genome.fa.s6.2.7.7.80.10.50.1000.42.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:  35726063

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  42  of  109  ( 13028 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)
13692953--13693570	4	155.0	4	92	1	909	25	4	25	45	1.71
13706970--13707009	21	1.9	21	89	0	62	32	22	15	30	1.94
13707330--13707375	25	1.9	23	86	8	65	36	0	2	60	1.09
13707732--13707786	24	2.3	24	90	6	85	32	1	0	65	1.03
13707746--13707793	13	3.8	13	75	10	55	33	2	2	62	1.18
13711203--13711257	23	2.4	23	80	19	71	25	30	1	41	1.66
13711203--13711257	22	2.5	21	83	16	67	25	30	1	41	1.66
13711203--13711257	11	4.9	11	77	16	60	25	30	1	41	1.66
13711312--13711363	20	2.5	21	93	6	97	40	0	0	59	0.97
13712494--13712519	7	3.7	7	100	0	52	26	0	15	57	1.38
13713657--13713777	23	5.4	22	84	4	161	50	24	0	24	1.50
13713655--13713777	45	2.7	45	82	5	167	50	25	0	24	1.50
13713828--13713910	23	3.6	22	76	7	85	51	25	0	22	1.48
13713828--13713977	81	1.9	79	92	2	255	49	26	0	24	1.51
13713914--13714243	23	14.8	24	75	11	181	48	23	0	26	1.57
13713908--13714199	44	6.6	44	81	9	344	48	24	0	26	1.56
13713828--13714218	131	3.0	127	82	11	394	48	25	0	25	1.55
13713908--13714218	110	2.8	111	80	6	364	47	24	0	26	1.56
13717667--13717731	18	3.2	21	72	12	55	29	7	6	56	1.51
13717693--13717811	27	4.5	26	76	12	84	27	7	2	62	1.35
13717741--13717775	3	11.7	3	100	0	70	34	0	0	65	0.93
13719770--13719804	16	2.2	16	94	0	61	11	14	28	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13722013--13722055	19	2.3	19	88	8	61	25	20	6	46	1.76
13726961--13727041	38	2.1	39	84	4	103	30	20	2	45	1.64
13727029--13727072	23	1.9	22	82	17	54	38	22	0	38	1.55
13727246--13727388	50	2.8	51	86	8	211	29	28	15	26	1.96
13732989--13733046	24	2.4	24	91	0	89	34	12	24	29	1.91
13733349--13733779	44	10.0	43	70	9	171	32	23	18	25	1.97
13733442--13733859	85	4.9	84	73	8	297	32	23	18	25	1.97
13733314--13733797	129	3.8	129	86	1	673	32	23	17	25	1.97
13736624--13737249	291	2.1	288	78	6	670	27	27	20	24	1.99
13739904--13739991	44	2.0	44	93	0	149	27	19	18	35	1.95
13745192--13745236	22	2.2	20	84	8	54	31	2	2	64	1.18
13745194--13745253	18	3.4	17	73	17	50	30	1	3	65	1.19
13750822--13750924	43	2.4	44	85	3	131	17	21	17	43	1.88
13752583--13752617	18	1.9	18	88	0	52	71	0	5	22	1.07
13763687--13763729	21	2.0	21	81	0	50	25	4	44	25	1.73
13769232--13769353	46	2.6	47	83	6	160	31	16	29	22	1.95
13770603--13770690	30	3.0	30	96	1	160	31	13	34	20	1.92
13772523--13772647	50	2.5	50	82	0	151	28	23	28	20	1.99
13772532--13772717	50	3.8	49	74	6	135	27	22	26	23	1.99
13777684--13777744	31	2.0	31	90	0	95	32	13	13	40	1.82
13782865--13782907	21	2.0	22	81	4	52	37	2	11	48	1.52
13783598--13783631	8	4.2	8	88	0	50	79	11	0	8	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13783961--13783985	2	12.5	2	100	0	50	52	0	0	48	1.00
13784430--13785696	638	2.0	638	99	0	2516	29	22	20	26	1.99
13792147--13792189	18	2.3	18	84	4	59	39	4	2	53	1.34
13792342--13792380	16	2.6	16	84	8	55	43	2	15	38	1.60
13792573--13792665	44	2.1	46	86	8	129	37	25	5	31	1.79
13792647--13792681	16	2.2	16	94	0	61	31	31	0	37	1.58
13793613--13793649	10	3.7	10	88	0	56	40	0	5	54	1.24
13797021--13797059	18	2.2	18	86	9	53	56	0	5	38	1.22
13797329--13797584	138	1.9	138	84	1	352	22	20	22	34	1.96
13809183--13809228	22	2.1	22	91	0	74	19	26	17	36	1.94
13828141--13828508	47	7.8	46	78	12	302	25	13	17	44	1.85
13828141--13828512	72	5.2	70	82	7	371	25	13	17	44	1.85
13828190--13828427	95	2.5	95	88	3	370	25	13	17	44	1.85
13828143--13828512	95	3.9	94	81	11	325	24	13	17	44	1.85
13828143--13828513	25	15.7	23	75	14	267	24	13	17	44	1.85
