genome.fa.s4.2.7.7.80.10.50.1000.48.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  48  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)
17645842--17645996	59	2.7	57	84	8	190	40	9	10	38	1.73
17645842--17645997	28	5.4	29	81	11	157	40	9	10	39	1.73
17652666--17652703	19	2.0	19	94	0	67	28	0	28	42	1.56
17656116--17656172	19	2.9	19	89	2	87	1	35	0	63	1.05
17671889--17671931	20	2.2	19	83	4	50	48	13	6	30	1.69
17685992--17686097	32	3.2	32	74	7	104	33	24	14	27	1.94
17685965--17686140	67	2.6	67	86	3	248	34	25	14	26	1.94
17686007--17686142	35	4.0	34	76	9	127	33	26	14	25	1.94
17690340--17690392	20	2.7	20	77	11	54	30	0	9	60	1.28
17694969--17695030	32	1.9	32	93	0	106	29	11	17	41	1.84
17704090--17704114	3	8.3	3	100	0	50	36	32	0	32	1.58
17704758--17704798	22	1.9	21	90	5	64	19	2	0	78	0.87
17704758--17704796	10	3.5	11	86	10	53	20	2	0	76	0.90
17705525--17705567	19	2.3	19	84	8	52	2	0	20	76	0.89
17707839--17707882	23	1.9	23	90	0	70	25	11	27	36	1.90
17707794--17708008	113	1.9	113	85	0	295	24	11	28	35	1.90
17708062--17708110	23	2.1	23	88	0	71	22	14	22	40	1.90
17712351--17712409	23	2.6	23	80	0	64	30	15	22	32	1.94
17712432--17712944	23	22.5	23	69	8	199	29	8	27	33	1.87
17712454--17712990	69	7.9	68	74	9	376	29	9	27	33	1.88
17712432--17712996	46	12.4	46	68	6	234	29	8	27	34	1.87
17712433--17713060	138	4.6	137	85	2	762	29	9	26	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17713040--17713102	23	2.7	23	82	0	81	23	11	28	36	1.89
17722124--17722165	22	1.9	22	90	0	66	47	23	14	14	1.80
17722216--17722344	68	1.9	67	88	0	186	34	25	14	24	1.93
17722427--17723049	205	3.0	205	87	1	829	40	24	12	22	1.88
17724548--17724598	26	2.0	26	96	0	93	37	27	7	27	1.84
17724647--17724685	20	2.0	20	84	0	51	38	30	5	25	1.78
17724888--17724990	37	2.7	38	89	1	145	29	18	31	21	1.97
17728909--17728962	27	2.0	29	85	10	78	46	5	3	44	1.44
17734964--17735009	20	2.3	20	88	0	65	43	23	2	30	1.66
17736870--17736894	13	1.9	13	100	0	50	48	8	0	44	1.32
17740429--17740458	15	1.9	16	93	6	53	56	20	0	23	1.42
17742253--17742299	20	2.3	20	92	0	76	42	23	2	31	1.66
17748144--17748183	19	2.1	19	85	0	53	67	0	0	32	0.91
17749478--17749582	31	3.4	31	89	0	156	28	14	16	40	1.87
17753582--17753658	31	2.5	31	79	8	84	22	16	32	28	1.96
17753462--17753983	118	4.4	117	84	2	647	24	19	28	27	1.99
17753462--17753983	236	2.2	233	87	2	749	24	19	28	27	1.99
17757640--17757840	31	6.5	31	80	6	212	37	19	14	28	1.91
17758536--17758936	47	8.6	47	79	3	310	27	32	14	25	1.95
17758552--17758936	94	4.1	93	81	3	441	27	32	14	25	1.95
17758717--17758776	23	2.6	23	81	2	66	28	35	10	26	1.89
17758694--17758819	24	5.4	23	68	11	78	26	33	15	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17758552--17758935	187	2.0	188	85	3	506	27	32	14	25	1.94
17759080--17759160	25	3.2	25	62	25	60	22	22	14	40	1.90
17759086--17759168	27	3.1	27	62	25	68	22	21	14	40	1.90
17759079--17759197	52	2.3	52	100	0	238	22	24	12	40	1.89
17773373--17773451	30	2.5	33	86	12	103	53	2	1	43	1.22
17773533--17773673	74	1.9	74	91	0	228	44	7	5	41	1.57
17774348--17774429	33	2.6	32	92	7	132	35	17	34	13	1.88
17776358--17776475	59	2.0	59	96	0	218	35	22	19	22	1.96
17779058--17779099	20	2.2	20	82	4	50	45	2	33	19	1.63
17782857--17782954	45	2.2	45	98	0	187	31	19	27	21	1.97
17788097--17788251	76	2.0	76	87	2	222	25	15	18	40	1.90
17788105--17788256	37	4.1	38	82	3	175	23	17	18	41	1.90
17788241--17788270	14	2.1	14	100	0	60	26	16	6	50	1.70
17788204--17788307	51	2.0	51	94	0	181	22	18	16	43	1.88
17788255--17788402	38	3.9	38	81	0	174	25	16	17	40	1.90
