genome.fa.s5.2.7.7.80.10.50.1000.77.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  77  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)
28809366--28809402	3	12.3	3	100	0	74	0	32	0	67	0.91
28813986--28814030	4	11.2	4	95	0	54	57	0	0	42	0.98
28815126--28815182	22	2.5	22	83	10	71	22	0	3	73	0.98
28826608--28826642	2	17.5	2	87	0	52	0	45	5	48	1.26
28828825--28828854	5	6.0	5	100	0	60	20	0	0	80	0.72
28829592--28829625	17	2.0	17	88	0	50	0	2	14	82	0.79
28842454--28842504	4	12.5	4	76	19	52	72	0	1	25	0.95
28842454--28842504	18	2.8	18	91	8	77	72	0	1	25	0.95
28842456--28842494	14	2.7	14	88	11	53	76	0	2	20	0.90
28844065--28844092	2	14.0	2	100	0	56	50	0	0	50	1.00
28865980--28866057	40	2.0	39	87	2	111	34	23	21	20	1.97
28866103--28867336	617	2.0	617	97	0	2317	39	18	11	31	1.85
28869207--28869285	40	2.0	40	89	0	122	34	24	21	20	1.97
28871092--28871145	2	27.0	2	100	0	108	50	0	0	50	1.00
28872246--28872278	9	3.7	9	91	0	57	27	12	24	36	1.91
28881049--28881081	13	2.4	14	80	10	50	72	12	3	12	1.23
28881339--28881375	7	4.9	8	83	9	51	89	2	0	8	0.58
28881338--28881375	15	2.5	15	88	12	60	89	2	0	7	0.57
28882365--28882403	3	13.3	3	89	5	62	71	0	0	28	0.86
28882597--28882652	7	8.3	7	80	11	55	69	0	3	26	1.04
28882594--28882658	25	2.8	22	80	15	69	69	0	4	26	1.08
28886043--28886094	18	2.8	18	75	11	52	84	1	3	9	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28886045--28886078	12	2.8	12	95	0	59	85	2	0	11	0.71
28886767--28886852	2	45.0	2	76	17	85	48	2	1	47	1.22
28888432--28888481	2	25.0	2	100	0	100	50	0	0	50	1.00
28888725--28888831	54	2.0	54	100	0	214	43	7	13	35	1.72
28913442--28913474	17	1.9	17	88	11	50	36	12	15	36	1.84
28927843--28928651	279	2.9	278	82	2	960	46	10	12	29	1.75
28944989--28945050	25	2.5	26	76	10	67	43	8	16	32	1.77
28945043--28945088	22	2.0	23	95	4	85	17	8	13	60	1.56
28946680--28946704	2	12.5	2	100	0	50	52	48	0	0	1.00
28953454--28953570	58	2.0	57	93	1	198	27	7	17	47	1.75
28955558--28955604	2	24.0	2	95	4	87	51	0	0	48	1.00
28957142--28957179	2	19.0	2	94	0	67	47	0	0	52	1.00
28959740--28959811	29	2.6	29	91	4	112	37	9	12	40	1.76
28959740--28959833	29	3.2	29	85	8	93	38	10	12	38	1.78
28959824--28959935	45	2.5	45	85	4	163	30	19	18	31	1.96
28959910--28959960	21	2.4	21	93	0	93	37	25	15	21	1.93
28959955--28960025	24	3.0	24	97	0	133	25	15	16	42	1.88
28959955--28960060	24	4.4	24	86	0	131	27	13	16	42	1.86
28960091--28960146	21	2.7	21	85	0	76	41	19	10	28	1.85
28960133--28960183	24	2.1	24	92	0	84	33	13	11	41	1.81
28959856--28960187	182	1.8	183	84	1	452	32	16	14	36	1.89
28960141--28960195	24	2.3	24	83	0	65	34	14	12	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28969946--28969984	19	2.1	19	90	0	60	74	0	0	25	0.82
28974307--28974352	17	2.5	17	89	10	65	60	0	0	39	0.97
28977649--28977708	30	2.1	29	81	6	68	30	6	23	40	1.80
28980292--28980329	20	1.9	20	88	0	58	26	2	13	57	1.49
28982607--28982637	2	15.5	2	100	0	62	51	0	48	0	1.00
28984236--28984265	2	15.0	2	92	0	51	0	46	0	53	1.00
28987946--28987987	21	2.0	21	95	4	77	19	23	0	57	1.41
28992852--28992890	21	1.9	21	89	5	62	20	20	0	58	1.39
28995365--28995451	35	2.5	33	74	18	79	52	3	0	43	1.18
28995434--28995559	22	5.8	22	68	19	84	48	2	1	47	1.24
28995518--28995623	50	2.1	50	85	3	142	50	0	3	45	1.26
28995543--28995610	28	2.3	30	87	9	97	48	0	4	47	1.22
28995566--28995609	22	2.0	23	86	4	63	47	0	2	50	1.13
28995529--28995634	50	2.1	50	82	3	124	50	1	3	43	1.30
28995792--28995826	17	2.0	18	88	5	54	54	2	2	40	1.30
28998192--28998221	2	15.0	2	92	0	51	50	3	0	46	1.18
