genome.fa.s4.2.7.7.80.10.50.1000.76.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  76  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)
28450789--28450879	45	2.0	45	84	0	119	43	4	6	45	1.50
28450966--28451033	21	3.2	21	68	12	57	50	0	7	42	1.30
28452120--28452419	159	1.9	158	91	2	494	37	11	9	42	1.73
28453225--28453270	2	23.0	2	100	0	92	50	0	0	50	1.00
28458120--28458479	180	2.0	179	99	0	711	41	9	9	38	1.70
28458430--28458727	159	1.9	159	87	2	447	34	13	9	42	1.75
28462409--28462456	21	2.3	20	82	10	53	70	4	0	25	1.04
28462401--28462483	22	3.8	21	69	18	53	72	2	0	25	0.97
28462395--28462472	18	4.2	18	70	20	54	71	2	0	25	0.98
28463338--28463383	14	3.0	16	78	15	53	73	0	2	23	0.94
28463340--28463383	23	1.9	23	95	0	79	72	0	2	25	0.96
28463501--28463563	23	2.8	21	85	11	72	76	0	3	20	0.93
28463501--28463560	14	4.1	14	77	10	57	76	0	3	20	0.92
28463498--28463552	30	1.9	30	85	7	78	78	0	3	18	0.90
28475611--28475924	62	5.1	62	88	3	456	32	13	19	35	1.90
28475611--28475915	120	2.5	120	91	2	466	32	13	19	35	1.90
28477270--28477321	13	4.1	12	77	18	52	80	11	5	1	0.96
28481370--28481409	2	20.0	2	89	0	62	50	5	0	45	1.23
28481625--28481749	52	2.4	52	81	1	135	36	8	16	39	1.79
28481860--28481932	22	3.3	22	86	3	103	26	12	17	43	1.84
28485522--28485571	20	2.5	20	86	3	64	36	0	4	60	1.16
28489089--28489145	28	2.0	28	96	0	105	31	7	29	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28489117--28489475	162	2.2	162	91	1	567	38	10	23	27	1.88
28490980--28491021	15	2.8	15	88	0	66	30	0	28	40	1.57
28491238--28491277	21	1.9	21	90	10	64	67	5	0	27	1.11
28494353--28494392	21	1.9	21	85	10	55	70	5	2	22	1.19
28494924--28494993	25	2.8	25	78	8	81	57	4	32	5	1.42
28495999--28496056	29	2.0	29	86	6	82	41	12	12	34	1.79
28515886--28516063	89	2.0	90	93	3	306	26	29	14	29	1.95
28518616--28518642	2	13.5	2	100	0	54	51	0	0	48	1.00
28518661--28518725	2	34.0	2	87	9	100	46	0	1	52	1.10
28522545--28522569	2	12.5	2	100	0	50	48	0	0	52	1.00
28522589--28522613	2	12.5	2	100	0	50	48	0	0	52	1.00
28523090--28523134	19	2.4	18	82	13	56	42	0	4	53	1.21
28526155--28526183	12	2.4	12	100	0	58	27	17	24	31	1.97
28528899--28528979	40	2.0	40	100	0	162	27	19	12	40	1.87
28546851--28546910	2	30.5	2	74	3	50	51	1	0	46	1.10
28546865--28546911	14	3.3	14	81	3	58	48	2	0	48	1.13
28589153--28589202	22	2.2	23	82	3	57	48	0	10	42	1.37
28588317--28589411	543	2.0	536	95	1	1985	43	5	6	45	1.51
28589396--28589444	23	2.2	21	82	13	55	42	6	2	48	1.39
28589336--28589590	125	2.0	124	83	9	316	44	5	3	46	1.44
28589493--28589535	22	2.0	22	90	9	70	51	2	2	44	1.27
28589499--28589538	17	2.3	18	84	16	50	47	2	2	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28589625--28589661	17	2.4	16	86	13	51	37	0	2	59	1.12
28591567--28591602	2	18.0	2	100	0	72	50	0	0	50	1.00
28599496--28599712	114	2.0	105	84	9	274	36	18	18	25	1.94
28599774--28599832	29	2.0	29	100	0	118	33	28	13	23	1.93
28599840--28599963	63	1.9	64	95	3	223	37	21	13	26	1.91
28604844--28604868	2	12.5	2	100	0	50	52	48	0	0	1.00
28616729--28616763	2	17.5	2	87	0	52	48	0	2	48	1.16
28625117--28625399	15	19.5	15	64	20	68	48	1	0	49	1.15
28625154--28625207	25	2.2	25	87	9	76	46	3	0	50	1.19
28625272--28625355	16	5.3	16	72	20	61	52	1	1	45	1.16
28625281--28625397	8	14.5	8	70	16	64	51	0	0	47	1.12
28625312--28625399	25	3.6	22	74	16	68	48	0	1	50	1.08
28625202--28625368	39	4.3	39	70	19	102	46	1	1	50	1.16
28625325--28625397	25	2.9	25	82	9	87	49	0	0	50	1.00
28625286--28625407	23	5.0	26	74	16	91	51	0	0	46	1.12
