genome.fa.s5.2.7.7.80.10.50.1000.93.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  93  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)
34103123--34103194	25	3.0	24	75	11	67	56	2	0	40	1.13
34103098--34103172	40	1.9	40	83	2	98	53	2	0	44	1.14
34103136--34103391	113	2.3	110	78	8	266	54	5	2	38	1.35
34103353--34103400	19	2.5	20	80	16	57	58	0	0	39	0.98
34103388--34103437	26	1.9	26	88	8	75	58	2	2	36	1.21
34103433--34103490	27	2.1	27	90	0	89	51	3	1	43	1.28
34103261--34103616	152	2.3	154	85	6	470	54	3	1	40	1.27
34103460--34103782	120	2.6	122	86	8	426	53	1	3	41	1.27
34103664--34103817	26	5.8	26	73	14	111	55	1	1	40	1.19
34103513--34103794	41	7.1	40	69	21	159	53	0	3	42	1.22
34104307--34104348	22	2.0	22	85	4	59	47	7	0	45	1.30
34108261--34108369	43	2.5	43	83	2	130	26	14	34	23	1.94
34110307--34110597	146	2.0	145	99	0	564	30	6	7	54	1.54
34110923--34110955	14	2.4	14	90	10	50	21	3	0	75	0.93
34112521--34112601	1	81.0	1	72	0	54	0	0	14	85	0.61
34112522--34112599	6	12.8	6	80	12	88	0	0	15	84	0.62
34112521--34112593	33	2.3	30	86	9	101	0	0	15	84	0.61
34112521--34112593	7	10.6	7	77	13	64	0	0	15	84	0.61
34112602--34112819	39	5.7	39	89	2	291	44	20	13	20	1.85
34112602--34112833	115	2.0	116	85	4	317	45	19	13	21	1.85
34124791--34125082	146	2.0	145	95	0	521	30	23	16	29	1.96
34125959--34125996	4	9.2	4	88	11	51	23	0	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34127422--34128182	380	2.0	380	96	1	1409	33	14	15	36	1.88
34129746--34129775	10	3.0	10	95	0	51	60	0	26	13	1.34
34173983--34174352	188	2.0	190	93	1	645	52	9	10	27	1.65
34187356--34187414	21	2.8	20	77	7	64	57	6	8	27	1.53
34189309--34189349	16	2.6	15	84	7	55	34	0	0	65	0.93
34189308--34189349	15	2.8	16	85	7	61	33	0	0	66	0.92
34189563--34189601	2	20.5	2	84	10	55	53	0	2	43	1.14
34189563--34189604	14	2.8	15	92	7	68	54	0	2	42	1.13
34189563--34189606	12	4.0	11	82	17	56	54	0	2	43	1.12
34193213--34193247	17	2.1	17	88	0	52	22	22	20	34	1.97
34196000--34196068	4	17.2	4	72	10	52	44	4	1	49	1.31
34208888--34209942	253	4.2	250	83	2	1175	49	5	9	35	1.60
34209923--34209983	16	3.9	16	77	12	56	49	3	0	47	1.18
34209858--34210418	206	2.8	201	84	5	763	44	4	6	43	1.51
34212859--34212940	29	2.8	29	77	7	85	57	6	1	35	1.31
34237387--34237433	12	3.9	12	82	0	58	44	0	53	2	1.12
34240780--34240814	18	1.9	18	94	0	61	34	8	14	42	1.76
34240955--34241000	20	2.2	20	85	11	58	28	0	6	65	1.17
34249448--34249492	23	2.0	22	82	4	54	60	4	0	35	1.17
34250234--34250324	25	3.6	24	72	13	85	60	1	0	38	1.04
34250234--34250339	51	2.1	51	82	7	126	60	0	0	38	1.03
34250278--34250339	26	2.4	25	79	10	72	61	1	0	37	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34250657--34250705	24	2.0	24	100	0	98	36	32	14	16	1.89
34255809--34255922	58	2.0	58	94	0	201	51	22	11	14	1.73
34260588--34260703	58	2.0	58	89	3	180	50	22	12	14	1.75
34274869--34274919	25	2.0	25	88	0	75	33	7	9	49	1.65
34276259--34276324	32	2.1	32	97	0	123	42	7	16	33	1.77
34279351--34279412	31	2.0	31	100	0	124	54	22	19	3	1.58
34293828--34293868	2	20.5	2	94	0	73	48	0	51	0	1.00
34305864--34305888	2	12.5	2	100	0	50	48	0	0	52	1.00
34326744--34326801	25	2.5	22	75	25	57	55	1	1	41	1.20
34326746--34326800	24	2.4	22	79	11	65	56	1	1	40	1.21
34326786--34326856	30	2.5	27	78	13	72	40	0	0	59	0.98
34333117--34333183	19	3.5	19	97	0	125	58	0	0	41	0.98
34333117--34333202	38	2.2	38	83	6	102	60	0	1	38	1.04
34350749--34350934	8	22.5	8	80	6	156	45	9	4	40	1.55
34350751--34350940	18	10.6	18	81	4	177	45	8	4	41	1.56
