genome.fa.s4.2.7.7.80.10.50.1000.45.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  45  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)
16650010--16650126	42	2.8	42	93	0	189	18	23	35	23	1.96
16666117--16666363	102	2.4	102	73	12	227	25	17	11	44	1.83
16667187--16667226	21	1.9	21	84	0	53	47	22	2	27	1.64
16669774--16669836	21	2.8	22	77	15	67	60	6	1	31	1.31
16669772--16669836	23	2.9	23	75	22	66	60	6	1	32	1.31
16669862--16669921	22	2.7	21	72	23	52	66	6	0	26	1.16
16671302--16671384	35	2.4	35	86	8	107	46	22	14	15	1.82
16679294--16679333	19	2.0	20	95	4	73	42	27	0	30	1.56
16683299--16683341	2	21.5	2	100	0	86	48	0	0	51	1.00
16686356--16686380	13	1.9	13	100	0	50	44	0	8	48	1.32
16687596--16687640	22	2.0	22	83	8	56	42	2	26	28	1.67
16688178--16688719	59	9.2	59	80	3	478	33	13	16	36	1.88
16688174--16688719	237	2.3	236	79	4	555	33	13	16	36	1.88
16688178--16688666	178	2.8	177	78	3	491	32	13	16	37	1.88
16691596--16691620	13	1.9	13	100	0	50	48	0	0	52	1.00
16692773--16692809	19	1.9	19	100	0	74	43	29	0	27	1.55
16694462--16694487	7	3.7	7	100	0	52	46	38	0	15	1.46
16695129--16695165	3	12.3	3	94	0	65	64	0	2	32	1.07
16695290--16695334	23	2.0	23	82	8	56	48	8	17	24	1.75
16697107--16697173	30	2.2	30	83	0	89	32	19	4	43	1.71
16700575--16700607	16	2.1	16	94	0	57	45	12	3	39	1.57
16703425--16703482	26	2.2	26	93	0	98	34	20	25	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16704468--16704576	37	2.9	37	84	0	146	35	16	22	25	1.94
16706844--16706894	2	25.5	2	83	0	66	47	3	3	45	1.40
16706844--16706890	16	2.9	16	96	0	85	46	4	4	44	1.42
16707047--16707138	2	45.0	2	78	4	94	43	3	7	45	1.48
16707047--16707133	23	3.8	23	92	1	140	43	3	8	44	1.50
16711707--16711781	29	2.6	29	79	8	80	30	24	30	14	1.95
16711707--16711784	30	2.7	29	76	9	77	30	23	32	14	1.94
16713679--16713703	13	1.9	13	100	0	50	52	0	0	48	1.00
16714601--16714626	2	13.0	2	100	0	52	50	0	0	50	1.00
16719582--16719700	58	2.1	56	84	3	148	35	9	15	39	1.80
16726228--16726344	62	1.9	62	83	3	155	53	2	7	35	1.43
16729747--16730026	47	6.0	47	80	2	312	26	17	34	21	1.95
16729725--16730027	94	3.2	94	87	0	419	26	16	33	22	1.96
16730586--16730849	31	8.5	31	81	1	280	26	16	19	38	1.92
16732468--16732978	156	3.3	155	84	0	626	32	17	20	29	1.95
16733325--16733593	31	8.6	31	73	4	211	20	18	20	40	1.92
16733325--16733535	62	3.4	62	84	2	262	19	18	20	40	1.91
16733326--16733593	62	4.3	62	82	3	236	20	19	19	40	1.92
16735089--16735135	16	3.1	15	85	8	60	34	12	6	46	1.67
16735075--16735135	14	4.1	14	76	12	50	34	11	6	47	1.66
16735798--16735942	31	4.7	31	72	0	101	24	14	20	40	1.90
16739506--16739686	55	3.3	55	79	1	175	41	32	13	12	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16740951--16741053	39	2.7	39	79	13	115	24	14	38	22	1.91
16741211--16741353	71	2.0	70	82	4	171	42	16	32	9	1.79
16741211--16741356	37	4.0	36	78	7	152	42	15	32	8	1.78
16744425--16744471	17	2.8	17	100	0	94	31	8	0	59	1.27
16745699--16745736	19	2.0	19	100	0	76	42	31	0	26	1.56
16749890--16749927	2	19.0	2	100	0	76	0	50	0	50	1.00
16750683--16750758	37	2.1	37	90	5	118	30	21	26	22	1.99
16751101--16751151	21	2.5	21	83	3	68	37	23	13	25	1.92
16763291--16763340	25	2.0	25	96	0	91	46	4	14	36	1.63
16765534--16765569	2	18.5	2	94	5	65	0	50	0	50	1.00
16765537--16765569	17	1.9	17	100	0	66	0	51	0	48	1.00
16765571--16765612	2	20.5	2	95	4	75	50	2	0	47	1.14
16766012--16766050	9	4.3	9	100	0	78	64	0	0	35	0.94
16769461--16769507	8	5.8	8	80	14	60	29	0	0	70	0.88
16784291--16784379	42	2.1	42	80	0	97	25	21	31	21	1.98
