genome.fa.s5.2.7.7.80.10.50.1000.92.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  92  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)
33770286--33770330	17	2.7	16	86	13	56	40	0	0	60	0.97
33778381--33778414	16	2.2	15	89	5	50	73	0	0	26	0.83
33780067--33780113	21	2.4	20	86	10	62	6	19	23	51	1.70
33796134--33796188	19	2.8	20	76	15	60	49	0	1	49	1.11
33797952--33797983	9	3.6	9	100	0	64	37	0	0	62	0.95
33807278--33807320	19	2.2	20	87	4	61	51	4	2	41	1.35
33809731--33809763	3	11.3	3	93	6	59	0	0	66	33	0.92
33819812--33819846	2	17.5	2	93	0	61	45	0	2	51	1.16
33820221--33820278	2	29.0	2	100	0	116	50	0	0	50	1.00
33820436--33820492	2	30.0	2	89	10	93	49	0	0	50	1.00
33822998--33823042	2	23.0	2	95	4	83	51	0	48	0	1.00
33823404--33823436	16	2.0	17	88	5	50	57	3	12	27	1.49
33826619--33827075	231	2.0	231	96	0	835	29	18	19	32	1.96
33827587--33827671	30	3.0	26	73	17	80	50	1	1	47	1.16
33827594--33827715	15	8.2	15	68	13	56	44	1	1	52	1.20
33827597--33827680	26	3.4	24	79	11	80	51	2	1	45	1.22
33827729--33827782	20	2.7	20	78	21	60	59	0	0	40	0.98
33827810--33827886	21	4.1	18	70	22	59	55	0	1	42	1.07
33827835--33827877	15	2.9	15	79	3	52	55	0	2	41	1.12
33827753--33827890	62	2.2	63	83	7	163	52	0	1	44	1.15
33827813--33827935	45	2.7	46	79	14	123	52	0	0	47	1.06
33827863--33827921	20	3.1	20	85	7	70	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33828691--33828724	5	6.8	5	96	0	50	82	11	5	0	0.83
33832231--33832301	24	3.0	24	93	0	115	33	22	14	29	1.93
33836901--33836967	21	3.2	21	73	10	66	50	0	1	47	1.10
33839459--33839493	2	17.5	2	93	0	61	48	0	0	51	1.00
33839703--33839748	2	23.0	2	95	0	83	52	0	0	47	1.00
33840528--33840568	2	20.5	2	100	0	82	48	0	0	51	1.00
33848433--33848472	14	2.8	14	82	17	55	32	5	5	57	1.42
33854147--33854183	17	2.2	17	90	9	58	37	0	8	54	1.30
33854172--33854220	21	2.4	22	83	10	59	55	2	0	42	1.11
33860920--33860960	2	20.5	2	89	0	64	43	0	51	4	1.23
33862282--33862377	25	3.9	24	76	13	97	50	1	1	47	1.15
33862278--33862386	15	7.3	15	68	16	66	47	0	0	50	1.13
33872305--33872346	2	21.0	2	95	0	66	45	0	4	50	1.23
33872346--33872406	2	30.5	2	100	0	122	50	0	49	0	1.00
33872425--33872487	2	31.0	2	87	9	92	46	3	50	0	1.17
33878411--33878454	17	2.6	17	75	13	54	25	15	20	38	1.92
33880051--33880139	21	4.2	20	75	16	72	48	4	11	35	1.59
33884179--33884338	42	3.8	42	85	3	196	21	18	33	25	1.96
33895624--33895650	2	13.5	2	100	0	54	51	0	0	48	1.00
33898160--33898219	30	2.1	29	81	6	68	31	8	21	38	1.83
33904220--33905144	468	2.0	467	90	0	1474	43	14	15	26	1.86
33904687--33905572	420	2.1	419	89	2	1357	44	14	14	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33905526--33905695	48	3.5	48	79	4	187	37	12	24	25	1.91
33905517--33905666	51	3.0	51	79	3	180	36	13	24	26	1.92
33905517--33905695	99	1.8	99	91	0	295	37	13	23	25	1.92
33906169--33906351	27	6.7	27	77	2	161	30	10	18	40	1.84
33906331--33906373	23	1.9	23	90	4	70	39	0	16	44	1.48
33915944--33916142	29	6.9	28	85	4	245	40	10	14	35	1.79
33915944--33916142	86	2.3	85	89	4	292	40	10	14	35	1.79
33915958--33916142	57	3.2	57	89	1	271	41	10	14	34	1.79
33925172--33925244	17	4.4	17	76	11	62	78	2	17	1	0.95
33925654--33925687	5	6.6	5	86	6	50	17	5	0	76	0.98
33929818--33929983	27	6.1	27	72	2	98	31	7	17	43	1.76
33929897--33929959	28	2.3	27	86	2	81	34	6	15	42	1.73
33929908--33929971	28	2.3	28	83	2	85	37	7	15	39	1.77
33936699--33936760	26	2.4	26	97	0	115	32	41	3	22	1.70
33936819--33937065	130	1.9	130	94	1	433	23	34	21	19	1.96
33937203--33937291	42	2.4	35	83	16	101	23	28	25	22	1.99
