genome.fa.s1.2.7.7.80.10.50.1000.32.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  32  of  93  ( 11113 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)
12694342--12694395	23	2.3	23	83	0	63	20	16	31	31	1.95
12700361--12700409	22	2.2	22	85	0	62	46	20	14	18	1.83
12700254--12700686	228	1.9	222	84	7	579	44	24	12	18	1.84
12700254--12700686	111	3.8	110	83	6	501	44	24	12	18	1.84
12701884--12702084	48	4.0	48	71	11	170	37	21	13	26	1.91
12707427--12707469	22	2.0	22	95	0	77	39	23	13	23	1.90
12709890--12709937	23	2.0	26	88	12	75	52	10	0	37	1.36
12709954--12710031	31	2.5	31	89	0	120	10	32	0	57	1.32
12710331--12710383	14	3.7	14	72	5	52	52	0	0	47	1.00
12710346--12710397	22	2.4	22	77	3	61	55	0	0	44	0.99
12710523--12710640	58	2.0	58	91	0	191	32	21	6	39	1.79
12717951--12717999	20	2.5	20	86	6	64	30	22	20	26	1.98
12719388--12719567	55	3.3	53	76	6	153	13	12	32	41	1.82
12719602--12719685	23	3.7	23	90	0	132	21	22	33	22	1.97
12719666--12719747	31	2.6	30	79	11	76	26	18	20	34	1.96
12723227--12723432	62	3.3	62	81	1	180	41	19	17	20	1.90
12723227--12723432	31	6.7	30	76	6	155	41	19	17	20	1.90
12723226--12723432	93	2.2	93	82	1	236	41	19	17	20	1.90
12723664--12723785	55	2.2	55	86	4	174	24	24	27	22	2.00
12725651--12725721	31	2.3	31	85	2	88	45	22	15	16	1.85
12725695--12725924	31	7.4	31	70	14	161	40	21	19	18	1.92
12725680--12725923	62	3.9	62	86	1	328	41	20	19	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12726278--12726773	156	3.2	155	88	3	703	27	19	18	34	1.95
12728406--12729117	31	22.5	31	75	7	457	39	20	16	23	1.92
12728673--12728763	46	2.0	45	93	4	148	46	17	13	21	1.82
12728642--12728794	77	2.0	76	83	5	184	44	17	14	22	1.85
12729597--12729707	53	2.1	52	86	5	152	25	29	20	24	1.99
12729705--12729809	47	2.2	47	81	3	113	24	33	16	25	1.96
12733495--12733668	79	2.2	79	81	2	197	41	12	7	38	1.70
12734164--12734250	30	3.2	26	77	18	63	51	3	2	42	1.31
12734948--12735004	28	2.0	28	93	0	96	21	21	10	47	1.80
12744622--12744660	18	2.0	20	85	9	55	43	7	10	38	1.67
12745272--12745504	117	2.0	114	85	2	313	42	3	12	41	1.59
12745934--12745963	14	2.1	14	93	0	51	23	0	13	63	1.29
12750343--12750387	3	15.0	3	100	0	90	33	0	0	66	0.92
12763088--12763179	32	2.9	32	93	0	157	36	15	11	35	1.84
12763095--12763176	16	5.1	17	65	21	59	35	15	13	35	1.87
12774164--12774343	56	3.0	58	82	14	238	29	15	16	39	1.88
12774209--12774352	66	2.2	67	92	5	247	32	12	14	40	1.84
12774980--12775028	15	2.9	17	73	14	57	51	0	0	48	1.00
12775402--12775441	21	1.9	21	89	0	62	45	5	0	50	1.23
12778997--12780496	252	5.9	252	81	3	1532	34	13	7	45	1.71
12781002--12781435	241	1.8	236	82	5	559	44	7	12	35	1.69
12780789--12781460	248	2.8	235	76	8	632	44	7	12	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12781340--12781764	213	2.0	211	93	0	724	44	4	10	40	1.59
12782666--12783770	252	4.4	251	80	5	1038	47	7	11	33	1.68
12782660--12783710	504	2.1	501	79	6	1147	47	7	11	33	1.68
12783960--12784240	140	2.0	141	98	1	539	29	9	4	55	1.52
12785986--12786016	2	15.5	2	93	0	53	48	3	48	0	1.17
12788355--12788414	29	2.2	29	82	8	72	40	0	0	60	0.97
12791439--12791481	23	1.9	22	86	13	61	58	20	9	11	1.61
12810269--12810309	19	2.2	19	83	12	50	31	7	0	60	1.24
12811644--12811691	17	2.7	18	84	15	57	27	0	2	70	0.98
12811644--12811730	10	9.1	9	72	19	54	27	0	1	71	0.93
12811656--12811728	28	2.6	27	70	19	69	27	0	1	71	0.95
12816617--12816657	21	2.0	21	100	0	82	41	0	14	43	1.45
12819373--12819461	27	3.3	27	74	3	88	38	7	15	38	1.77
12819403--12819476	27	2.7	27	77	4	78	36	6	17	39	1.76