13828997--13829043	25	1.9	25	82	4	60	38	6	4	51	1.47
13830615--13830670	21	2.7	21	91	0	94	25	8	37	28	1.86
13832541--13832774	116	2.0	117	96	1	434	30	15	25	28	1.96
13834159--13834239	39	2.1	39	97	0	153	20	14	8	55	1.66
13838293--13838458	29	5.7	29	91	3	271	36	10	0	53	1.35
13838504--13838593	45	2.0	43	89	4	135	10	50	3	36	1.53
13840795--13840879	21	4.0	22	75	14	72	51	15	30	2	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13840807--13840879	21	3.4	21	80	1	83	50	16	30	2	1.59
13854544--13854595	23	2.3	23	84	15	65	15	23	1	59	1.46
13859026--13859076	24	2.2	24	86	10	70	15	23	1	58	1.47
13863192--13863746	194	2.9	192	78	5	566	31	18	16	34	1.92
13866169--13866193	13	1.9	13	100	0	50	72	4	16	8	1.24
13871160--13871188	13	2.2	13	100	0	58	37	0	34	27	1.57
13871763--13871807	23	1.9	24	86	4	65	22	2	48	26	1.62
13875067--13875621	194	2.9	192	78	5	566	31	18	16	34	1.92
13876816--13876950	68	2.0	69	88	4	202	49	5	3	41	1.43
13876825--13876969	68	2.1	69	83	6	179	51	4	3	41	1.38
13878296--13878320	13	1.9	13	100	0	50	72	4	16	8	1.24
13883287--13883315	13	2.2	13	100	0	58	37	0	34	27	1.57
13883890--13883934	23	1.9	24	86	4	65	22	2	48	26	1.62
13884758--13884842	27	3.2	26	79	3	89	35	9	30	24	1.87
13886613--13886718	28	3.6	30	82	11	87	28	23	25	22	1.99
13886647--13886727	28	2.9	28	90	0	117	27	25	23	23	2.00
13887075--13887323	27	9.2	27	88	4	287	22	16	18	41	1.90
13889243--13889284	21	2.0	21	95	0	75	14	23	21	40	1.90
13891125--13891170	15	3.1	15	78	9	51	21	4	8	65	1.38
13892199--13892264	29	2.3	29	97	0	123	40	6	15	37	1.72
13900144--13900222	33	2.4	32	82	2	95	68	5	10	16	1.36
13900366--13900420	25	2.2	25	83	0	74	20	36	16	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13900543--13900592	24	2.1	24	96	0	91	70	18	10	2	1.25
13904071--13904116	16	2.9	16	93	0	74	26	32	2	39	1.68
13920704--13920739	17	2.1	17	94	0	63	44	5	13	36	1.68
13926622--13926669	19	2.6	17	78	12	51	64	0	4	31	1.12
13926622--13926681	17	3.3	18	77	11	68	61	0	3	35	1.12
13926625--13926685	20	3.3	19	74	19	65	59	0	3	37	1.14
13926879--13926962	9	9.1	9	73	18	66	60	1	4	33	1.25
13927807--13927836	2	15.0	2	100	0	60	50	0	0	50	1.00
13928298--13928331	2	16.5	2	93	6	59	50	0	2	47	1.16
13927808--13928781	495	2.0	495	100	0	1948	39	14	18	28	1.90
13929641--13929678	20	1.9	20	100	0	76	31	31	5	31	1.80
13930602--13930653	3	17.3	3	100	0	104	0	32	0	67	0.91
13957620--13957673	16	3.4	16	74	5	56	55	0	25	18	1.43
13960923--13960954	16	2.0	16	100	0	64	37	12	25	25	1.91
13972718--13972748	13	2.4	13	94	0	53	48	9	22	19	1.78
13975275--13975311	15	2.4	16	95	4	67	18	2	5	72	1.15
13976639--13976678	20	2.0	20	95	0	71	42	10	5	42	1.60
13977732--13977762	2	15.5	2	100	0	62	48	0	0	51	1.00
13985207--13985301	48	2.0	48	95	0	172	22	21	14	42	1.89
13989304--13989377	17	4.4	17	71	6	60	47	13	6	32	1.69
13991728--13991752	13	1.9	13	100	0	50	32	4	0	64	1.12
13994270--13994348	15	5.4	14	68	15	52	40	3	0	55	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14009307--14009349	21	2.1	20	91	4	68	51	11	4	32	1.59
14009453--14009490	15	2.5	15	87	12	51	57	2	0	39	1.12
14015324--14015362	19	2.1	19	100	0	78	38	35	0	25	1.56
14015624--14015671	20	2.4	20	82	6	62	37	14	20	27	1.92
14020669--14020706	18	2.1	18	95	0	67	5	18	5	71	1.25
14021585--14021609	2	12.5	2	100	0	50	52	0	0	48	1.00
14031168--14031230	16	3.8	16	78	15	65	66	0	0	33	0.92
14037432--14037513	41	2.0	41	100	0	164	34	17	12	36	1.87
14045510--14045544	18	2.0	17	88	5	52	45	0	0	54	0.99
14045701--14045796	44	2.2	45	88	5	142	36	28	4	31	1.76

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109