genome.fa.s1.2.7.7.80.10.50.1000.76.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: 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  76  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)
29263984--29264134	78	1.9	78	81	7	182	43	13	19	23	1.86
29266749--29266785	2	18.5	2	94	0	65	51	2	0	45	1.15
29268392--29268431	17	2.2	19	86	8	57	70	5	5	20	1.26
29269454--29269520	20	3.4	20	70	10	66	32	16	10	40	1.82
29297499--29297566	28	2.4	28	80	9	77	44	4	0	51	1.21
29298114--29298152	18	2.1	19	85	4	53	56	2	33	7	1.41
29298287--29298326	2	20.0	2	100	0	80	50	0	0	50	1.00
29322900--29322928	4	7.5	4	92	7	51	0	20	0	79	0.74
29323191--29323217	2	13.5	2	100	0	54	51	0	0	48	1.00
29323217--29323255	2	19.5	2	100	0	78	51	0	48	0	1.00
29325178--29325204	6	4.5	6	100	0	54	66	0	0	33	0.92
29343442--29343497	21	2.6	21	80	2	67	33	5	3	57	1.39
29365007--29365041	19	1.9	17	88	11	52	60	0	0	40	0.97
29368480--29368510	2	15.5	2	100	0	62	51	0	0	48	1.00
29372657--29372753	33	3.0	33	87	1	124	50	5	13	30	1.63
29373386--29373442	21	2.6	22	80	2	71	43	5	0	50	1.24
29379148--29379196	4	12.8	4	82	8	66	73	0	26	0	0.83
29379152--29379198	22	2.1	22	92	0	76	74	0	25	0	0.82
29381555--29381642	44	2.0	44	90	0	140	40	6	13	38	1.71
29390797--29390826	6	5.0	6	95	0	51	46	20	33	0	1.51
29391394--29391440	24	2.0	24	91	0	76	42	14	17	25	1.87
29391285--29391556	138	2.0	138	83	4	352	38	15	16	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29391284--29391563	69	4.1	69	80	4	278	38	16	16	28	1.90
29391489--29391602	45	2.5	45	84	1	138	35	18	18	28	1.94
29391416--29391662	115	2.2	114	84	2	325	36	16	18	28	1.92
29391540--29391787	65	3.7	67	85	4	320	36	18	18	27	1.93
29391717--29391767	24	2.1	24	81	0	57	43	19	15	21	1.88
29391802--29391956	45	3.4	45	83	7	181	34	14	19	32	1.91
29391930--29391980	24	2.1	24	88	0	75	41	13	17	27	1.87
29391882--29392078	69	2.9	69	83	4	247	38	14	18	28	1.91
29392025--29392114	45	2.0	45	91	0	144	33	17	18	30	1.95
29392147--29392204	25	2.3	24	80	8	71	44	10	17	27	1.81
29392147--29392211	26	2.5	25	82	7	78	41	9	16	32	1.80
29392156--29392244	26	3.2	28	80	16	82	35	12	15	35	1.85
29401734--29401792	30	2.0	30	100	0	118	16	30	8	44	1.78
29403734--29403811	35	2.2	35	90	0	120	29	26	8	34	1.87
29409691--29409720	15	2.1	14	93	6	51	53	0	0	46	1.00
29410050--29410152	41	2.5	41	81	10	120	56	1	0	40	1.17
29410112--29410144	16	2.1	16	94	0	57	57	3	0	39	1.14
29412818--29413050	123	1.9	123	86	7	339	51	9	6	33	1.60
29415828--29415879	24	2.3	23	83	16	72	51	0	3	44	1.19
29415915--29415957	22	1.9	23	85	4	61	53	4	0	41	1.21
29418278--29418334	21	2.6	22	75	10	64	22	8	21	47	1.78
29418387--29418670	26	11.7	26	75	11	205	37	26	10	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29418368--29418574	74	2.9	74	85	5	266	38	27	10	24	1.87
29418387--29418652	48	5.5	49	73	15	207	37	25	10	25	1.88
29418557--29418617	21	2.9	20	83	13	70	36	24	13	26	1.92
29418488--29418684	95	2.1	95	91	0	313	36	25	12	25	1.91
29418655--29418712	21	2.8	21	86	0	89	32	27	15	24	1.95
29419257--29419373	58	2.0	58	98	0	225	43	12	20	23	1.86
29422415--29422453	20	1.9	21	89	5	62	66	7	5	20	1.36
29422680--29423021	172	2.0	172	94	0	603	34	11	29	24	1.90
29424567--29424794	31	7.4	31	81	0	222	28	27	15	28	1.96
29424571--29424742	93	1.8	93	86	0	245	30	27	13	29	1.94
29424770--29425218	106	4.2	106	84	1	531	28	23	20	26	1.99
29427961--29428039	13	6.4	12	72	22	58	24	2	0	73	0.96
29427995--29428035	10	4.3	10	82	17	52	24	0	0	75	0.80
29431911--29432152	22	10.6	22	73	12	161	35	20	12	30	1.90
29431911--29432128	43	4.8	44	77	8	197	34	21	12	31	1.90
