genome.fa.s5.2.7.7.80.10.50.1000.17.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:  30015117

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   

This is table  17  of  85  ( 10117 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)
5603854--5603930	39	2.0	39	97	0	145	29	25	14	29	1.95
5607327--5607361	18	1.9	18	88	11	54	34	5	0	60	1.21
5613041--5613339	149	2.0	150	99	0	591	43	4	11	40	1.59
5614033--5614077	21	2.1	21	84	8	56	22	4	4	68	1.25
5622255--5622359	41	2.6	41	84	3	122	28	23	25	21	1.99
5627606--5627643	14	2.6	15	87	4	51	44	2	0	52	1.14
5628034--5628084	27	1.9	26	84	11	68	49	3	5	41	1.45
5633752--5633823	28	2.6	28	86	4	92	31	13	25	29	1.94
5642059--5642326	41	6.5	41	95	0	446	27	18	28	25	1.98
5646353--5646381	15	1.9	15	100	0	58	20	27	6	44	1.77
5648476--5648532	27	2.1	27	96	0	105	45	10	15	28	1.79
5650178--5650202	13	1.9	13	100	0	50	8	32	8	52	1.60
5653393--5653434	15	2.9	15	82	10	52	47	0	0	52	1.00
5659234--5659269	18	2.0	18	94	0	63	25	27	8	38	1.84
5659701--5659748	25	1.9	25	100	0	96	45	0	14	39	1.45
5659775--5660719	45	20.9	45	76	12	770	49	25	0	24	1.55
5659775--5660782	23	44.5	23	73	15	746	49	24	0	25	1.55
5659775--5660780	113	8.9	113	82	10	989	49	24	0	25	1.55
5659775--5660782	271	3.7	268	81	10	990	49	24	0	25	1.55
5659775--5660651	68	12.9	67	81	8	626	49	25	0	24	1.55
5659867--5660782	68	13.5	68	79	11	621	49	24	0	25	1.55
5664258--5664311	20	2.7	20	82	5	74	25	3	7	62	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5671342--5671366	3	8.3	3	100	0	50	32	36	0	32	1.58
5676680--5676717	19	2.0	19	85	10	51	31	7	7	52	1.59
5678698--5678776	38	2.1	38	82	2	95	41	16	22	18	1.90
5684479--5684533	28	2.0	28	85	0	74	36	0	0	63	0.95
5684706--5684824	41	2.9	41	88	5	177	36	23	16	23	1.95
5685181--5685215	2	17.5	2	93	0	61	48	2	0	48	1.16
5686596--5686680	21	4.0	22	84	7	95	16	23	25	34	1.95
5686609--5686682	21	3.5	21	87	5	96	14	22	27	35	1.94
5690086--5691388	75	17.1	75	86	2	1613	27	18	20	34	1.95
5690086--5691384	228	5.7	226	88	1	1722	26	18	20	34	1.95
5690088--5691388	303	4.3	305	86	3	1755	27	18	20	34	1.95
5692279--5692334	16	3.5	15	78	9	58	69	1	28	0	0.98
5692302--5692332	13	2.3	14	94	5	55	80	0	19	0	0.71
5698799--5698842	3	15.0	3	95	4	81	68	0	0	31	0.90
5698801--5698840	20	2.0	20	100	0	80	70	0	0	30	0.88
5698799--5698842	23	1.9	23	100	0	88	68	0	0	31	0.90
5700023--5700192	54	3.0	58	77	10	233	37	10	14	38	1.80
5705782--5706352	126	4.5	125	84	3	716	30	17	22	29	1.96
5705782--5706352	253	2.3	252	86	2	752	30	17	22	29	1.96
5709472--5709884	22	19.1	22	84	3	468	25	0	30	43	1.57
5709475--5709884	43	9.5	42	82	9	443	25	0	30	43	1.57
5710436--5710470	18	1.9	18	88	0	52	42	8	28	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5711091--5711130	7	5.7	7	87	0	62	55	12	2	30	1.50
5717742--5717890	41	3.4	41	68	13	127	34	2	3	59	1.25
5717733--5717892	49	3.4	48	72	20	176	35	1	3	59	1.26
5717734--5717914	90	2.0	91	98	1	355	37	2	3	56	1.30
5727118--5727185	34	2.0	34	100	0	136	32	2	2	61	1.26
5727121--5727189	12	6.0	11	74	15	68	28	1	2	66	1.14
5730058--5730097	20	2.0	20	85	0	53	50	15	10	25	1.74
5741742--5741780	14	2.8	13	81	11	51	51	0	5	43	1.24
5743514--5744194	44	15.7	44	70	12	327	27	23	20	28	1.99
5743736--5744064	172	1.9	173	81	6	400	27	21	20	30	1.98
5743514--5744194	217	3.1	217	91	1	1141	27	23	20	28	1.99
5756111--5756158	18	2.5	18	83	10	51	77	6	0	16	0.97
5755815--5756550	367	2.0	369	91	2	1210	43	14	12	29	1.82
5761083--5761162	41	2.0	41	100	0	160	33	3	22	40	1.72
5763538--5763616	39	2.0	39	95	0	140	44	13	11	30	1.80
