genome.fa.s1.2.7.7.80.10.50.1000.89.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  89  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)
35170733--35170776	22	2.0	22	81	4	52	40	2	2	54	1.25
35171019--35171082	24	2.7	25	84	13	75	50	0	0	50	1.00
35171068--35171138	27	2.5	28	80	13	83	59	0	0	40	0.98
35171066--35171138	28	2.7	26	76	19	76	58	0	0	41	0.98
35176096--35176141	16	2.8	17	77	12	51	41	0	0	58	0.98
35176096--35176147	17	3.0	16	81	13	50	46	0	0	53	1.00
35181810--35181874	33	2.0	33	87	0	94	13	10	44	30	1.78
35197720--35197771	25	2.1	25	100	0	104	32	19	15	32	1.93
35199503--35199554	2	26.0	2	88	0	77	46	1	3	48	1.31
35199497--35199554	12	4.8	12	86	2	80	44	1	5	48	1.35
35217160--35217232	30	2.4	30	90	4	112	21	6	15	56	1.62
35220149--35220186	21	1.9	19	85	15	51	52	7	2	36	1.45
35220224--35220281	29	2.0	29	93	6	100	34	6	3	55	1.44
35227849--35227877	14	2.1	14	93	6	51	62	0	6	31	1.22
35228985--35229185	24	8.6	24	70	10	121	36	19	17	25	1.94
35228997--35229200	69	3.0	69	89	2	320	36	19	18	25	1.95
35229152--35229470	158	2.0	157	88	4	475	38	16	15	29	1.89
35229398--35229491	26	3.5	26	70	22	77	42	11	13	31	1.81
35229480--35229551	27	2.6	28	82	8	85	37	11	9	41	1.74
35229450--35229525	29	2.7	28	84	8	84	42	11	10	35	1.76
35229535--35229837	159	1.9	155	90	3	473	30	15	7	46	1.72
35231487--35231570	31	2.7	31	85	5	109	25	5	14	54	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35234419--35234481	18	3.7	18	72	12	69	12	36	15	34	1.86
35234421--35234485	33	2.0	33	96	0	121	12	40	13	33	1.82
35239238--35239284	22	2.1	23	88	4	69	12	27	14	44	1.82
35262742--35262798	30	1.9	30	82	7	71	40	0	3	56	1.17
35266522--35266652	30	4.4	29	78	8	131	32	3	2	61	1.26
35266518--35266652	59	2.3	59	94	0	243	33	3	2	60	1.26
35266518--35266671	31	5.2	30	80	8	163	35	3	1	58	1.28
35283589--35283620	3	10.7	3	100	0	64	31	0	0	68	0.90
35293311--35293342	2	16.0	2	100	0	64	50	0	0	50	1.00
35303637--35303721	6	15.2	6	75	18	76	51	0	45	1	1.08
35303637--35303721	4	22.8	4	80	11	76	51	0	45	1	1.08
35306277--35306306	2	15.5	2	93	6	53	0	46	0	53	1.00
35325872--35325912	21	2.0	20	86	13	57	26	4	4	63	1.35
35332225--35332254	2	15.0	2	100	0	60	50	0	0	50	1.00
35336471--35336495	12	2.1	12	100	0	50	76	0	0	24	0.80
35336520--35336549	14	2.2	13	94	5	51	66	3	0	30	1.07
35336631--35336668	18	2.1	18	85	9	51	73	0	23	2	0.95
35339498--35339522	6	4.2	6	100	0	50	48	0	0	52	1.00
35342216--35342244	2	14.5	2	100	0	58	51	0	48	0	1.00
35349520--35349670	76	2.0	75	100	0	293	30	27	10	30	1.90
35354410--35354737	160	2.0	164	86	4	459	29	18	4	47	1.67
35355152--35355206	29	1.9	28	85	10	76	9	16	1	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35363484--35363511	9	3.1	9	100	0	56	14	10	32	42	1.80
35371651--35371692	14	2.7	15	82	13	50	16	9	2	71	1.23
35399957--35399990	18	1.9	18	88	5	52	79	0	11	8	0.94
35401869--35401898	3	10.0	3	92	0	51	66	3	0	30	1.07
35438525--35438559	2	18.0	2	94	5	63	48	0	0	51	1.00
35438531--35438849	159	2.0	161	86	4	448	41	7	9	41	1.66
35439465--35439497	17	1.9	17	93	0	57	54	0	6	39	1.25
35443991--35444021	2	15.5	2	100	0	62	48	0	51	0	1.00
35452123--35452160	18	2.2	17	90	9	60	2	18	0	78	0.86
35472403--35472469	30	2.2	30	94	0	125	26	22	10	40	1.86
35472995--35473118	66	1.9	66	88	3	187	36	9	6	47	1.62
35481557--35481616	32	1.9	31	93	3	102	18	10	20	51	1.74
35492911--35493016	29	3.7	29	87	0	158	26	13	10	50	1.73
35494356--35494390	15	2.3	15	90	0	52	37	0	57	5	1.23
35523559--35523601	14	3.3	13	87	9	61	16	0	2	81	0.79
