genome.fa.s1.2.7.7.80.10.50.1000.42.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  42  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)
16047329--16047371	22	2.0	21	82	13	52	25	23	4	46	1.71
16055157--16055297	29	4.9	28	81	6	156	41	9	12	37	1.74
16055160--16055328	89	1.9	89	84	7	227	42	8	10	38	1.70
16057171--16057229	2	29.5	2	89	0	91	44	1	3	50	1.28
16063633--16063669	19	1.9	19	100	0	74	43	29	0	27	1.55
16065966--16066120	29	5.3	29	84	6	179	39	9	12	38	1.76
16067919--16067960	19	2.2	19	86	0	57	40	14	9	35	1.78
16069560--16069753	77	2.5	77	85	4	252	36	16	15	31	1.91
16069560--16069807	75	3.2	74	82	5	271	37	15	15	31	1.89
16069780--16069858	29	2.7	29	72	0	77	39	11	13	35	1.81
16070261--16070306	23	2.0	23	87	8	67	43	8	32	15	1.77
16074860--16074899	20	2.0	20	90	9	64	50	12	2	35	1.54
16075474--16075562	45	2.0	45	91	4	144	68	1	24	5	1.18
16075474--16075563	40	2.1	43	86	10	123	68	1	24	5	1.17
16075547--16075679	65	2.1	64	83	8	164	63	6	16	12	1.48
16076476--16076513	20	2.0	20	89	5	60	21	23	15	39	1.92
16077307--16077417	43	2.6	43	84	2	143	25	19	35	19	1.96
16077309--16077430	43	2.8	43	81	2	138	25	18	36	19	1.94
16077425--16077463	3	13.7	3	86	10	55	28	0	38	33	1.57
16077785--16077877	40	2.3	40	90	1	143	22	18	25	33	1.97
16078085--16078148	33	1.9	33	84	6	85	23	32	21	21	1.98
16082804--16082843	20	2.0	21	85	5	55	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16086148--16086174	9	3.0	9	100	0	54	11	0	11	77	0.99
16097619--16097659	21	1.9	22	90	5	66	51	7	24	17	1.70
16097619--16097663	20	2.2	21	84	11	58	55	6	22	15	1.63
16097617--16097664	21	2.3	20	79	10	60	56	6	22	14	1.61
16107585--16107640	29	2.0	28	92	3	94	21	1	16	60	1.44
16107591--16107654	29	2.2	29	85	0	83	21	3	17	57	1.53
16114508--16114550	21	2.0	21	100	0	86	32	30	13	23	1.93
16117114--16117144	14	2.2	14	94	0	53	48	0	0	51	1.00
16120571--16120652	43	1.9	43	90	5	130	52	19	3	24	1.62
16125495--16125536	19	2.2	19	83	8	50	45	7	33	14	1.72
16128415--16128464	19	2.6	19	100	0	100	16	20	32	32	1.94
16128580--16128674	39	2.4	40	85	3	138	38	21	15	24	1.92
16128973--16129014	8	5.2	8	91	0	57	47	9	0	42	1.36
16128983--16129013	2	15.5	2	93	0	53	51	3	0	45	1.17
16132151--16132228	32	2.4	32	85	4	104	21	28	23	26	1.99
16134067--16134091	11	2.3	11	100	0	50	8	8	0	84	0.79
16135290--16135314	3	8.3	3	100	0	50	0	32	0	68	0.90
16136076--16136201	42	3.0	42	85	2	164	23	20	30	24	1.98
16136246--16136325	2	39.0	2	92	5	133	48	1	1	47	1.17
16138368--16138474	43	2.5	43	92	1	171	23	19	36	20	1.95
16141939--16141976	20	1.9	20	88	0	58	50	7	5	36	1.54
16142134--16142205	20	3.6	20	78	0	81	40	15	9	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16145543--16145643	36	2.8	37	92	4	161	26	38	7	26	1.84
16156315--16156398	39	2.1	40	91	2	134	42	16	21	19	1.89
16163741--16163780	17	2.4	17	95	0	71	40	27	12	20	1.88
16166402--16166468	25	2.7	26	83	4	75	2	34	4	58	1.34