28999645--28999677	2	17.0	2	93	6	59	51	0	48	0	1.00
29002165--29002193	2	14.5	2	100	0	58	48	0	51	0	1.00
29004005--29004033	14	2.1	14	93	6	51	34	6	3	55	1.44
29004353--29004392	6	6.8	6	91	2	64	0	67	0	32	0.91
29004353--29004398	12	3.9	12	91	2	58	0	67	0	32	0.91
29006257--29006287	2	15.5	2	93	0	53	54	0	45	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29009186--29009239	2	27.0	2	100	0	108	50	0	0	50	1.00
29020887--29020926	17	2.4	17	91	4	64	40	7	10	42	1.67
29021518--29021611	49	1.9	49	91	0	152	43	14	10	30	1.80
29023511--29023563	27	2.0	27	88	0	79	32	13	20	33	1.91
29027352--29027383	15	2.1	16	94	5	57	6	25	0	68	1.12
29031975--29032008	16	2.2	16	90	10	54	44	5	0	50	1.26
29041443--29041473	13	2.3	14	94	5	55	6	16	0	77	0.97
29050210--29050284	38	2.0	37	97	0	132	21	4	45	28	1.69
29050288--29050393	38	2.7	38	88	2	149	21	15	39	23	1.91
29059115--29059151	3	12.3	3	94	0	65	64	2	0	32	1.07
29061102--29061162	31	2.0	31	87	6	90	37	16	0	45	1.47
29063185--29063235	2	25.5	2	95	0	93	50	1	0	47	1.12
29066827--29066856	7	4.3	7	91	0	51	0	50	0	50	1.00
29067439--29067505	25	2.7	25	97	0	125	38	7	35	17	1.78
29142058--29142128	24	3.0	24	91	0	115	60	23	9	5	1.50
29150544--29150577	2	18.0	2	88	11	54	47	0	0	52	1.00
29152599--29152670	31	2.3	31	92	0	126	30	25	16	27	1.97
29158444--29158768	27	11.9	27	74	6	154	42	15	8	34	1.76
29158457--29158768	55	5.7	55	77	10	266	41	15	8	34	1.77
29158457--29158767	54	5.7	55	79	4	272	41	15	8	34	1.76
29158736--29158786	27	2.0	26	88	11	79	35	21	9	33	1.86
29162442--29162499	30	1.9	31	89	3	91	27	5	13	53	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29162574--29162598	13	1.9	13	100	0	50	32	24	20	24	1.98
29163950--29163974	3	8.3	3	100	0	50	32	68	0	0	0.90
29181636--29181687	26	2.0	26	88	0	77	23	13	15	48	1.80
29184967--29185035	25	3.0	23	78	22	81	56	1	0	42	1.08
29184968--29185036	21	2.9	25	79	18	92	56	1	0	42	1.08
29186582--29186621	20	2.0	20	90	0	62	70	0	0	30	0.88
29187977--29188119	62	2.3	62	79	8	148	34	5	2	57	1.34
29188464--29188498	15	2.4	15	90	4	54	34	0	0	65	0.93
29188879--29188913	18	1.9	18	88	11	54	37	0	14	48	1.44
29191141--29191179	15	2.6	16	84	12	55	41	0	7	51	1.31
29191917--29191956	17	2.4	17	86	0	53	55	2	0	42	1.13
29192147--29192184	2	19.5	2	94	5	69	50	0	0	50	1.00
29192584--29192622	21	1.9	20	84	5	51	46	25	5	23	1.73
29192845--29192890	21	2.1	22	84	15	60	28	13	10	47	1.76
29193054--29193084	15	2.1	15	93	0	53	25	25	3	45	1.69
29195229--29195405	55	3.2	54	78	6	176	12	11	33	42	1.79
29195435--29195503	23	3.1	21	83	6	68	24	21	30	23	1.99
29195443--29195503	23	2.7	23	86	0	95	22	22	31	22	1.99
29195484--29195565	31	2.6	31	86	3	103	26	18	21	32	1.97
29199039--29199346	31	10.0	31	78	1	260	40	21	17	20	1.91
29199047--29199346	93	3.2	93	83	1	323	40	21	17	20	1.91
29199139--29199345	62	3.3	62	91	0	306	39	22	18	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29199860--29199915	22	2.5	22	91	2	85	48	1	14	35	1.54
29199955--29200015	14	4.1	14	74	12	50	50	4	13	31	1.62
29199965--29200001	15	2.4	15	90	4	56	51	5	13	29	1.63
29199975--29200023	14	3.5	13	78	13	53	57	2	12	28	1.46
29201518--29201588	31	2.3	31	82	2	79	43	19	16	19	1.88
29201534--29201727	31	6.3	31	75	10	173	39	20	22	18	1.93
29201562--29201786	62	3.6	61	89	3	326	38	20	22	19	1.93
29201562--29201818	124	2.1	124	84	7	335	38	19	21	20	1.93
29202153--29202439	156	1.8	156	88	0	439	26	20	19	33	1.96
29202153--29202482	156	2.1	156	85	1	428	26	20	19	33	1.96

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