33937218--33937314	42	2.3	42	98	0	185	21	31	24	21	1.98
33942194--33942358	29	5.6	29	76	10	154	37	10	13	38	1.79
33942197--33942324	64	2.0	64	87	0	184	35	9	14	40	1.78
33951818--33951879	26	2.4	26	94	0	106	22	4	41	30	1.74
33953338--33953429	40	2.4	40	89	5	136	35	9	4	50	1.56
33962986--33963072	47	1.9	45	86	9	124	36	11	4	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33963009--33963137	50	2.6	49	82	6	143	31	10	6	51	1.62
33963427--33963458	16	1.9	17	93	6	57	37	6	0	56	1.25
33969651--33969691	17	2.4	17	88	12	66	60	0	9	29	1.28
33978236--33978671	234	1.9	233	86	2	615	41	8	8	41	1.66
33979174--33979321	74	2.0	74	100	0	296	37	5	29	27	1.79
33980267--33980342	22	3.4	22	80	12	84	19	11	30	38	1.88
33980379--33980483	23	4.6	23	78	2	104	16	12	31	40	1.85
33980351--33980501	22	6.7	22	73	3	77	18	11	27	43	1.84
33980396--33980525	45	2.9	45	76	1	109	19	13	26	40	1.88
33980573--33980627	21	2.5	22	91	5	94	40	23	12	23	1.89
33980525--33980603	38	2.1	38	85	0	104	37	25	13	22	1.91
33991157--33991233	30	2.5	30	89	6	111	53	14	27	5	1.62
33991139--33991220	24	3.2	24	70	26	60	48	13	30	7	1.69
33991212--33991262	24	2.2	24	89	10	79	60	11	27	0	1.31
33991183--33991274	30	3.3	29	75	21	97	56	11	28	3	1.51
33992149--33992188	13	3.0	13	85	7	53	17	2	32	47	1.61
33993581--33993676	23	4.1	24	67	21	60	41	3	6	48	1.44
34000715--34000784	26	2.7	26	88	4	97	28	11	20	40	1.87
34000770--34000848	23	3.5	23	84	5	99	22	12	30	34	1.92
34000860--34000907	22	2.2	22	84	0	60	45	20	8	25	1.79
34000880--34000939	21	2.8	22	79	5	68	45	25	10	20	1.81
34000894--34000939	22	2.1	21	88	4	65	45	23	10	19	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34000949--34000995	22	2.1	22	92	0	76	42	14	10	31	1.80
34002880--34003084	69	2.9	69	86	5	288	28	20	20	31	1.97
34011400--34011794	209	1.9	214	90	4	647	33	16	17	31	1.93
34015513--34015556	18	2.5	18	77	3	54	72	13	0	13	1.12
34015708--34015904	92	2.1	92	97	0	367	39	15	12	32	1.85
34018795--34018835	2	20.5	2	100	0	82	51	0	0	48	1.00
34019705--34019737	12	2.8	12	90	0	57	39	0	9	51	1.34
34021820--34021853	15	2.3	15	90	5	52	73	0	26	0	0.83
34023902--34023927	2	13.0	2	100	0	52	50	0	0	50	1.00
34046857--34046894	20	1.9	20	94	0	67	18	15	7	57	1.62
34049793--34049853	25	2.4	25	91	0	95	50	3	16	29	1.61
34049807--34049849	12	3.5	12	78	6	50	51	2	16	30	1.57
34049794--34049843	13	3.9	13	76	10	50	50	2	18	30	1.58
34051450--34051543	31	3.1	31	72	13	97	62	0	2	35	1.07
34055474--34055538	29	2.2	29	81	5	69	13	24	9	52	1.70
34055482--34055541	29	2.1	29	84	6	77	15	23	10	51	1.72
34056794--34057061	102	2.6	102	76	6	265	25	18	12	43	1.85
34058006--34058055	18	2.8	18	75	0	55	36	20	22	22	1.96
34060387--34060448	3	20.0	3	87	12	74	66	1	0	32	1.02
34061577--34061619	15	2.9	15	78	0	50	20	16	27	34	1.94
34061804--34061883	35	2.3	35	82	0	88	45	12	18	23	1.84
34062141--34062209	29	2.3	29	85	7	95	13	20	8	57	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34065054--34065082	8	3.8	8	90	9	51	89	10	0	0	0.48
34065054--34065082	15	1.9	15	100	0	58	89	10	0	0	0.48
34067730--34067759	10	3.0	10	95	0	51	60	0	26	13	1.34
34069908--34070764	442	1.9	438	94	2	1495	26	8	11	52	1.67
34076035--34076079	23	2.0	23	100	0	90	42	0	0	57	0.98
34076823--34076860	19	2.0	19	100	0	76	26	0	31	42	1.56
34090876--34090916	18	2.3	18	87	4	57	53	9	9	26	1.65
34091719--34092341	340	1.8	340	86	4	900	47	7	11	33	1.67
34102565--34102623	22	2.7	22	86	0	73	38	13	3	44	1.61
34103127--34103186	30	1.9	32	86	10	88	55	3	0	41	1.16

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