genome.fa.s1.2.7.7.80.10.50.1000.23.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  23  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)
10126848--10126888	13	3.1	13	79	6	55	21	2	2	73	1.07
10127089--10127144	22	2.6	21	77	5	58	21	8	0	69	1.15
10127216--10127257	10	4.2	10	79	8	50	14	2	0	83	0.75
10127738--10127800	28	2.3	28	78	8	67	14	41	25	19	1.89
10132171--10132203	2	16.5	2	100	0	66	51	0	48	0	1.00
10133459--10133559	43	2.3	43	100	0	202	39	23	20	15	1.91
10139924--10140131	78	2.7	78	87	4	294	32	19	13	33	1.91
10159776--10159806	12	2.7	12	95	5	55	80	0	0	19	0.71
10160169--10160199	15	2.1	15	93	0	53	35	3	12	48	1.58
10165343--10165548	71	2.9	71	94	0	340	37	16	14	31	1.89
10168713--10168755	22	2.0	21	81	4	50	58	0	9	32	1.30
10175221--10175306	33	2.6	32	85	3	109	27	4	1	66	1.19
10175221--10175306	32	2.6	31	83	10	100	27	4	1	66	1.19
10180483--10180628	76	1.9	76	88	0	220	37	22	10	29	1.87
10186079--10186156	29	2.7	29	95	0	138	24	41	14	20	1.89
10193821--10193880	28	2.1	28	100	0	120	28	18	18	35	1.94
10195693--10195724	2	16.0	2	100	0	64	50	0	0	50	1.00
10196662--10196727	18	3.3	18	71	28	53	27	15	16	40	1.88
10196703--10196822	45	2.6	45	82	1	132	29	17	16	36	1.92
10196795--10196869	29	2.5	31	77	14	86	30	12	16	41	1.84
10201930--10202011	11	7.3	11	69	20	62	43	0	3	52	1.18
10201932--10202011	22	3.5	22	74	12	72	43	0	3	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10202063--10202144	42	1.9	43	85	2	112	51	3	3	41	1.37
10202221--10202262	19	2.2	19	83	8	50	47	0	0	52	1.00
10205133--10205268	45	3.0	45	96	0	245	19	19	20	41	1.91
10214069--10214113	21	2.1	21	95	0	81	40	8	31	20	1.83
10216733--10216898	26	6.1	27	70	23	100	54	3	0	41	1.17
10216716--10216796	26	3.3	25	78	16	89	51	4	1	41	1.31
10216603--10216967	114	3.2	111	80	10	332	55	4	0	39	1.25
10216830--10217060	75	3.2	74	75	20	263	54	3	0	41	1.21
10216868--10217093	75	3.3	68	75	19	227	56	3	0	39	1.21
10216834--10217105	140	1.9	139	91	3	440	54	2	1	41	1.23
10216994--10217046	27	2.0	27	100	0	106	49	3	0	47	1.19
10216936--10217136	22	8.7	23	69	18	125	53	1	0	43	1.16
10217075--10217157	22	3.5	23	81	9	87	46	1	2	49	1.22
10216975--10217192	112	1.9	113	85	6	300	53	3	1	41	1.27
10217560--10217621	22	3.0	21	73	19	58	38	0	4	56	1.21
10219101--10219169	36	1.9	36	85	5	95	33	13	13	40	1.82
10219687--10219820	60	2.2	61	83	1	162	34	8	15	41	1.79
10221918--10221968	26	2.0	26	100	0	102	43	5	23	27	1.77
10221920--10221984	26	2.5	26	89	0	94	47	4	21	26	1.70
10223035--10223083	2	24.5	2	100	0	98	48	0	0	51	1.00
10232255--10232311	25	2.3	25	82	11	73	61	3	14	21	1.47
10232268--10232317	25	2.1	24	85	7	66	68	4	16	12	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10247583--10247620	2	19.0	2	100	0	76	50	0	0	50	1.00
10247757--10247805	15	3.2	16	78	16	59	48	4	6	40	1.47
10247809--10247841	16	2.1	17	88	11	52	39	0	6	54	1.25
10249476--10249518	3	14.3	3	100	0	86	32	0	0	67	0.91
10250369--10250473	25	4.1	26	72	3	97	40	12	16	30	1.85
10250419--10250469	26	2.0	26	92	0	84	37	13	19	29	1.90
10250428--10250523	50	2.0	47	85	6	129	40	18	18	21	1.91
10254956--10254980	13	1.9	13	100	0	50	44	0	8	48	1.32
10257970--10258005	16	2.2	17	90	5	56	13	16	16	52	1.74
10263531--10263560	12	2.5	12	88	0	51	10	36	0	53	1.35
10266070--10266099	2	15.0	2	100	0	60	0	0	50	50	1.00
10272425--10272460	3	12.3	3	91	5	56	27	0	0	72	0.85
10278050--10278123	34	2.2	34	90	0	112	31	17	17	33	1.93
10277893--10278157	124	2.1	126	84	2	338	23	16	20	39	1.92
10279647--10279687	21	2.1	19	86	9	55	80	2	12	4	0.97
