genome.fa.s4.2.7.7.80.10.50.1000.79.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  79  of  82  ( 9773 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)
29757667--29757691	13	1.9	13	100	0	50	20	32	0	48	1.50
29758748--29758810	28	2.2	29	82	2	74	41	6	6	46	1.55
29774308--29774354	1	47.0	1	82	0	58	6	91	2	0	0.49
29774308--29774354	23	2.1	23	92	4	78	6	91	2	0	0.49
29784947--29785012	33	2.0	33	96	0	123	37	12	16	33	1.86
29785248--29785303	29	1.9	29	85	7	78	58	1	0	39	1.08
29792729--29792782	12	4.5	12	81	4	56	51	31	16	0	1.45
29792742--29792779	15	2.5	15	91	0	58	47	34	18	0	1.49
29820717--29820750	15	2.2	16	89	5	52	35	0	0	64	0.94
29820728--29820818	14	6.8	13	70	14	60	35	1	1	62	1.10
29821514--29821556	16	2.7	16	92	7	70	25	0	0	74	0.82
29821503--29821574	26	2.7	27	77	14	78	33	0	0	66	0.92
29821569--29821607	19	2.2	19	86	9	55	43	0	2	53	1.14
29828825--29828871	2	23.5	2	91	0	67	48	0	6	44	1.28
29838938--29838991	27	2.0	27	92	0	90	51	0	14	33	1.43
29850019--29850044	7	3.7	7	100	0	52	46	0	0	53	1.00
29852018--29852048	16	1.9	16	93	0	53	51	0	3	45	1.17
29854146--29854184	14	2.6	16	88	8	55	84	7	7	0	0.77
29854146--29854188	15	3.1	14	80	9	52	83	9	6	0	0.80
29855328--29855367	21	1.9	21	84	0	53	22	5	15	57	1.57
29859951--29859997	2	24.5	2	91	8	80	48	0	0	51	1.00
29861384--29861440	2	30.0	2	86	10	84	50	1	0	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29862604--29862681	31	2.5	30	79	8	77	62	3	2	30	1.26
29864849--29864873	13	1.9	13	100	0	50	48	4	0	48	1.20
29865421--29865479	28	2.1	29	84	9	77	35	5	3	55	1.38
29872610--29872915	105	2.9	105	88	1	445	28	29	15	26	1.96
29886417--29886472	25	2.2	25	78	6	60	42	5	0	51	1.24
29893984--29894123	70	2.0	70	95	0	253	42	9	25	22	1.83
29895630--29895656	6	4.5	6	100	0	54	14	18	37	29	1.91
29896158--29896195	17	2.3	17	82	17	53	31	2	0	65	1.06
29896158--29896195	16	2.3	17	81	9	51	31	2	0	65	1.06
29898633--29898827	96	2.0	96	89	0	300	37	24	12	25	1.90
29901685--29901710	6	4.3	6	100	0	52	84	0	15	0	0.62
29902867--29903194	170	1.9	170	87	0	476	39	7	12	40	1.72
29903352--29903393	19	2.2	19	91	8	68	45	0	4	50	1.23
29903534--29903585	21	2.5	20	84	12	70	34	0	3	61	1.14
29903583--29903625	21	2.0	21	82	13	52	41	2	11	44	1.53
29918201--29918289	2	43.0	2	78	6	88	44	4	43	5	1.47
29924165--29924199	14	2.5	14	95	0	61	77	22	0	0	0.78
29929101--29929143	14	3.3	13	87	9	61	2	23	0	74	0.93
29953732--29953763	16	2.0	16	93	0	55	40	0	0	59	0.97
29960677--29960745	4	17.2	4	90	0	66	50	10	1	37	1.45
29960677--29960745	22	3.1	22	89	0	102	50	10	1	37	1.45
29960677--29960735	26	2.3	26	96	0	109	50	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29983065--29983094	10	3.0	10	95	0	51	60	3	0	36	1.14
29987927--29987983	2	28.5	2	100	0	114	50	0	0	49	1.00
29988400--29988439	2	20.0	2	100	0	80	50	0	0	50	1.00
29989527--29989648	55	2.2	55	95	0	217	24	27	13	34	1.93
29994121--29994164	22	2.0	22	91	8	72	56	2	0	40	1.11
29997801--29997842	19	2.3	19	80	15	52	50	0	9	40	1.35
30002979--30003006	2	14.0	2	100	0	56	0	50	0	50	1.00
30004032--30004081	24	2.1	24	84	0	64	42	12	20	26	1.86
30006156--30006230	27	2.9	25	71	13	71	44	10	6	38	1.66
30021668--30021710	2	21.5	2	90	0	68	51	0	4	44	1.22
30024665--30024708	14	3.2	14	87	3	63	20	2	27	50	1.60
30033926--30033958	3	11.0	3	100	0	66	33	0	0	66	0.92
30051951--30052089	71	2.0	71	97	0	260	29	16	11	42	1.83
30052162--30052325	57	2.9	57	80	9	176	26	21	28	24	1.99
30067274--30067303	15	1.9	16	93	6	53	40	20	26	13	1.89
30073823--30073847	2	12.5	2	100	0	50	0	48	0	52	1.00