29432089--29432129	12	3.5	12	80	6	57	29	26	14	29	1.95
29432383--29432506	63	2.0	63	82	3	151	36	12	29	22	1.90
29436109--29436134	3	8.7	3	100	0	52	69	0	0	30	0.89
29451941--29452005	32	2.0	32	96	0	121	33	18	20	27	1.96
29452971--29453002	16	2.1	16	94	5	57	34	0	0	65	0.93
29452932--29453287	118	2.9	117	78	15	385	39	2	2	55	1.27
29452944--29453208	131	2.0	129	87	5	374	39	2	2	55	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29453120--29453199	22	3.4	22	76	15	88	40	1	0	58	1.06
29453129--29453180	27	1.9	27	92	7	88	40	1	0	57	1.10
29453134--29453241	42	2.6	42	77	7	94	37	0	0	60	1.10
29453355--29453471	1	117.0	1	98	0	225	0	0	0	99	0.07
29453534--29453597	23	2.8	24	77	18	73	48	0	1	50	1.10
29462555--29462579	13	1.9	13	100	0	50	68	8	0	24	1.16
29464178--29464764	251	2.3	251	89	2	892	48	7	9	34	1.64
29464591--29464950	190	1.9	186	85	5	492	47	5	10	35	1.62
29464996--29465033	20	1.9	20	88	0	58	50	5	15	28	1.66
29464340--29465198	437	2.0	437	87	3	1246	48	6	10	35	1.62
29464781--29466968	251	8.8	251	82	5	2342	49	6	10	33	1.62
29465838--29465873	18	1.9	18	88	5	54	58	0	5	36	1.22
29464781--29466999	731	3.0	730	83	6	2586	49	6	10	33	1.63
29464790--29466968	504	4.4	503	83	5	2355	49	6	10	33	1.62
29466985--29467039	20	2.8	20	80	0	65	41	5	23	29	1.76
29467693--29467818	22	5.8	22	75	1	110	23	8	21	46	1.79
29467688--29467814	65	2.0	65	88	0	191	22	8	22	46	1.79
29467808--29467864	22	2.5	23	80	2	71	26	14	24	35	1.93
29467848--29467906	23	2.6	23	83	0	82	23	11	28	35	1.91
29467909--29467987	22	3.6	21	80	8	79	45	21	10	22	1.81
29467933--29468015	22	3.8	22	80	12	91	44	20	9	25	1.82
29467939--29468054	44	2.7	44	78	1	126	47	21	7	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29470530--29470563	16	2.1	16	88	0	50	61	0	2	35	1.11
29473436--29473476	3	13.3	3	84	5	55	0	29	2	68	1.03
29473444--29473468	13	1.9	13	100	0	50	0	36	0	64	0.94
29477860--29477910	15	3.4	15	88	0	75	33	9	25	31	1.88
29478135--29478216	34	2.4	34	87	4	112	28	1	0	70	0.95
29478158--29478227	14	5.1	13	71	10	50	30	2	0	67	1.05
29478146--29478227	27	3.3	26	72	23	68	29	2	0	68	1.03
29478250--29478312	33	1.9	32	90	9	101	25	3	1	69	1.12
29478291--29478322	15	2.1	15	94	0	55	31	0	0	68	0.90
29478198--29478320	53	2.3	53	81	9	133	29	4	0	65	1.16
29478250--29478331	33	2.5	34	84	13	95	28	2	1	68	1.10
29480078--29480396	159	2.0	159	96	0	593	31	10	14	43	1.79
29484145--29484182	12	3.2	12	81	7	51	28	13	28	28	1.94
29484145--29484269	23	5.7	21	79	9	117	31	11	21	36	1.89
29484175--29484256	21	3.8	21	73	9	67	31	9	18	40	1.83
29492789--29492834	23	2.0	23	87	4	67	15	15	30	39	1.88
29498811--29498888	28	2.8	28	90	1	86	39	21	8	29	1.84
29498829--29498888	28	2.1	28	100	0	120	43	16	6	33	1.74
29504848--29504930	42	2.0	43	88	7	125	27	16	31	24	1.97
29507558--29507625	30	2.3	30	89	0	100	51	4	30	13	1.60
29507559--29507640	15	5.7	14	67	24	55	51	6	29	13	1.65
29507621--29507655	18	1.9	18	88	0	52	48	8	28	14	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29517187--29517219	16	2.1	17	88	11	52	42	0	12	45	1.41
29517954--29517997	21	2.0	22	86	4	63	20	25	13	40	1.89
29527414--29527871	117	3.9	116	83	1	477	18	37	12	31	1.88
29532981--29533042	25	2.4	26	97	2	117	41	8	16	33	1.77
29537429--29537490	24	2.5	25	78	2	72	46	0	0	53	1.00
29537429--29537502	24	3.0	23	73	11	58	48	1	0	50	1.09
29537590--29537665	33	2.3	33	83	0	80	44	5	3	46	1.44
29537617--29537718	8	12.5	8	69	21	52	49	1	1	47	1.24
29537612--29537696	33	2.6	33	81	3	91	49	2	2	45	1.27
29545365--29545456	39	2.4	39	92	0	148	33	26	19	20	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