10279683--10279715	13	2.4	14	95	5	59	72	12	0	15	1.12
10280250--10280341	36	2.6	36	91	3	150	31	13	45	9	1.75
10280848--10280881	17	2.0	17	88	11	52	70	2	8	17	1.25
10280923--10281081	76	2.1	77	91	3	259	49	1	14	34	1.52
10281308--10281357	12	4.2	12	80	10	59	78	0	0	22	0.76
10281308--10281357	24	2.1	23	85	10	66	78	0	0	22	0.76
10288481--10288512	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10291230--10291277	10	5.0	9	82	12	60	60	0	0	39	0.97
10291262--10291318	28	2.0	29	89	3	89	36	0	0	63	0.95
10295015--10295067	25	2.0	27	82	10	65	58	9	3	28	1.47
10296120--10296184	23	2.8	23	78	0	58	50	15	4	29	1.64
10297304--10297356	24	2.3	23	83	6	63	39	16	5	37	1.73
10297612--10297678	7	9.4	7	73	12	57	77	1	4	16	1.00
10297611--10297678	15	4.2	15	75	23	57	77	1	4	16	0.99
10297623--10297661	20	2.0	20	90	10	62	71	2	5	20	1.17
10297611--10297687	36	2.2	36	82	15	99	77	1	3	16	0.98
10301677--10301707	2	15.5	2	100	0	62	51	0	0	48	1.00
10303602--10303632	16	1.9	16	93	0	53	83	6	9	0	0.79
10309466--10309507	21	2.0	21	86	9	59	30	2	2	64	1.19
10328619--10328653	16	2.1	17	89	5	54	17	5	0	77	0.96
10335154--10335203	23	2.2	22	82	10	57	70	2	22	6	1.20
10336315--10336356	21	2.0	22	85	4	59	71	4	9	14	1.28
10349745--10349812	22	3.2	20	75	12	57	39	2	10	47	1.53
10354172--10354227	23	2.5	23	85	5	80	55	0	3	41	1.17
10356994--10357077	41	2.0	41	97	0	159	30	30	4	33	1.78
10367224--10369020	639	2.8	630	84	3	2231	31	21	15	31	1.95
10371662--10371698	3	12.3	3	94	0	65	67	2	0	29	1.04
10377229--10377263	10	3.4	10	88	4	52	20	0	14	65	1.26
10377477--10377532	23	2.5	22	85	2	67	23	12	28	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10377499--10377570	23	3.2	22	88	9	85	23	13	27	34	1.93
10377518--10377580	23	2.7	23	90	0	99	25	12	26	34	1.92
10377590--10377660	22	3.3	22	82	4	81	47	18	8	25	1.76
10377600--10377659	21	2.8	21	82	2	66	45	20	8	26	1.79
10377655--10377704	22	2.3	22	89	0	73	50	18	6	26	1.69
10377655--10377718	22	2.9	22	79	11	60	46	18	6	28	1.73
10379379--10379409	16	1.9	16	93	0	53	38	9	6	45	1.63
10388299--10388334	18	2.0	18	94	0	63	30	13	0	55	1.39
10390677--10390944	64	4.2	64	89	1	387	30	12	29	26	1.93
10393465--10393524	30	2.1	29	81	6	68	30	6	23	40	1.80
10397666--10397707	14	2.8	15	79	13	59	42	0	0	57	0.99
10397654--10397703	14	3.8	13	82	10	57	40	2	0	58	1.10
10397991--10398417	216	2.0	219	86	2	610	41	8	4	45	1.55
10398589--10398651	22	2.9	21	80	13	65	44	7	0	47	1.32
10406775--10406815	18	2.3	18	87	8	57	43	9	2	43	1.50
10406805--10406870	35	1.9	34	87	3	96	33	19	3	43	1.66
10408628--10408687	30	2.1	29	81	6	68	30	8	23	38	1.84
10413499--10413526	2	14.0	2	100	0	56	50	0	0	50	1.00
10414046--10414109	28	2.3	27	84	5	83	26	15	21	35	1.94
10418420--10418464	21	2.1	22	83	4	56	55	2	0	42	1.12
10418460--10418516	13	4.3	13	78	10	53	29	0	5	64	1.15
10418472--10418516	14	3.2	15	81	12	51	28	0	6	64	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10419204--10419236	16	2.1	15	94	5	57	66	0	0	33	0.92
10419250--10419316	20	3.2	20	70	15	64	56	0	0	43	0.99
10419466--10419518	27	2.0	27	100	0	106	33	1	0	64	1.05
10425473--10425508	2	18.0	2	94	0	63	0	47	0	52	1.00
10431546--10431872	163	2.0	163	91	1	530	26	7	27	37	1.84
10434096--10434163	30	2.2	30	84	7	84	41	1	1	55	1.18
10434284--10434319	17	2.1	17	100	0	72	75	0	19	5	1.00
10435021--10435062	21	2.0	21	95	0	75	21	9	26	42	1.83
10436808--10436858	24	2.1	24	85	0	66	39	21	15	23	1.92
10438803--10438929	43	3.0	41	79	9	130	25	15	33	24	1.95

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