genome.fa.s5.2.7.7.80.10.50.1000.78.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  78  of  103  ( 12320 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)
29204115--29204408	31	9.5	31	83	2	304	39	19	16	24	1.92
29204127--29204404	93	3.0	92	87	2	378	39	19	16	24	1.91
29204161--29204404	62	3.9	62	87	0	344	39	19	16	24	1.91
29204162--29204409	31	8.0	31	84	0	307	39	19	16	24	1.91
29204986--29205311	47	7.0	47	79	0	357	21	34	16	26	1.95
29204986--29205284	94	3.2	94	85	2	395	22	35	16	26	1.95
29204992--29205320	140	2.3	141	81	2	365	22	34	16	26	1.95
29210147--29210224	20	3.4	24	67	24	69	44	1	3	48	1.29
29210149--29210236	43	2.1	42	95	2	158	48	1	4	44	1.30
29210153--29210264	43	2.7	41	84	9	115	45	0	5	47	1.31
29210223--29210284	29	2.1	29	82	5	72	46	0	4	48	1.23
29210234--29210317	29	2.9	29	84	11	102	42	4	2	50	1.36
29210261--29210317	28	2.0	30	89	6	91	43	7	0	49	1.29
29216180--29216210	16	1.9	16	100	0	62	25	0	3	70	1.02
29216271--29216487	87	2.5	87	81	5	251	45	7	7	39	1.61
29218698--29218826	62	2.1	60	80	9	136	21	30	17	31	1.96
29218791--29218943	62	2.5	60	77	8	164	22	28	19	29	1.98
29219209--29219246	2	19.0	2	88	0	58	47	0	2	50	1.15
29219469--29219613	69	2.1	69	92	0	236	2	40	3	53	1.29
29220076--29220123	21	2.3	21	88	0	78	37	25	16	20	1.93
29219973--29220176	66	3.1	65	86	7	272	33	20	15	31	1.93
29220097--29220200	45	2.3	45	83	3	138	31	17	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29220650--29220776	61	2.1	62	83	4	159	32	7	18	41	1.79
29220963--29221119	22	7.1	22	82	4	127	26	10	21	40	1.86
29220919--29221048	44	2.9	44	84	1	161	26	10	16	45	1.81
29220936--29221097	89	1.8	88	82	1	207	27	10	19	41	1.84
29220936--29221116	89	2.0	88	80	1	200	27	11	20	40	1.86
29221051--29221139	45	2.0	45	84	8	119	26	11	28	33	1.91
29221051--29221139	22	4.0	22	86	5	108	26	11	28	33	1.91
29221184--29221268	22	3.9	22	78	3	73	47	23	9	20	1.79
29225192--29225229	20	1.9	20	88	0	58	42	0	2	55	1.14
29227943--29228041	44	2.2	44	82	10	114	33	6	3	57	1.38
29227956--29228042	44	2.0	43	84	10	115	35	4	3	56	1.37
29236312--29236354	2	21.5	2	95	0	77	48	0	48	2	1.14
29237852--29237928	27	2.7	28	82	9	77	51	1	3	42	1.28
29237922--29237949	7	4.0	7	100	0	56	85	0	0	14	0.59
29237888--29237986	51	1.9	52	85	4	139	65	2	1	31	1.10
29237919--29238032	43	2.6	42	80	13	115	64	1	2	31	1.18
29242646--29242827	91	2.0	91	93	0	310	29	20	26	23	1.99
29244707--29244737	3	10.3	3	100	0	62	67	0	0	32	0.91
29248633--29248678	17	2.7	17	86	6	58	23	8	0	67	1.18
29256862--29257013	26	5.9	26	78	2	155	30	19	14	34	1.92
29256862--29257013	51	3.0	52	74	6	148	30	19	14	34	1.92
29256877--29257041	77	2.1	77	80	3	179	35	15	13	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29258261--29258299	16	2.4	16	86	0	51	56	30	0	12	1.37
29261248--29261307	30	2.0	30	100	0	120	36	26	13	23	1.92
29261337--29261590	118	2.2	118	81	4	280	31	24	17	26	1.97
29263700--29263761	21	3.0	21	80	4	72	30	6	14	48	1.69
29264046--29264178	45	3.0	45	81	0	131	33	17	18	31	1.94
29264145--29264264	24	5.1	24	68	9	77	40	21	17	20	1.92
29264106--29264373	69	3.9	69	92	0	405	36	19	19	25	1.95
29264219--29264271	24	2.2	24	89	0	79	39	24	16	18	1.91
29264174--29264544	114	3.3	114	73	10	378	35	19	19	25	1.95
29264289--29264340	24	2.2	24	89	0	77	42	21	15	21	1.89
29264171--29264588	228	1.8	228	91	0	692	35	19	19	24	1.95
29264307--29264471	45	3.7	45	85	0	195	35	19	19	26	1.95
29264442--29264492	24	2.1	24	88	0	75	49	21	13	15	1.79
29264403--29264583	69	2.6	68	87	2	254	35	20	19	23	1.95
29264240--29264544	159	1.9	159	89	1	468	35	19	20	25	1.95