34350748--34350872	30	4.2	30	87	2	164	48	8	0	42	1.38
34350749--34350934	26	7.2	26	85	0	183	45	9	4	40	1.55
34350751--34350871	12	9.9	12	84	3	143	49	8	0	41	1.38
34350835--34350940	34	3.1	34	88	2	149	41	8	8	41	1.66
34352225--34352265	10	4.2	10	84	9	50	70	0	2	26	0.99
34352225--34352262	18	2.1	18	85	9	51	71	0	2	26	1.00
34356787--34356885	51	1.9	51	93	0	171	33	15	22	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34366283--34366307	10	2.5	10	100	0	50	28	0	0	72	0.86
34369384--34369429	23	1.9	23	86	8	65	50	0	2	47	1.13
34372847--34372920	35	2.1	36	94	5	132	44	0	16	39	1.47
34380561--34380602	11	3.9	11	79	14	52	45	2	4	47	1.36
34380559--34380602	17	2.8	15	77	12	52	45	2	4	47	1.35
34392329--34392490	81	2.0	81	97	0	306	40	19	17	22	1.91
34395052--34395076	13	1.9	13	100	0	50	44	0	0	56	0.99
34404646--34404766	61	2.0	61	95	3	217	34	19	11	34	1.88
34407681--34407743	11	5.5	12	76	17	55	39	0	0	60	0.97
34409979--34410011	17	1.9	17	88	11	50	9	9	3	78	1.05
34415038--34415372	166	2.0	165	97	1	627	46	3	5	43	1.46
34429604--34429653	19	2.6	19	90	0	73	42	4	8	46	1.52
34429604--34429664	19	3.4	18	84	8	65	44	3	6	45	1.46
34429604--34429664	2	31.0	2	74	9	54	44	3	6	45	1.46
34435332--34435376	24	1.9	24	86	4	65	55	0	2	42	1.12
34440376--34440518	30	5.0	28	77	13	112	37	15	16	31	1.90
34442530--34442591	22	2.9	22	85	4	65	75	8	8	8	1.18
34443261--34443296	17	2.2	16	90	5	54	63	0	0	36	0.94
34446974--34447036	21	3.0	20	77	9	63	38	1	3	57	1.24
34448130--34448171	12	3.6	12	78	15	52	52	4	7	35	1.50
34450933--34451058	64	2.0	64	95	0	225	30	15	11	42	1.81
34451045--34451117	36	2.0	36	91	0	119	41	17	5	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34453896--34453928	9	3.7	9	92	8	50	87	0	3	9	0.63
34454665--34454708	2	22.0	2	85	0	61	43	2	4	50	1.35
34455156--34455212	24	2.3	24	81	3	69	26	1	0	71	0.95
34455187--34455234	18	2.8	18	77	20	50	33	0	0	66	0.92
34463283--34463335	27	2.0	27	88	0	79	41	9	9	39	1.70
34463280--34463394	28	4.2	28	81	1	108	41	6	7	44	1.58
34463280--34463412	28	4.8	28	79	0	90	44	6	8	40	1.61
34465624--34465667	2	22.0	2	100	0	88	50	0	0	50	1.00
34466112--34466162	21	2.4	21	96	0	93	23	33	19	23	1.97
34468064--34468119	29	1.9	29	89	7	87	30	14	5	50	1.65
34468244--34468333	33	2.7	33	89	0	126	33	7	20	38	1.81
34468587--34468626	20	2.0	21	85	14	57	40	0	5	55	1.22
34473370--34473419	21	2.4	21	96	0	91	30	38	18	14	1.89
34475935--34475976	21	2.0	21	86	4	59	42	2	0	54	1.13
34490846--34490915	33	2.1	33	97	0	131	20	25	15	38	1.92
34491021--34491051	3	10.3	3	100	0	62	35	0	0	64	0.94
34493710--34493870	80	2.0	80	95	0	286	14	22	22	40	1.90
34496312--34496560	138	1.8	138	80	5	306	35	17	26	20	1.95
34497569--34497605	15	2.4	16	82	13	51	43	0	0	56	0.99
34502970--34503022	25	2.1	25	96	0	97	20	24	15	39	1.91
34506630--34506751	64	2.0	63	96	3	221	20	27	8	43	1.80
34511046--34511131	41	2.1	41	84	0	109	18	12	23	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34520753--34520795	2	21.5	2	100	0	86	48	0	0	51	1.00
34525472--34525514	15	2.9	15	80	16	54	76	0	11	11	1.02
34525522--34525573	28	1.9	26	88	7	77	50	1	0	48	1.12
34525684--34525727	15	3.0	15	83	3	54	63	0	0	36	0.95
34525681--34525731	26	1.9	27	84	4	68	58	0	0	41	0.98
34525677--34525833	40	3.9	40	87	4	183	51	1	1	45	1.20
34525709--34525756	25	1.9	25	91	0	78	52	2	2	43	1.24
34525734--34525797	15	4.6	15	69	25	50	48	1	3	46	1.27
34525748--34525808	25	2.6	23	75	12	70	49	1	1	47	1.21
34532139--34532181	18	2.4	18	92	0	68	37	0	0	62	0.95

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