17790353--17790419	8	8.9	7	77	9	53	77	2	5	13	1.07
17790668--17790729	17	3.8	17	78	20	69	74	0	1	24	0.91
17790676--17790730	21	2.5	22	77	11	60	74	0	1	23	0.91
17793576--17793640	34	2.0	32	81	6	76	53	1	12	32	1.47
17797673--17797716	20	2.2	20	95	0	79	47	20	4	27	1.69
17798207--17798246	6	6.7	6	100	0	80	32	0	50	17	1.47
17798636--17798700	24	2.7	24	78	7	69	38	7	9	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17800385--17800423	14	2.7	14	85	14	53	58	2	5	33	1.33
17800459--17800492	17	2.1	17	88	5	52	58	0	8	32	1.29
17800814--17800897	28	3.3	27	75	24	110	63	0	0	36	0.95
17800827--17800881	20	2.8	20	86	5	76	63	0	0	36	0.95
17801368--17801409	19	2.3	18	92	8	68	54	0	0	45	0.99
17809349--17809445	15	6.9	14	66	20	60	67	0	2	30	1.03
17809365--17809464	27	3.9	24	74	17	78	66	0	2	32	1.03
17809349--17809460	29	4.1	27	77	15	95	66	0	1	31	1.02
17809327--17809467	23	5.5	24	66	24	67	63	0	1	35	1.04
17809437--17809523	34	2.6	33	82	8	95	67	2	2	27	1.14
17809338--17809540	74	2.7	76	78	13	204	64	0	2	32	1.13
17810375--17810440	14	4.4	14	69	14	51	53	3	0	43	1.16
17810369--17810446	31	2.4	33	89	8	115	52	2	0	44	1.14
17810531--17810672	74	1.9	74	89	0	221	46	8	4	40	1.56
17811597--17811630	17	2.0	17	88	11	52	38	11	0	50	1.39
17813635--17813684	25	2.0	25	92	7	84	20	24	18	38	1.93
17816012--17816047	14	2.5	15	86	13	58	80	13	0	5	0.88
17829449--17829497	22	2.2	22	82	13	57	73	0	2	24	0.94
17833413--17833462	18	2.7	18	79	14	57	78	8	2	12	1.05
17844109--17844157	20	2.5	20	86	6	64	28	22	20	28	1.98
17847434--17847479	24	1.9	24	86	0	65	17	28	21	32	1.96
17847860--17847978	60	2.0	60	83	3	150	30	5	14	50	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17848700--17848756	2	28.5	2	100	0	114	50	0	0	49	1.00
17848896--17848948	13	3.9	14	80	12	58	45	0	1	52	1.11
17848902--17848950	2	25.5	2	87	8	75	46	0	2	51	1.12
17848881--17848950	17	4.2	17	77	10	74	45	0	2	51	1.16
17848902--17848950	15	3.2	15	91	2	80	46	0	2	51	1.12
17852369--17852489	35	3.5	35	84	0	152	45	16	16	21	1.85
17852726--17852770	14	3.1	14	78	6	54	17	24	6	51	1.70
17852726--17852804	29	2.7	29	86	3	97	17	24	8	49	1.75
17853892--17854179	102	2.8	101	79	5	303	21	20	14	43	1.87
17857963--17858148	55	3.4	53	73	6	147	15	11	30	42	1.82
17858169--17858237	23	3.1	21	83	6	68	24	20	31	23	1.98
17858177--17858237	23	2.7	23	86	0	95	22	21	32	22	1.98
17858218--17858299	31	2.6	31	86	3	103	25	18	23	32	1.97
17858638--17858702	33	2.0	32	93	0	103	26	20	26	26	1.98
17861775--17862021	31	8.0	30	75	5	192	41	20	16	21	1.90
17862708--17862736	15	2.0	15	93	6	51	48	3	13	34	1.60
17864225--17864614	31	12.5	31	76	4	356	40	18	20	21	1.92
17864225--17864614	124	3.1	122	82	7	412	40	18	20	21	1.92
17864983--17865485	156	3.2	156	87	1	668	27	19	19	33	1.96
17867100--17867425	31	10.5	31	85	2	334	38	20	16	24	1.93
17870298--17870396	35	2.9	35	89	1	146	45	17	16	21	1.85
17877156--17877193	17	2.2	17	90	0	58	84	0	0	15	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17877438--17877470	12	2.6	13	85	4	50	21	3	3	72	1.11
17884062--17884131	9	7.9	8	75	17	59	4	12	2	80	0.98
17884062--17884134	17	4.3	17	71	11	69	4	12	2	80	0.95
17884035--17884094	13	4.4	14	73	12	52	10	6	1	81	0.93
17884776--17884821	14	3.4	14	76	11	51	4	13	0	82	0.81
17884766--17884822	29	2.0	28	83	16	73	5	12	0	82	0.82
17901969--17902005	12	3.1	12	88	0	56	2	29	10	56	1.47
17906024--17906073	22	2.3	22	89	0	73	62	4	4	30	1.32
17907224--17907322	52	1.9	52	83	4	128	32	4	18	45	1.68
17907422--17907500	22	3.6	22	82	0	77	27	11	15	45	1.80

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