5783171--5783358	38	4.9	38	78	0	196	13	20	31	34	1.91
5789259--5789288	2	15.0	2	100	0	60	50	0	0	50	1.00
5789719--5789849	46	2.8	46	88	0	181	29	25	19	25	1.99
5797903--5797954	26	2.0	26	96	0	95	28	3	17	50	1.64
5800049--5800257	104	2.0	105	97	0	393	37	18	16	27	1.93
5800226--5800380	25	6.2	25	94	1	249	20	29	16	34	1.94
5804502--5804555	27	2.0	28	88	3	83	48	20	14	16	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5804667--5804692	5	5.2	5	100	0	52	23	57	0	19	1.40
5807501--5807627	25	5.1	25	92	0	211	18	29	17	33	1.94
5812187--5812240	27	2.0	28	88	3	83	48	20	14	16	1.81
5817708--5817802	20	4.8	20	78	7	79	38	16	28	15	1.90
5817696--5817811	40	2.9	42	76	12	100	37	16	29	17	1.91
5828274--5828406	41	3.2	40	86	4	131	30	23	19	26	1.98
5828304--5828406	41	2.5	41	95	0	179	31	23	18	27	1.97
5840255--5840302	25	1.9	25	86	0	69	29	20	20	29	1.98
5847255--5847418	41	3.8	41	84	7	175	31	24	12	31	1.93
5847217--5847431	44	4.9	44	81	6	224	31	23	13	31	1.93
5847406--5847455	24	2.1	24	92	0	82	28	24	8	40	1.83
5847362--5847499	68	2.0	68	92	0	231	31	25	10	33	1.89
5847430--5847670	44	5.5	44	87	1	338	29	24	13	31	1.93
5847235--5847632	201	2.0	198	90	1	616	30	24	13	32	1.93
5847437--5847670	89	2.6	88	85	2	317	30	25	13	30	1.94
5847430--5847669	133	1.8	133	94	0	426	30	25	12	32	1.93
5847631--5847922	88	3.3	89	82	2	349	26	24	21	27	1.99
5847739--5847876	43	3.2	43	70	8	134	25	27	21	26	1.99
5847694--5847847	45	3.5	45	75	7	152	24	26	20	28	1.99
5847665--5847886	43	5.1	42	67	11	133	24	26	22	26	2.00
5855913--5855991	19	3.8	20	82	14	90	37	17	8	35	1.81
5858123--5858390	30	9.0	30	75	8	226	23	25	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5858129--5858387	59	4.4	59	76	9	267	23	26	11	38	1.89
5858138--5858414	89	3.1	89	87	2	412	24	24	12	38	1.90
5858161--5858414	59	4.3	58	74	10	226	24	25	12	38	1.90
5865083--5865222	49	2.9	49	90	0	217	32	26	15	26	1.95
5866405--5866478	23	3.2	23	86	0	112	27	29	18	24	1.98
5867936--5868174	121	2.0	121	98	0	460	41	16	15	26	1.87
5874857--5875013	54	2.9	54	88	3	244	30	22	18	28	1.97
5888272--5888296	1	25.0	1	100	0	50	0	0	0	100	0.00
5896969--5897386	41	10.2	41	86	2	527	21	22	23	32	1.98
5898440--5898484	23	2.0	23	87	8	67	24	15	6	53	1.66
5901271--5902112	420	2.0	420	97	0	1605	25	15	18	40	1.90
5903184--5903377	96	2.0	97	89	3	302	24	10	20	44	1.83
5903594--5903943	86	4.1	85	80	5	219	22	16	30	30	1.96
5903655--5903943	43	6.7	43	83	3	350	21	17	31	29	1.96
5903659--5903947	129	2.2	128	85	3	393	20	17	31	30	1.96
5909582--5909636	25	2.2	25	87	3	76	23	27	16	32	1.96
5926254--5926530	68	4.1	68	82	5	317	38	16	19	24	1.92
5931009--5931033	12	2.1	12	100	0	50	24	36	24	16	1.94
5931192--5931261	9	7.8	9	82	6	88	44	20	8	27	1.80
5931191--5931260	27	2.6	27	86	0	104	45	18	8	27	1.78
5935015--5935067	23	2.3	23	84	12	74	56	5	0	37	1.23
5938716--5938850	40	3.4	39	74	7	130	34	26	16	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5939773--5939837	4	15.0	4	73	20	51	26	4	0	69	1.08
5939773--5939830	22	2.7	22	89	7	84	24	5	0	70	1.07
5939773--5939841	22	2.8	24	78	17	79	26	5	0	68	1.12
5943655--5944059	202	2.0	202	94	0	704	25	14	20	39	1.91
5945485--5945537	23	2.3	23	84	12	74	56	5	0	37	1.23
5949180--5949317	40	3.5	40	74	11	135	30	22	18	28	1.97
5950202--5950234	10	3.2	11	87	12	52	0	21	0	78	0.75
5950201--5950247	20	2.3	20	81	0	58	0	23	4	72	1.02
5964569--5964611	18	2.4	18	88	0	59	44	9	27	18	1.80
5966442--5966484	22	2.0	22	81	9	52	48	0	25	25	1.51

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