genome.fa.s4.2.7.7.80.10.50.1000.44.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  44  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)
16265804--16265869	21	3.2	21	76	4	53	28	21	13	36	1.91
16266007--16266036	15	2.0	15	93	0	51	53	13	3	30	1.56
16267414--16267462	20	2.4	21	89	3	73	42	18	4	34	1.69
16269965--16270002	5	7.6	5	87	0	58	21	63	0	15	1.31
16271191--16271259	24	3.0	24	91	6	108	33	0	2	63	1.09
16271198--16271280	24	2.9	29	74	23	86	34	0	2	62	1.08
16271478--16271537	26	2.4	25	86	10	86	56	0	8	35	1.29
16299583--16299610	2	14.0	2	100	0	56	0	50	0	50	1.00
16300744--16300773	7	4.3	7	100	0	60	13	33	26	26	1.93
16301447--16301494	7	7.3	7	76	19	50	52	0	0	47	1.00
16301467--16301589	52	2.3	52	75	8	124	45	0	1	52	1.16
16301518--16301551	16	2.1	16	94	0	59	38	0	0	61	0.96
16301530--16301598	22	3.2	22	76	15	65	37	0	1	60	1.06
16301621--16301739	8	14.5	8	69	16	57	49	0	1	47	1.17
16301612--16301698	16	5.4	16	77	12	65	51	1	1	45	1.16
16301616--16301739	47	2.5	48	79	10	128	50	0	1	46	1.16
16313144--16313204	27	2.3	26	80	2	68	36	26	18	19	1.94
16313218--16313260	21	2.0	21	82	8	52	20	16	39	23	1.92
16313310--16313441	27	4.8	28	70	9	74	29	22	28	18	1.98
16313474--16313530	26	2.1	27	77	6	62	26	31	31	10	1.90
16319112--16319142	3	10.3	3	100	0	62	64	0	0	35	0.94
16330360--16330493	65	2.1	64	97	1	250	47	16	8	26	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16331396--16331427	12	2.7	12	95	0	55	18	18	25	37	1.94
16334002--16334257	89	2.8	92	81	4	304	35	18	16	28	1.93
16333996--16334253	45	5.7	45	72	11	222	36	18	15	29	1.93
16334220--16334270	24	2.1	24	92	0	84	41	21	11	25	1.87
16334293--16334497	45	4.6	45	88	2	286	31	13	20	35	1.91
16334277--16334361	21	3.9	21	70	19	75	27	11	22	38	1.89
16333996--16334502	90	5.6	90	75	9	289	34	15	17	32	1.92
16334283--16334413	21	6.0	21	65	16	68	28	11	22	38	1.89
16334032--16334511	45	10.6	44	73	13	216	34	15	18	32	1.92
16334488--16334572	30	2.8	30	80	1	98	43	11	9	35	1.74
16335801--16335832	6	5.3	6	96	0	55	71	0	15	12	1.14
16342785--16342835	15	3.3	15	75	2	57	39	9	17	33	1.83
16343023--16343125	33	3.2	33	74	10	97	29	5	3	61	1.37
16344559--16344593	2	17.5	2	100	0	70	51	0	0	48	1.00
16344559--16344608	14	3.6	15	89	7	54	54	0	2	44	1.11
16345535--16345624	20	4.7	20	69	15	64	40	0	2	57	1.11
16345627--16345676	9	5.6	9	85	0	73	28	10	24	38	1.87
16345620--16345676	18	3.2	18	94	0	96	29	10	21	38	1.87
16345620--16345676	27	2.1	27	83	0	69	29	10	21	38	1.87
16358769--16358801	16	2.1	16	100	0	66	15	36	0	48	1.45
16359869--16359916	9	5.0	9	87	7	60	12	2	2	83	0.83
16362598--16362721	46	2.7	46	88	6	187	12	33	22	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16371845--16371878	18	1.9	17	94	5	59	0	17	5	76	0.98
16379324--16379368	22	2.1	22	87	4	65	48	11	17	22	1.78
16379875--16379991	37	3.2	37	82	1	146	27	10	25	36	1.88
16388485--16388634	27	5.7	27	74	13	98	30	22	24	22	1.99
16388569--16388657	26	3.4	25	75	9	81	30	21	26	21	1.98
16392900--16392983	27	3.2	24	76	17	69	58	3	2	35	1.28
16410985--16411038	23	2.3	23	100	0	108	27	46	3	22	1.69
16411030--16411152	42	2.9	42	87	1	120	21	35	17	25	1.95
16411047--16411152	42	2.5	42	90	1	158	20	36	18	23	1.95
16413361--16413426	34	2.0	32	91	5	105	46	0	25	27	1.53
16417018--16417067	2	26.0	2	92	8	86	50	0	0	50	1.00
16427734--16427769	16	2.2	16	95	0	63	16	27	27	27	1.97
16427771--16427844	21	3.5	21	79	3	94	24	8	22	44	1.80
16427771--16427846	22	3.5	22	80	5	93	25	7	22	44	1.79
16427871--16427942	23	3.2	23	82	2	92	31	18	15	34	1.92
