genome.fa.s4.2.7.7.80.10.50.1000.30.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  30  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)
10696597--10696636	5	8.0	5	94	0	62	35	20	0	45	1.51
10696666--10696704	11	3.5	11	92	0	60	48	17	2	30	1.61
10699777--10699818	19	2.2	19	83	8	50	38	7	0	54	1.28
10711867--10711926	25	2.4	25	83	5	77	28	28	18	25	1.98
10712960--10712999	19	2.0	21	85	9	57	45	20	10	25	1.81
10713151--10713317	84	2.0	84	89	2	255	26	38	13	22	1.90
10715871--10715976	37	2.9	37	91	5	178	26	9	39	24	1.86
10715923--10716026	50	2.1	50	90	3	165	27	10	40	21	1.86
10715960--10715989	13	2.3	13	94	0	51	23	10	50	16	1.75
10715886--10716063	87	2.0	87	97	0	338	28	10	39	21	1.87
10715976--10716079	37	2.8	38	89	4	167	31	11	34	22	1.90
10727493--10727531	22	1.9	20	85	15	53	30	2	20	46	1.64
10727492--10727537	21	2.3	20	78	14	51	30	2	19	47	1.61
10736410--10736497	34	2.6	34	81	3	97	30	10	21	37	1.87
10736511--10736567	24	2.4	24	78	18	66	31	8	26	33	1.87
10736502--10736567	23	2.8	23	78	17	64	28	9	27	34	1.87
10736686--10739062	171	13.9	170	81	5	2526	38	13	15	32	1.86
10736632--10739062	512	4.7	512	82	6	2629	38	13	15	32	1.86
10736679--10739072	683	3.5	680	81	5	2656	38	13	15	32	1.86
10740407--10740543	42	3.3	41	92	2	220	24	32	20	21	1.97
10744978--10745015	20	1.9	20	100	0	76	44	21	5	28	1.73
10753551--10753596	20	2.3	20	96	0	83	45	21	4	28	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10761522--10761567	20	2.3	20	96	0	83	45	21	4	28	1.71
10763260--10763284	2	12.5	2	100	0	50	48	0	0	52	1.00
10773951--10773980	15	2.0	15	93	0	51	33	20	3	43	1.68
10777524--10777640	42	2.8	42	86	2	164	17	23	34	24	1.96
10779711--10779760	26	2.0	26	88	4	75	18	4	2	76	1.04
10779716--10779766	25	2.0	26	84	3	68	17	5	5	70	1.28
10779945--10780023	30	2.5	33	78	17	87	24	8	0	67	1.19
10779967--10780029	21	3.4	18	74	19	58	23	6	0	69	1.11
10793361--10793441	42	1.9	42	94	0	144	20	22	34	22	1.97
10793676--10793737	26	2.4	26	94	0	106	24	3	40	32	1.71
10796097--10796299	74	2.7	74	83	8	243	22	18	18	40	1.91
10803935--10803972	18	2.1	19	85	5	51	26	18	28	26	1.98
10808484--10808571	39	2.3	39	87	0	131	34	21	18	26	1.96
10808663--10808715	21	2.5	21	84	0	70	30	22	16	30	1.96
10816191--10816328	43	3.2	44	83	6	158	28	16	31	23	1.96
10819606--10819644	21	1.9	20	89	5	60	28	0	5	66	1.12
10822292--10822330	13	3.1	12	85	10	51	12	10	0	76	1.01
10840434--10840479	19	2.4	20	82	10	60	54	0	2	43	1.12
10840884--10840921	20	1.9	20	100	0	76	28	5	21	44	1.73
10840884--10840929	20	2.3	20	92	0	74	28	4	23	43	1.73
10845855--10845895	15	2.7	16	88	7	59	26	2	19	51	1.59
10845851--10845896	15	3.1	15	81	9	58	23	2	17	56	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10845931--10845963	14	2.3	15	94	5	59	39	0	21	39	1.53
10845932--10845971	19	2.1	19	90	0	62	35	2	25	37	1.69
10845931--10845963	5	6.8	5	93	6	59	39	0	21	39	1.53
10852838--10852972	72	1.9	71	93	0	225	22	28	5	42	1.76
10852954--10853007	20	2.7	20	97	2	99	0	33	0	66	0.92
10852954--10852998	13	3.6	13	77	17	51	0	33	0	66	0.92
10854827--10854864	15	2.4	16	91	4	60	31	2	0	65	1.06
10855401--10855441	20	2.0	20	85	9	55	19	7	2	70	1.22
10856041--10856109	30	2.3	30	87	2	102	40	26	5	27	1.78
10856731--10856759	12	2.3	13	94	5	51	55	0	6	37	1.27
10861433--10861494	27	2.3	27	86	8	90	8	24	16	51	1.71
10869973--10870025	25	2.2	25	83	9	67	41	0	1	56	1.10
10870123--10870163	18	2.3	18	95	0	73	36	9	9	43	1.71
10870165--10870199	18	1.9	18	94	0	61	28	5	17	48	1.69
10873103--10873164	29	2.1	29	96	0	115	45	16	19	19	1.86