29264574--29264723	30	5.3	29	77	13	129	39	14	14	31	1.87
29264604--29264678	26	3.0	23	81	16	80	38	16	17	28	1.91
29264674--29264738	30	2.2	30	82	0	76	46	10	9	33	1.71
29277589--29277683	49	1.9	49	91	0	154	37	17	14	29	1.90
29281948--29281980	2	16.5	2	100	0	66	51	0	0	48	1.00
29287874--29287920	20	2.3	20	85	0	58	42	2	0	53	1.13
29288358--29288405	22	2.2	23	89	10	75	50	0	4	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29288665--29288698	16	2.1	16	88	0	50	38	2	5	52	1.41
29294370--29294459	45	2.0	45	88	0	135	34	8	21	35	1.84
29294383--29294454	23	3.2	23	67	11	58	31	8	22	37	1.84
29294379--29294489	45	2.5	45	80	5	127	36	8	20	35	1.83
29294462--29294508	22	2.1	22	84	7	60	25	6	27	40	1.80
29294572--29294621	23	2.2	23	85	7	66	38	10	20	32	1.85
29299514--29299574	24	2.5	24	83	0	77	24	26	13	36	1.92
29299590--29299648	27	2.2	27	84	0	73	40	15	11	32	1.83
29299603--29299654	27	1.9	27	84	0	68	42	17	13	26	1.86
29302345--29302385	22	1.9	22	85	5	57	63	9	9	17	1.51
29302694--29302756	33	1.9	33	90	0	99	42	6	11	39	1.66
29315257--29315589	121	2.8	121	82	4	395	53	19	6	19	1.67
29316695--29316972	112	2.5	111	80	4	337	41	14	12	30	1.84
29320914--29320981	21	3.1	21	81	10	75	20	4	1	73	1.08
29320925--29320981	24	2.5	24	79	20	70	21	3	1	73	1.07
29320930--29320988	18	3.4	18	74	19	54	20	3	1	74	1.05
29321331--29321367	3	13.0	3	88	11	60	29	0	0	70	0.88
29321331--29321375	9	4.6	10	84	15	51	31	0	0	68	0.89
29321995--29322159	87	1.9	87	92	0	276	18	40	9	31	1.83
29326281--29326348	34	2.0	34	85	5	93	14	5	32	47	1.69
29328440--29328473	15	2.3	15	90	5	52	41	0	2	55	1.15
29331386--29331412	6	4.5	6	100	0	54	18	0	14	66	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29332185--29332217	5	6.6	5	100	0	66	18	0	0	81	0.68
29338007--29338664	330	2.0	328	96	0	1190	36	18	15	29	1.92
29348757--29348816	29	2.1	29	93	0	102	20	15	23	41	1.89
29352072--29352097	2	13.0	2	100	0	52	50	0	0	50	1.00
29355208--29355537	121	2.7	121	77	3	315	51	20	6	21	1.70
29356631--29356818	100	1.9	101	83	3	245	45	18	10	25	1.82
29358385--29358501	33	3.1	38	71	17	93	29	4	0	64	1.18
29358407--29358472	33	2.0	33	90	0	105	28	3	0	68	1.05
29364186--29364225	20	2.0	20	85	9	55	22	25	10	42	1.84
29365655--29365715	24	2.7	23	75	7	61	27	6	14	50	1.68
29365664--29365720	24	2.3	25	79	11	64	22	10	12	54	1.68
29367966--29368025	32	1.9	32	86	3	86	45	13	1	40	1.53
29368129--29368220	43	2.2	43	86	5	125	43	2	15	39	1.59
29372438--29372462	3	8.3	3	100	0	50	68	0	0	32	0.90
29373056--29373090	15	2.3	15	90	0	52	0	20	0	80	0.72
29373080--29373109	14	2.1	14	93	0	51	13	10	3	73	1.21
29390850--29390894	2	22.5	2	95	0	81	0	51	0	48	1.00
29390920--29390948	2	14.5	2	100	0	58	0	51	0	48	1.00
29391113--29391212	51	2.0	51	93	0	173	23	23	11	43	1.85
29397058--29397135	33	2.4	33	89	4	113	26	23	10	39	1.86
29408126--29408156	16	1.9	16	93	0	53	12	22	29	35	1.91
29422998--29423064	33	2.0	33	88	0	98	35	8	14	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29433472--29433523	25	2.1	25	100	0	104	48	25	0	26	1.52
29433638--29433796	87	1.8	87	89	5	250	40	20	11	27	1.87
29446662--29447026	81	4.5	82	83	4	402	43	18	20	17	1.88
29460123--29460408	112	2.5	111	80	6	299	20	12	19	47	1.82
29475198--29475229	5	6.4	5	100	0	64	37	0	0	62	0.95
29480275--29480307	16	2.1	16	88	11	50	60	0	0	39	0.97
29480215--29480299	23	3.7	22	71	18	66	52	2	2	42	1.27
29490623--29490928	153	2.0	153	99	0	603	32	23	15	27	1.95
29491978--29492009	3	10.7	3	100	0	64	68	0	0	31	0.90
29526165--29526244	43	1.9	40	87	7	115	30	18	16	35	1.93

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