16784434--16784477	2	22.0	2	90	0	70	50	2	2	45	1.27
16791147--16791184	19	2.0	19	94	0	67	44	28	0	26	1.54
16794613--16794653	19	2.1	20	86	4	57	58	0	17	24	1.38
16796915--16796955	20	2.0	20	90	0	64	48	0	2	48	1.14
16800796--16800863	29	2.3	29	87	5	93	19	25	10	45	1.81
16818700--16818741	20	2.2	19	80	16	50	71	4	16	7	1.26
16830003--16830137	36	3.7	36	74	12	121	28	37	10	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16831637--16831674	12	3.1	12	88	11	51	0	26	0	73	0.83
16831632--16831671	20	2.0	20	90	4	64	0	27	0	72	0.85
16834020--16834090	3	24.3	3	86	11	103	66	0	1	32	1.01
16835675--16835706	2	16.0	2	100	0	64	50	0	50	0	1.00
16841471--16841975	173	2.9	167	83	9	581	36	13	13	35	1.85
16849187--16849212	3	8.7	3	100	0	52	69	0	30	0	0.89
16856641--16856755	57	2.0	57	91	0	185	28	19	11	40	1.86
16873054--16873106	26	2.0	26	100	0	106	41	20	7	30	1.80
16874561--16874790	27	8.4	27	81	4	219	41	15	7	35	1.75
16874561--16874805	55	4.5	55	80	2	242	42	15	8	34	1.77
16874564--16874790	82	2.8	81	81	4	249	41	15	7	35	1.75
16874561--16874803	109	2.2	109	83	2	308	41	15	8	34	1.77
16874567--16874820	82	3.1	82	80	4	228	40	14	8	36	1.77
16879586--16879699	58	2.0	58	100	0	228	45	14	17	22	1.84
16883043--16883081	2	19.5	2	100	0	78	51	0	0	48	1.00
16887462--16887553	46	2.0	46	100	0	184	28	23	17	30	1.97
16887752--16887806	21	2.6	21	94	5	94	32	7	5	54	1.51
16891026--16891082	27	2.2	26	79	11	64	45	7	7	40	1.58
16891137--16891207	29	2.4	31	83	4	92	28	11	18	42	1.84
16903997--16904045	20	2.4	21	86	6	73	46	0	0	53	1.00
16911125--16911173	24	2.0	24	84	0	62	26	48	8	16	1.73
16924634--16924672	3	13.0	3	94	0	69	64	0	35	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16924709--16924776	2	33.0	2	80	11	66	4	2	50	41	1.38
16924709--16924788	40	2.1	38	95	4	142	7	2	50	38	1.44
16924819--16924850	2	16.0	2	93	0	55	46	3	50	0	1.17
16934320--16934359	18	2.2	18	86	0	53	22	12	15	50	1.77
16955506--16955543	13	2.9	13	81	11	51	71	13	0	15	1.16
16955812--16955862	24	2.1	24	85	7	68	78	9	5	5	1.08
16956992--16957037	19	2.4	19	85	7	58	73	2	2	21	1.04
16957014--16957048	17	2.0	18	88	5	54	77	0	0	22	0.78
16958598--16958635	19	2.1	19	95	5	69	84	0	10	5	0.77
16963527--16963581	18	2.8	20	81	10	69	65	0	18	16	1.27
16965260--16965545	142	2.0	142	91	1	457	26	24	15	33	1.95
16965514--16965657	21	6.8	21	76	5	137	27	25	13	32	1.94
16965514--16965658	43	3.4	42	80	2	164	27	25	13	33	1.94
16965737--16965848	10	10.8	10	75	11	93	83	14	1	0	0.79
16965739--16965845	17	6.4	17	80	14	107	82	14	1	0	0.81
16965746--16965847	45	2.2	46	84	6	127	82	15	1	0	0.76
16965737--16965848	1	112.0	1	67	0	53	83	14	1	0	0.79
16966009--16966069	13	4.5	13	80	11	59	75	6	1	16	1.09
16966009--16966069	14	4.4	13	80	13	59	75	6	1	16	1.09
16966296--16966346	24	2.1	25	86	13	72	76	11	5	5	1.14
16971043--16971110	26	2.5	28	75	15	72	60	1	2	35	1.21
16972681--16972713	2	16.5	2	100	0	66	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16972765--16972797	2	16.5	2	100	0	66	0	48	0	51	1.00
16984996--16985025	14	2.1	14	93	0	51	46	0	3	50	1.18
16985560--16985610	23	2.1	23	85	7	66	64	1	1	31	1.15
16990242--16990295	23	2.3	23	90	6	83	51	1	0	46	1.11
16990150--16990407	134	1.9	137	86	4	371	56	3	6	32	1.44
16991076--16991118	21	2.0	21	95	0	77	41	11	4	41	1.62
16991081--16991126	21	2.2	21	92	0	74	43	13	6	36	1.69
16991172--16991262	35	2.6	35	87	0	110	27	31	13	27	1.94
16991196--16991276	35	2.3	35	95	0	144	29	32	8	29	1.87
16991210--16991287	35	2.2	35	88	0	111	26	38	8	25	1.86

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