12820389--12820434	7	6.7	7	80	9	51	17	2	2	78	0.96
12820391--12820434	6	6.7	6	82	14	52	15	2	2	79	0.93
12825291--12825328	19	2.0	19	89	0	58	31	0	26	42	1.56
12827948--12827993	15	3.1	15	84	9	60	23	4	17	54	1.61
12829061--12829105	17	2.7	17	82	3	56	15	4	0	80	0.87
12829078--12829140	17	3.6	17	83	10	67	7	14	0	77	0.97
12835152--12835265	47	2.4	46	81	8	131	36	1	14	46	1.56
12851434--12851479	23	2.0	23	87	8	67	17	8	0	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12865157--12865187	16	2.0	15	93	6	53	38	6	9	45	1.63
12870367--12870420	24	2.2	24	80	0	63	29	20	24	25	1.99
12873416--12873489	6	11.8	6	72	12	51	2	24	0	72	0.97
12879941--12879970	14	2.1	14	100	0	60	33	0	0	66	0.92
12886401--12886438	20	1.9	20	100	0	76	28	0	28	42	1.56
12893608--12893633	2	13.0	2	100	0	52	50	0	0	50	1.00
12893682--12893739	22	2.7	20	82	15	62	18	6	0	74	1.04
12893701--12893742	15	2.9	14	86	6	57	19	7	0	73	1.05
12893680--12893744	24	2.9	22	82	11	78	20	7	0	72	1.09
12893959--12894016	3	19.0	3	78	19	50	27	1	0	70	0.97
12893959--12894009	18	2.8	18	85	8	59	27	1	0	70	0.98
12893960--12894016	14	3.5	17	79	18	59	26	1	0	71	0.95
12895814--12895852	17	2.3	17	86	0	51	2	2	10	84	0.81
12895939--12896020	21	3.9	21	78	9	76	29	13	25	31	1.94
12896095--12896174	21	3.8	21	81	6	90	30	18	26	25	1.98
12896159--12896562	142	2.9	142	89	1	580	36	16	21	26	1.93
12897710--12897868	83	1.9	83	88	2	239	11	25	10	52	1.69
12898232--12898295	18	3.4	19	72	21	53	14	17	0	68	1.21
12906194--12906224	9	3.4	9	100	0	62	41	0	0	58	0.98
12906400--12906437	19	2.0	19	94	0	67	42	28	0	28	1.56
12914332--12914369	19	2.0	19	100	0	76	42	31	0	26	1.56
12915813--12915851	15	2.6	16	88	8	55	30	0	2	66	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12915827--12915879	22	2.3	23	80	3	63	26	3	0	69	1.05
12915815--12915898	19	4.4	19	75	4	71	25	4	1	69	1.15
12916123--12916179	3	18.0	3	86	13	55	28	1	0	70	0.98
12916123--12916179	18	3.0	19	78	21	66	28	1	0	70	0.98
12916142--12916180	11	3.5	11	82	0	51	23	2	0	74	0.94
12917453--12917499	24	2.0	24	83	8	60	8	4	12	74	1.19
12922899--12922952	28	1.9	28	92	0	90	27	1	7	62	1.32
12931693--12931737	23	2.0	22	86	4	63	68	8	4	17	1.32
12932275--12932299	6	4.2	6	100	0	50	48	0	0	52	1.00
12932716--12932745	13	2.4	13	94	5	53	60	0	0	40	0.97
12947127--12947166	21	1.9	21	85	10	55	45	2	2	50	1.28
12949699--12949737	15	2.6	15	87	0	60	38	0	0	61	0.96
12949694--12949752	22	2.8	23	73	19	65	42	0	0	57	0.98
12949839--12949916	8	9.4	8	69	12	50	44	1	1	52	1.17
12950017--12950297	138	2.0	138	87	2	404	20	29	28	20	1.98
12952046--12952084	19	2.1	19	85	0	51	41	2	7	48	1.45
12967501--12967535	14	2.5	14	86	13	54	0	17	0	82	0.66
12967501--12967536	13	2.7	14	91	8	58	0	19	0	80	0.71
12984842--12984870	10	3.0	10	95	5	51	89	0	10	0	0.48
12985714--12985755	20	2.1	19	86	13	57	61	0	0	38	0.96
12996817--12996881	32	2.0	32	100	0	130	30	18	32	18	1.95
13005669--13005732	29	2.2	29	83	2	76	29	7	18	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13011833--13011882	2	26.0	2	88	8	77	50	2	0	48	1.12
13014725--13014750	5	5.2	5	100	0	52	0	19	0	80	0.71
13017384--13017453	31	2.3	31	85	5	88	34	7	1	57	1.35
13019903--13019969	24	2.6	27	72	15	70	67	0	2	28	1.05
13019935--13020011	35	2.1	39	85	9	108	63	1	5	29	1.24
13020359--13020430	35	2.1	35	92	5	119	51	8	1	38	1.41
13037529--13037701	87	2.0	86	100	0	337	42	4	8	43	1.54
13037900--13037945	18	2.6	17	81	18	58	73	0	0	26	0.83
13039506--13039555	14	3.5	15	77	22	63	36	2	4	58	1.29
13039995--13040028	16	2.1	16	88	0	50	38	2	5	52	1.41

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