genome.fa.s4.2.7.7.80.10.50.1000.29.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  29  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)
10226425--10226493	32	2.2	32	84	2	86	36	11	26	26	1.90
10227607--10227772	43	3.9	43	80	9	187	25	18	33	22	1.97
10228480--10228525	19	2.4	20	82	10	60	54	0	2	43	1.12
10228926--10228963	20	1.9	20	100	0	76	28	5	21	44	1.73
10230196--10230220	13	1.9	13	100	0	50	44	0	8	48	1.32
10233470--10233518	20	2.3	22	79	10	57	12	32	6	48	1.65
10234744--10234785	15	2.7	16	77	7	50	80	7	11	0	0.88
10235406--10235449	16	2.6	17	82	13	56	77	0	20	2	0.88
10235439--10235506	32	2.1	32	83	5	84	48	10	23	17	1.78
10242392--10242599	55	3.8	55	92	1	337	27	37	13	20	1.91
10242392--10242599	109	1.9	110	91	1	346	27	37	13	20	1.91
10243901--10243942	14	3.0	15	80	13	54	42	0	0	57	0.99
10244352--10244611	80	3.2	80	87	2	326	31	11	23	33	1.90
10249183--10249288	43	2.5	43	85	0	149	19	33	18	27	1.96
10255166--10255280	43	2.7	43	81	0	122	21	33	18	26	1.96
10259131--10259225	37	2.6	37	84	0	109	24	35	13	26	1.93
10261737--10261888	54	2.8	54	92	0	250	19	13	41	25	1.88
10266017--10266054	2	19.0	2	88	0	58	47	0	5	47	1.24
10266101--10266219	42	2.8	42	88	0	175	20	34	22	22	1.97
10268859--10268973	35	3.4	35	75	7	128	26	13	26	33	1.94
10268840--10269033	67	2.9	67	85	0	228	27	13	25	33	1.93
10268878--10268974	32	3.0	31	82	8	122	24	14	27	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10283982--10284164	43	4.2	43	89	2	249	24	32	18	25	1.97
10283982--10284164	88	2.1	87	86	2	251	24	32	18	25	1.97
10290668--10290709	20	2.2	19	84	16	52	30	2	26	40	1.69
10290704--10290822	37	3.2	37	82	0	157	27	11	33	26	1.91
10294027--10294057	2	15.5	2	100	0	62	0	0	48	51	1.00
10305729--10305847	43	2.8	43	88	2	168	21	20	37	20	1.94
10305739--10305860	43	2.8	43	85	4	158	22	18	39	19	1.92
10305901--10305925	2	12.5	2	100	0	50	48	0	0	52	1.00
10308583--10308690	35	3.1	35	83	2	110	29	9	32	28	1.88
10325884--10325955	36	2.0	35	94	2	126	45	20	0	31	1.51
10339659--10339735	35	2.2	35	85	0	100	29	14	29	25	1.95
10339761--10339788	2	14.0	2	100	0	56	50	0	0	50	1.00
10341456--10341563	35	3.1	34	80	5	117	31	11	27	29	1.91
10343296--10343403	35	3.1	35	91	0	171	26	11	33	28	1.91
10348268--10348429	73	2.2	72	85	6	202	27	19	14	38	1.90
10350518--10350622	39	2.7	40	83	8	126	21	21	20	36	1.95
10353255--10353350	21	4.6	22	88	5	94	26	18	22	32	1.97
10358101--10358138	20	1.9	20	84	10	51	10	15	5	68	1.36
10359451--10359600	55	2.7	55	91	1	237	24	39	16	20	1.92
10361546--10361632	43	2.0	43	88	4	131	22	36	16	24	1.94
10362431--10362482	21	2.4	21	80	3	50	48	5	28	17	1.70
10368689--10368771	43	1.9	43	88	9	125	25	38	13	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10376991--10377138	60	2.5	60	83	4	183	26	18	20	33	1.96
10380363--10380536	29	5.9	28	80	9	168	39	10	11	39	1.76
10380363--10380536	59	3.0	58	83	7	201	39	10	11	39	1.76
10385364--10385477	43	2.7	43	79	2	122	25	17	34	22	1.96
10385491--10385545	23	2.4	23	90	0	83	20	1	43	34	1.62
10393746--10393851	37	2.9	37	89	0	158	33	12	34	19	1.89
10398907--10398939	17	1.9	17	88	11	50	39	3	15	42	1.62
10400280--10400318	12	3.4	12	79	13	55	41	2	0	56	1.13
10400263--10400326	22	2.8	23	90	7	103	42	3	0	54	1.16
10401559--10401699	71	2.0	70	91	5	223	41	16	12	29	1.85
10402813--10402850	20	1.9	20	100	0	76	42	5	15	36	1.70
10413276--10413308	17	1.9	17	88	11	50	39	3	15	42	1.62
10417399--10417579	60	3.0	61	81	6	208	23	31	18	25	1.98
10417431--10417579	60	2.4	62	87	6	232	22	32	17	27	1.96
10417943--10417974	2	16.5	2	93	6	57	50	0	0	50	1.00
