73	41	0	1	57	1.06
3388122--3388160	18	2.2	18	90	0	60	25	7	23	43	1.80
3397002--3397030	2	14.5	2	100	0	58	48	0	0	51	1.00
3408181--3408222	20	2.1	20	100	0	84	9	9	30	50	1.67
3417061--3417089	2	14.5	2	100	0	58	51	0	48	0	1.00
3418058--3418180	61	2.0	61	96	0	228	30	17	14	36	1.90
3418958--3419046	2	42.5	2	79	12	83	6	43	1	47	1.37
3423038--3423101	32	2.0	32	100	0	128	53	12	6	28	1.62
3427352--3427376	2	12.5	2	100	0	50	52	0	0	48	1.00
3427716--3427755	18	2.3	17	83	8	53	65	0	2	32	1.06
3435905--3435931	4	6.8	4	100	0	54	74	0	25	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3436530--3436846	174	1.8	173	89	0	490	40	5	7	46	1.54
3436917--3437355	218	2.0	211	86	5	605	39	8	5	46	1.57
3451463--3451540	15	4.8	16	72	19	63	50	1	0	48	1.09
3451467--3451532	26	2.7	24	80	4	78	53	1	0	45	1.09
3451658--3451691	16	2.2	15	89	5	50	52	2	2	41	1.31
3451639--3451716	23	3.4	23	79	10	79	51	2	1	44	1.23
3451678--3451751	24	2.9	24	79	18	71	45	2	1	50	1.24
3451627--3451746	15	7.9	15	69	15	52	51	2	1	44	1.24
3452902--3452946	2	22.5	2	95	0	81	51	2	0	46	1.13
3459955--3459990	5	7.2	5	96	0	54	5	80	0	13	0.88

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