28626002--28626042	14	2.6	16	88	11	59	39	9	12	39	1.76
28628060--28628098	14	2.9	14	88	7	55	66	5	0	28	1.12
28628707--28628767	25	2.5	25	77	15	65	45	0	0	54	1.00
28635272--28635332	25	2.4	25	75	20	65	60	3	1	34	1.23
28635619--28635678	11	5.4	11	75	16	52	30	1	0	68	0.99
28635617--28635677	17	3.5	17	80	12	79	27	1	0	70	0.97
28636912--28636980	19	3.3	20	69	20	61	53	10	4	31	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28637918--28637960	13	3.2	13	83	3	59	46	0	0	53	1.00
28645588--28645626	17	2.3	18	86	8	55	41	0	7	51	1.31
28649804--28649840	20	1.9	18	89	10	56	51	0	0	48	1.00
28649810--28649852	16	2.8	16	82	10	54	51	0	0	48	1.00
28649812--28649890	19	4.2	20	65	22	55	49	0	0	50	1.00
28649809--28649890	27	3.0	26	75	10	85	48	0	0	51	1.00
28650287--28650336	21	2.4	21	79	0	55	40	0	14	46	1.44
28650433--28650470	17	2.2	18	95	4	69	47	0	0	52	1.00
28664830--28664955	60	2.1	60	88	2	182	36	6	13	43	1.70
28665062--28665152	44	2.1	44	83	4	112	28	6	16	48	1.71
28665063--28665148	22	3.9	22	75	14	70	29	6	15	48	1.70
28668769--28668886	22	5.2	23	67	13	75	45	2	7	44	1.45
28696052--28696149	2	51.0	2	86	8	105	47	0	46	5	1.24
28703166--28703195	3	10.0	3	92	0	51	63	3	33	0	1.11
28714823--28714859	15	2.4	16	82	13	51	45	0	2	51	1.15
28731817--28731850	17	1.9	18	94	5	61	70	2	5	20	1.21
28734183--28734215	17	1.9	17	93	0	57	84	6	3	6	0.84
28734272--28734310	12	3.2	12	85	3	51	76	20	2	0	0.90
28759330--28759360	3	10.0	3	93	6	53	32	0	67	0	0.91
28759269--28759340	36	2.0	36	97	2	128	33	5	33	26	1.80
28762109--28762250	40	3.5	40	81	0	158	59	16	2	22	1.48
28764103--28764159	27	2.1	27	80	6	62	54	1	1	42	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28764237--28764278	15	3.0	15	76	20	54	42	0	0	57	0.99
28764278--28764324	12	3.8	12	76	15	51	72	0	0	27	0.85
28766849--28766940	39	2.4	39	81	0	112	31	8	32	27	1.87
28780615--28780666	18	2.9	18	97	0	95	51	9	3	34	1.53
28780706--28780754	16	3.0	16	87	3	71	89	0	0	10	0.48
28780706--28780753	1	48.0	1	82	0	60	91	0	0	8	0.41
28781511--28781550	21	1.9	21	84	0	53	40	5	2	52	1.37
28782671--28783246	291	2.0	291	88	2	861	42	7	32	17	1.78
28790177--28790245	33	2.1	33	88	0	102	39	5	7	47	1.55
28790834--28790883	2	27.0	2	77	22	56	46	2	0	52	1.12
28790834--28790880	13	3.7	13	81	16	62	44	2	0	53	1.12
28790918--28790967	26	1.9	26	95	0	91	38	4	10	48	1.56
28790918--28790957	13	3.0	14	76	23	50	37	5	10	47	1.59
28793958--28793995	2	19.0	2	100	0	76	50	0	0	50	1.00
28794963--28795003	8	5.1	8	93	0	55	39	0	9	51	1.35
28794963--28794999	12	3.1	12	92	0	56	40	0	8	51	1.32
28798337--28798411	22	3.4	21	76	7	69	49	30	6	13	1.67
28798616--28798677	30	2.1	30	87	0	88	16	20	14	48	1.81
28799693--28799791	27	3.7	27	91	0	144	36	8	48	7	1.60
28799687--28799807	27	4.5	27	89	2	136	36	9	46	7	1.65
28800224--28800255	3	11.0	3	93	6	57	68	0	0	31	0.90
28800280--28800316	9	4.1	9	92	0	65	86	0	2	10	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28805638--28805695	22	2.6	22	81	5	64	53	25	5	15	1.63
28817769--28817806	6	6.3	6	96	0	58	36	42	0	21	1.53
28822140--28822187	2	24.0	2	100	0	96	50	0	0	50	1.00
28822077--28822277	99	2.1	93	82	8	235	43	4	5	45	1.48
28822240--28822292	17	3.2	16	78	13	54	49	3	1	45	1.31
28839022--28839048	6	4.5	6	100	0	54	29	0	33	37	1.58
28840729--28840755	2	13.5	2	100	0	54	48	51	0	0	1.00
28855825--28855865	17	2.4	17	95	0	73	46	4	9	39	1.58
28866991--28867025	2	17.5	2	93	0	61	45	0	0	54	0.99
28867061--28867091	2	15.5	2	93	0	53	45	3	0	51	1.17

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