10882744--10882797	21	2.6	21	87	0	81	20	20	25	33	1.97
10882786--10882849	26	2.4	27	79	7	87	21	10	23	43	1.84
10882838--10882895	23	2.5	23	74	0	62	22	12	29	36	1.90
10882905--10882988	22	3.8	23	81	9	95	44	26	9	20	1.82
10893627--10893695	31	2.3	31	92	2	113	36	1	1	60	1.14
10900118--10900160	21	2.0	21	81	0	50	30	9	34	25	1.87
10908896--10908992	48	2.0	48	88	4	142	22	1	29	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10912319--10912378	30	2.1	29	81	6	68	31	8	21	38	1.83
10912640--10912678	20	2.0	20	89	0	60	69	10	15	5	1.34
10921153--10921525	187	2.0	186	97	2	714	39	12	23	24	1.89
10923597--10923954	179	2.0	178	95	1	637	28	20	8	41	1.82
10923968--10924043	2	40.0	2	83	10	79	43	0	0	56	0.99
10924160--10924326	70	2.4	71	80	2	203	27	38	5	27	1.80
10925195--10925237	19	2.3	18	84	4	59	44	2	0	53	1.13
10930757--10930791	17	2.1	17	94	0	61	31	22	37	8	1.85
10931145--10931324	73	2.5	72	83	8	197	41	15	20	22	1.89
10935889--10935975	43	2.0	43	95	0	156	22	14	35	26	1.94
10936274--10936326	21	2.5	21	87	0	70	32	18	22	26	1.97
10942119--10942158	20	2.0	20	85	0	53	17	40	7	35	1.78
10952584--10952644	23	2.7	23	94	0	104	32	40	1	24	1.65
10952651--10952772	43	2.8	43	80	2	120	22	35	18	23	1.96
10955016--10955141	43	2.9	43	88	2	182	24	19	34	22	1.96
10967815--10967847	11	3.0	11	90	0	57	66	0	0	33	0.92
10967793--10967847	19	2.7	21	77	13	60	60	0	1	38	1.08
10978900--10979071	42	4.1	42	93	2	283	21	16	36	25	1.94
10986630--10986710	35	2.3	35	89	0	135	32	7	33	27	1.84
10989332--10989496	77	2.1	77	93	0	285	38	12	7	41	1.71
10996917--10996950	17	2.1	16	88	5	50	17	0	11	70	1.16
10997876--10998011	68	2.0	68	94	1	229	25	10	22	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11002973--11003005	17	1.9	17	88	11	50	39	12	9	39	1.74
11003132--11003175	22	2.0	23	81	4	54	38	11	9	40	1.73
11003157--11003315	29	5.5	29	82	5	205	38	15	10	35	1.82
11003157--11003313	59	2.7	57	83	3	215	38	14	10	35	1.81
11006385--11006434	25	2.0	25	84	0	64	32	28	14	26	1.94
11010796--11010845	18	2.7	19	82	14	61	78	0	22	0	0.76
11010872--11010929	18	3.0	19	77	22	59	72	0	27	0	0.85
11010801--11010982	84	2.2	84	88	4	262	58	3	34	2	1.30
11010879--11010929	6	9.0	6	79	16	56	74	0	25	0	0.82
11010870--11010929	24	2.6	22	84	15	77	71	0	28	0	0.86
11011152--11011193	7	5.9	7	78	15	50	80	0	19	0	0.70
11011151--11011182	9	3.8	9	88	12	50	78	0	21	0	0.76
11011137--11011193	29	2.0	29	89	0	87	73	0	26	0	0.83
11011809--11012110	60	5.0	60	90	2	405	23	18	32	25	1.97
11013044--11013078	2	17.5	2	100	0	70	48	0	0	51	1.00
11013659--11013702	22	2.0	22	82	8	54	31	18	6	43	1.76
11016115--11016251	43	3.2	43	88	1	186	27	16	30	25	1.97
11027961--11028002	19	2.2	19	83	8	50	59	0	19	21	1.38
11029067--11029199	43	3.2	43	91	5	202	24	17	33	25	1.96
11029069--11029235	81	2.0	84	83	11	211	23	16	34	25	1.96
11037733--11037806	35	2.1	35	92	0	121	31	5	33	29	1.80
11040452--11040519	35	2.0	35	82	8	86	22	10	36	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11040590--11040656	34	1.9	34	84	6	89	26	11	31	29	1.92
11045598--11045633	16	2.3	16	90	4	56	30	0	13	55	1.39
11056726--11056877	43	3.6	41	85	6	198	22	36	15	26	1.93
11056756--11056891	43	3.2	43	91	4	229	20	36	18	25	1.95
11056726--11056891	86	2.0	83	90	3	260	21	36	16	25	1.94
11057992--11058040	23	2.1	24	85	11	66	20	18	2	59	1.48
11060541--11060581	21	1.9	22	90	5	66	17	24	7	51	1.70
11063830--11063914	39	2.2	39	86	0	116	35	23	21	20	1.96
11067137--11067173	19	2.0	19	94	5	67	32	0	18	48	1.49
11072843--11072901	26	2.3	26	79	5	66	66	3	28	1	1.18

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