30078778--30078827	24	2.1	24	100	0	100	34	12	20	34	1.89
30093405--30093429	4	6.2	4	100	0	50	76	0	24	0	0.80
30108056--30108157	51	2.0	51	100	0	204	37	17	11	33	1.86
30111274--30111773	72	6.9	72	89	1	734	24	29	18	27	1.98
30146461--30146521	30	2.0	30	84	6	79	26	11	9	52	1.68
30152644--30152689	19	2.3	21	78	17	62	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30152969--30153000	15	2.0	17	88	11	50	62	0	6	31	1.20
30154001--30154037	17	2.2	17	90	0	56	51	0	0	48	1.00
30156536--30156649	30	3.5	30	69	19	93	55	5	5	34	1.45
30156478--30156689	70	3.0	70	97	1	399	56	5	5	33	1.44
30158192--30158392	109	1.8	108	82	8	255	50	2	3	42	1.36
30158358--30158399	17	2.4	17	81	18	50	52	2	0	45	1.13
30158301--30158483	92	2.0	93	81	5	219	50	3	3	41	1.38
30158447--30158510	25	2.6	24	72	20	60	54	3	3	39	1.32
30158107--30158548	202	2.2	203	86	3	604	50	2	4	42	1.36
30158482--30158550	19	3.6	19	77	13	61	52	0	2	44	1.16
30158535--30158586	23	2.3	22	81	12	61	55	1	3	38	1.29
30159307--30159358	27	1.9	27	100	0	104	40	0	7	51	1.30
30160918--30160942	2	12.5	2	100	0	50	48	0	0	52	1.00
30165482--30165507	4	6.5	4	100	0	52	76	0	23	0	0.78
30168061--30168123	25	2.4	25	84	12	74	66	0	3	30	1.07
30168479--30168517	19	2.1	19	100	0	78	38	10	30	20	1.86
30169150--30169176	10	2.7	10	100	0	54	11	18	0	70	1.16
30169679--30169706	2	14.0	2	100	0	56	50	0	0	50	1.00
30174519--30174561	18	2.4	17	85	14	52	76	6	2	13	1.08
30174888--30174932	19	2.4	19	76	0	54	26	15	26	31	1.96
30177001--30177079	33	2.5	32	82	13	85	8	16	0	74	1.05
30186290--30186322	17	2.0	17	94	5	59	57	0	6	36	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30193911--30193936	2	13.0	2	100	0	52	0	50	0	50	1.00
30200156--30200203	9	5.3	9	76	0	51	33	8	16	41	1.78
30200147--30200203	18	3.2	18	89	0	87	33	8	15	42	1.78
30212108--30212133	2	13.0	2	100	0	52	50	0	50	0	1.00
30214050--30214101	21	2.5	21	87	0	68	9	30	48	11	1.72
30214080--30214144	30	2.2	30	91	0	103	20	30	35	13	1.91
30214110--30214164	21	2.6	21	77	5	58	21	34	34	9	1.85
30216765--30216812	2	24.0	2	91	0	78	0	4	50	45	1.21
30235718--30235783	32	2.1	32	100	0	132	45	15	9	30	1.77
30239115--30239144	14	2.1	14	100	0	60	6	20	6	66	1.38
30244272--30244351	25	3.2	25	62	22	58	41	3	3	51	1.38
30244678--30244711	17	1.9	18	88	5	52	0	41	0	58	0.98
30247812--30247837	2	13.0	2	100	0	52	50	0	0	50	1.00
30248209--30248314	30	3.6	29	81	7	99	33	6	7	52	1.55
30248713--30248775	32	2.0	32	93	0	108	38	4	19	38	1.73
30250032--30250183	2	77.5	2	78	13	147	46	1	2	48	1.27
30251925--30251963	6	6.5	6	90	0	51	38	0	0	61	0.96
30251925--30251963	12	3.2	12	88	0	60	38	0	0	61	0.96
30251925--30251963	18	2.2	18	95	0	69	38	0	0	61	0.96
30252045--30252106	27	2.3	27	85	0	79	29	12	8	50	1.69
30268837--30268893	21	2.7	21	73	10	53	52	14	24	8	1.69
30269011--30269095	42	2.0	42	84	8	111	44	11	30	12	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30273524--30273810	96	3.0	95	85	4	346	49	9	25	15	1.75
30273634--30273791	54	3.1	52	64	27	124	50	10	24	15	1.75
30279716--30279745	14	2.2	14	94	5	53	13	6	0	80	0.91
30284788--30284831	20	2.2	20	100	0	88	40	22	6	29	1.80
30285996--30286027	12	2.7	12	95	0	55	34	0	0	65	0.93
30286155--30286224	23	3.0	24	78	13	76	30	0	4	65	1.11
30286281--30286319	18	2.2	18	85	0	51	30	7	15	46	1.74
30287698--30287724	14	1.9	14	100	0	54	59	11	0	29	1.32
30288823--30288861	20	1.9	20	89	5	60	66	7	2	23	1.30
30292244--30292313	33	2.1	34	86	5	99	48	0	0	51	1.00

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