35523609--35523667	24	2.5	23	84	13	68	42	3	1	52	1.28
35523864--35523915	27	1.9	27	88	0	77	53	5	5	34	1.49
35527922--35527970	19	2.6	19	90	6	73	55	12	4	28	1.55
35534713--35534767	27	2.0	27	92	0	92	23	21	23	30	1.99
35540309--35540421	56	2.0	56	94	0	199	26	5	25	42	1.76
35549774--35549832	26	2.3	26	76	5	66	37	8	0	54	1.31
35550144--35550248	54	1.9	54	96	0	192	38	21	2	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35556661--35556720	28	2.2	28	93	3	104	31	15	16	36	1.90
35558608--35558672	33	2.0	33	85	8	89	30	24	3	41	1.70
35571716--35571769	2	27.0	2	100	0	108	50	0	50	0	1.00
35571835--35571867	2	16.5	2	100	0	66	51	0	48	0	1.00
35575383--35575572	104	1.8	104	85	6	269	35	6	0	57	1.28
35582447--35582571	62	2.0	62	98	0	241	42	15	17	24	1.88
35584537--35584784	123	2.0	123	93	0	424	29	23	25	20	1.99
35586762--35586790	3	9.7	3	100	0	58	0	31	34	34	1.58
35596144--35596187	18	2.4	19	84	3	63	43	6	4	45	1.51
35596755--35596800	15	2.8	17	74	16	51	47	2	4	45	1.34
35606913--35606961	21	2.3	21	79	6	55	48	4	14	32	1.62
35623642--35623684	12	3.4	12	81	12	50	60	0	0	39	0.97
35625850--35625898	21	2.3	22	83	13	66	65	0	2	32	1.04
35626937--35627104	81	2.0	85	87	11	240	47	0	34	17	1.48
35627888--35627922	15	2.3	15	90	9	54	80	0	17	2	0.84
35627888--35627922	7	4.7	7	89	10	52	80	0	17	2	0.84
35629946--35629990	16	2.8	16	83	10	56	75	0	24	0	0.80
35645408--35645435	3	9.3	3	100	0	56	64	0	35	0	0.94
35651014--35651042	14	2.0	15	93	6	51	41	27	10	20	1.85
35655630--35655695	34	1.9	34	93	0	114	34	19	22	22	1.96
35665991--35666015	3	8.3	3	100	0	50	32	32	0	36	1.58
35670395--35670507	5	21.8	5	68	20	54	3	17	3	75	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35670410--35670459	25	2.0	26	88	11	77	2	16	2	80	0.91
35670405--35670459	12	4.7	12	76	17	53	1	18	1	78	0.94
35670413--35670507	21	4.5	21	73	10	59	4	16	3	75	1.09
35670396--35670650	127	2.0	131	94	4	457	10	15	2	70	1.26
35670536--35670580	17	2.6	18	80	16	51	2	17	0	80	0.82
35670537--35670580	8	5.2	8	78	10	52	2	15	0	81	0.78
35670523--35670580	14	4.3	14	72	16	50	1	17	1	79	0.90
35670538--35670632	16	5.5	16	73	17	57	7	15	2	74	1.13
35671035--35671111	40	1.9	40	86	0	109	19	9	19	51	1.72
35675012--35675127	51	2.3	51	89	0	169	40	16	6	36	1.75
35682210--35682253	21	2.0	24	86	13	67	63	15	0	20	1.31
35690594--35690628	2	17.5	2	100	0	70	48	0	0	51	1.00
35690760--35690813	28	1.9	28	88	0	81	48	18	16	16	1.82
35695024--35695073	25	2.0	25	84	0	64	18	32	8	42	1.79
35695666--35695693	2	14.0	2	100	0	56	50	0	0	50	1.00
35699043--35699091	25	2.0	25	91	0	80	38	10	28	22	1.87
35703725--35703777	27	2.0	27	84	0	70	32	30	13	24	1.93
35708868--35708901	2	17.0	2	100	0	68	50	0	0	50	1.00
35710977--35711017	16	2.6	16	88	7	57	36	4	4	53	1.44
35712600--35712644	16	2.8	16	82	0	54	77	0	13	8	0.98
35712912--35712950	9	4.3	10	78	21	50	30	0	0	69	0.89
35712913--35712948	17	2.1	17	100	0	72	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35717692--35717789	35	2.8	35	84	0	133	42	20	16	20	1.89
35718047--35718108	29	2.1	29	85	5	81	16	27	9	46	1.78
35718066--35718126	29	2.1	29	84	0	77	16	26	11	45	1.81
35720728--35720771	18	2.4	18	92	0	70	43	13	18	25	1.86
35720859--35721046	93	2.0	95	95	2	344	34	22	26	17	1.96
35724114--35724143	9	3.3	9	90	0	51	46	0	0	53	1.00
35724114--35724153	18	2.3	18	91	4	64	45	0	0	55	0.99
35724147--35724189	22	2.0	22	86	4	61	48	0	0	51	1.00
35724820--35724850	2	15.5	2	100	0	62	48	0	0	51	1.00
35744604--35744634	16	1.9	16	93	0	53	45	3	3	48	1.34

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