10419374--10419420	20	2.3	20	85	0	58	68	4	21	6	1.30
10428851--10428979	36	3.7	36	78	8	140	27	35	13	23	1.93
10428851--10428979	69	1.9	69	83	3	170	27	35	13	23	1.93
10429890--10430005	60	1.9	60	82	6	146	30	18	21	29	1.97
10430374--10430476	43	2.4	44	80	6	131	20	35	18	25	1.95
10444015--10444047	16	2.1	16	88	11	50	48	18	6	27	1.71
10446230--10446260	14	2.1	14	94	5	53	67	0	25	6	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10460203--10460270	27	2.5	27	85	4	93	30	17	19	32	1.95
10462763--10462792	14	2.1	14	93	0	51	46	16	20	16	1.84
10469679--10469716	19	2.0	19	100	0	76	42	31	0	26	1.56
10470846--10470901	27	2.1	27	93	0	94	37	10	8	42	1.71
10479292--10479339	21	2.3	20	82	10	69	14	16	6	62	1.51
10479297--10479337	21	1.9	22	95	5	75	17	17	7	58	1.60
10485508--10485544	19	1.9	19	100	0	74	27	0	29	43	1.55
10496098--10496157	28	2.1	28	87	6	86	31	21	23	23	1.98
10497821--10497845	13	1.9	13	100	0	50	48	8	0	44	1.32
10501139--10501184	15	3.1	14	84	9	65	54	15	4	26	1.59
10503619--10503655	19	1.9	19	94	0	65	43	27	0	29	1.55
10518273--10518543	29	9.6	28	83	4	312	36	12	10	40	1.77
10518273--10518543	84	3.2	84	88	2	373	36	12	10	40	1.77
10523906--10523975	37	1.9	36	83	13	90	52	0	7	40	1.29
10523904--10523984	37	2.2	35	79	16	85	46	1	7	44	1.39
10525325--10525525	30	6.9	30	82	11	249	36	12	9	40	1.77
10525271--10525526	29	8.9	29	77	11	242	35	14	10	39	1.81
10525271--10525525	86	2.9	85	90	2	375	35	14	10	39	1.80
10525271--10525528	57	4.5	58	81	7	294	35	14	10	39	1.80
10534611--10534635	12	2.1	12	100	0	50	36	0	0	64	0.94
10535407--10535495	21	4.2	21	75	7	72	30	14	14	40	1.86
10538784--10538902	43	2.8	43	89	2	177	21	21	37	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10538794--10538915	43	2.8	43	88	2	174	22	18	39	18	1.92
10538901--10538963	20	3.2	20	90	2	101	25	3	41	30	1.71
10544497--10544535	17	2.2	18	90	4	62	35	7	12	43	1.72
10555306--10555393	43	2.0	43	93	0	149	23	37	15	22	1.93
10560474--10560648	42	4.1	42	90	5	255	25	34	18	22	1.96
10577573--10577605	16	2.1	16	94	0	57	30	12	30	27	1.92
10577792--10577840	21	2.3	21	92	3	80	20	6	18	55	1.64
10591750--10591793	2	22.0	2	100	0	88	50	0	0	50	1.00
10596186--10596229	21	2.1	21	86	0	61	45	11	9	34	1.72
10598509--10598563	22	2.5	23	82	8	69	36	32	12	18	1.88
10598625--10598675	23	2.3	23	77	16	61	35	35	9	19	1.85
10599046--10599651	304	2.0	304	82	3	738	28	22	16	32	1.96
10600617--10600724	57	1.9	57	80	0	126	23	21	16	38	1.92
10603932--10604085	60	2.6	60	81	2	175	33	18	21	26	1.97
10604342--10604375	2	17.0	2	87	0	50	47	0	5	47	1.26
10609126--10609272	37	4.0	37	98	0	285	30	10	36	21	1.88
10619739--10619854	42	2.8	42	85	0	142	25	22	31	21	1.98
10619904--10619956	2	26.0	2	92	3	88	49	1	0	47	1.12
10631260--10631313	19	2.7	20	75	18	51	48	11	3	37	1.57
10642190--10642215	13	2.0	13	100	0	52	23	38	0	38	1.55
10650670--10650731	26	2.4	26	94	0	106	32	40	3	24	1.71
10650966--10651089	42	3.0	42	92	0	212	22	33	21	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10653731--10653923	37	5.2	37	87	5	250	25	35	9	29	1.87
10655208--10655296	29	2.9	32	77	11	87	15	4	25	53	1.61
10655760--10655808	22	2.3	22	89	10	75	10	28	8	53	1.63
10656591--10656769	54	3.3	54	92	0	295	26	39	13	20	1.89
10663310--10663461	28	5.3	28	82	10	173	40	9	12	37	1.76
10663310--10663472	59	2.8	58	85	3	220	38	9	12	39	1.76
10663625--10663657	17	1.9	17	88	11	50	39	3	15	42	1.62
10664647--10664713	34	2.0	33	85	8	91	29	2	11	55	1.51
10665362--10665394	2	16.5	2	93	0	57	51	0	0	48	1.00
10686439--10686494	25	2.2	25	83	0	67	23	26	19	30	1.98

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