16427978--16428172	22	9.0	22	73	5	146	42	21	11	25	1.86
16427978--16428129	65	2.4	64	85	1	205	41	21	12	25	1.87
16428059--16428113	21	2.6	21	73	0	65	38	25	14	21	1.92
16432176--16432200	6	4.2	6	100	0	50	84	0	0	16	0.63
16442812--16442894	39	2.1	40	90	2	132	36	3	16	43	1.66
16443098--16443138	20	2.0	21	90	4	66	19	21	2	56	1.54
16444508--16444541	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16447279--16447303	13	1.9	13	100	0	50	48	8	0	44	1.32
16448442--16448494	28	1.9	28	88	11	83	26	18	20	33	1.96
16448681--16448718	19	2.0	19	94	0	67	42	28	0	28	1.56
16451231--16451273	15	2.9	14	83	10	50	53	16	2	27	1.55
16452474--16452498	13	1.9	13	100	0	50	48	8	0	44	1.32
16460028--16460148	48	2.5	48	79	1	136	30	9	16	43	1.79
16460086--16460247	48	3.4	47	75	9	157	33	7	17	40	1.78
16462606--16462642	19	1.9	19	88	0	56	29	0	24	45	1.53
16463885--16463909	13	1.9	13	100	0	50	44	0	8	48	1.32
16465619--16465679	22	2.6	24	82	15	83	42	11	29	16	1.83
16465982--16466009	2	14.0	2	100	0	56	50	0	0	50	1.00
16474065--16474144	34	2.4	34	72	6	74	35	1	0	63	1.02
16473993--16474112	63	2.0	61	81	13	146	30	0	0	68	1.01
16473993--16474124	27	4.8	28	75	13	105	30	0	0	68	1.01
16490237--16490460	112	2.0	112	100	0	448	33	8	12	44	1.73
16507941--16507981	19	2.2	19	86	8	57	24	0	4	70	1.06
16508674--16508743	20	3.5	20	90	0	113	34	18	4	42	1.70
16510263--16510296	18	1.9	17	88	5	50	76	2	8	11	1.12
16527660--16527722	23	2.8	23	79	11	76	49	0	0	50	1.00
16527695--16527775	41	2.0	40	81	13	94	37	0	2	60	1.10
16528046--16528104	23	2.6	22	81	5	73	47	0	5	47	1.24
16528094--16528125	16	2.0	16	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16537099--16537153	21	2.6	21	77	11	60	0	32	0	67	0.91
16537127--16537159	17	2.0	17	94	5	59	0	27	0	72	0.85
16537678--16537765	29	3.0	30	95	3	137	35	3	25	36	1.73
16544065--16544096	16	2.0	16	93	0	55	15	0	31	53	1.43
16550030--16550072	22	2.0	22	86	9	61	37	0	2	60	1.10
16550103--16550193	32	2.6	36	73	16	93	38	1	3	57	1.23
16550491--16550541	16	2.8	18	77	22	54	49	3	0	47	1.20
16559463--16559550	33	2.7	33	76	0	95	39	5	15	38	1.72
16566659--16566695	3	12.3	3	100	0	74	32	0	35	32	1.58
16566700--16566730	3	10.3	3	100	0	62	67	0	32	0	0.91
16577791--16577825	2	17.5	2	100	0	70	51	0	48	0	1.00
16579030--16579065	14	2.6	14	91	8	56	36	2	0	61	1.11
16596415--16596502	41	2.1	41	83	12	108	18	21	5	54	1.64
16606011--16606070	2	30.5	2	96	3	113	48	0	0	51	1.00
16611836--16612049	108	2.0	108	97	0	401	45	15	16	21	1.84
16612622--16612648	2	13.5	2	100	0	54	51	48	0	0	1.00
16618955--16619003	26	1.9	25	83	4	62	14	12	10	63	1.53
16621334--16621380	22	2.1	22	84	0	58	34	12	12	40	1.82
16621385--16621445	21	2.9	21	75	2	59	18	13	26	42	1.86
16621475--16621566	23	4.0	23	84	5	98	33	26	11	28	1.92
16621536--16621629	22	4.1	22	72	17	84	38	29	9	22	1.86
16621546--16621685	26	5.7	26	71	13	100	37	27	10	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16621576--16621633	21	2.7	21	78	7	64	37	32	10	18	1.85
16621505--16621712	26	8.9	23	73	11	77	38	25	11	24	1.88
16621664--16621712	22	2.2	22	85	3	62	48	20	10	20	1.78
16621801--16621926	50	2.5	50	76	3	128	38	19	8	34	1.82
16628349--16628484	39	3.5	38	80	4	112	18	19	16	45	1.85
16628421--16628525	42	2.6	42	80	7	110	20	18	13	48	1.80
16628365--16628525	38	4.1	38	78	9	144	18	18	16	46	1.84
16633033--16633123	28	3.2	28	90	3	146	37	13	8	40	1.75
16634261--16634308	23	2.1	23	96	0	87	33	29	8	29	1.86
16644022--16644127	38	2.7	39	82	2	124	23	17	35	22	1.95

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