16170201--16170230	6	5.0	6	100	0	60	50	0	16	33	1.46
16173228--16173271	19	2.4	18	82	14	54	36	2	0	61	1.09
16175559--16175614	29	1.9	29	85	7	78	58	0	7	33	1.25
16180184--16180425	122	2.0	122	95	0	430	36	21	8	33	1.84
16181535--16181698	84	2.0	83	92	2	267	29	26	18	25	1.98
16182785--16182951	68	2.5	67	84	3	210	37	15	10	37	1.81
16187011--16187075	27	2.4	28	81	2	78	43	0	4	52	1.22
16186929--16187195	143	1.8	146	86	6	391	43	3	2	50	1.34
16187036--16187276	120	2.0	121	84	4	317	44	1	2	51	1.26
16187075--16187401	42	7.7	42	69	16	138	42	1	2	53	1.23
16194061--16194093	17	1.9	17	93	0	57	6	15	9	69	1.34
16197266--16197350	15	5.7	15	90	0	125	37	5	23	32	1.79
16197576--16197635	28	2.1	28	87	0	84	28	3	0	68	1.05
16197576--16197644	28	2.4	27	81	9	66	28	2	0	68	1.04
16197675--16197745	33	2.2	33	85	12	101	26	1	1	70	1.04
16214339--16214404	23	2.8	23	90	2	105	27	16	18	37	1.92
16216386--16216558	73	2.4	73	82	11	194	39	14	22	23	1.91
16218033--16218063	3	10.3	3	92	0	53	70	0	29	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16218033--16218091	12	4.7	13	75	19	54	67	0	27	5	1.11
16236445--16236524	29	2.7	30	84	3	110	33	15	11	40	1.82
16238357--16238957	321	1.9	319	85	5	827	31	16	15	36	1.91
16245321--16245393	36	2.0	36	94	0	128	34	15	15	35	1.88
16253931--16253995	26	2.4	26	84	7	76	53	7	3	35	1.45
16255002--16255037	17	2.1	17	89	0	54	47	5	11	36	1.63
16255604--16255638	15	2.3	15	85	0	52	42	5	2	48	1.41
16258306--16258443	43	3.2	43	85	2	143	26	17	32	23	1.96
16258348--16258456	43	2.5	44	86	6	157	26	20	32	21	1.97
16258729--16258803	22	3.6	21	78	14	84	32	25	20	22	1.98
16260830--16260915	45	1.9	45	83	4	111	9	25	8	56	1.58
16269069--16269114	15	3.1	14	84	9	65	54	19	4	21	1.61
16271558--16271595	19	2.0	19	100	0	76	42	26	0	31	1.56
16281266--16281310	23	2.0	23	86	0	63	73	2	8	15	1.18
16281372--16281430	2	31.5	2	83	13	81	49	1	0	49	1.11
16281496--16281544	23	2.1	24	84	3	64	51	14	2	32	1.54
16283557--16283638	38	2.2	38	84	4	114	24	12	13	50	1.76
16285177--16285234	18	3.2	18	82	0	71	22	12	15	50	1.77
16285418--16285507	20	4.7	20	73	15	82	40	0	1	58	1.05
16285509--16285550	9	4.7	9	87	0	66	28	2	23	45	1.66
16285503--16285550	18	2.7	18	90	0	69	29	4	20	45	1.70
16287136--16287175	20	2.0	21	95	5	73	35	22	0	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16289257--16289340	31	2.7	30	83	3	105	26	19	3	51	1.63
16290369--16290401	7	4.9	7	96	3	59	54	0	0	45	0.99
16290697--16290738	21	2.0	21	90	0	66	35	7	19	38	1.79
16293420--16293479	30	1.9	32	83	6	79	51	0	8	40	1.32
16293827--16293857	2	15.5	2	100	0	62	51	0	0	48	1.00
16295097--16295140	19	2.3	18	84	7	52	50	4	4	40	1.43
16336258--16336282	13	1.9	13	100	0	50	44	0	8	48	1.32
16342302--16342475	89	2.0	89	85	0	240	35	22	12	30	1.90
16343941--16344090	66	2.3	67	83	3	187	30	28	14	27	1.95
16351951--16352098	66	2.2	67	81	3	174	31	26	14	28	1.95
16355234--16355391	55	2.9	55	93	0	271	21	15	36	26	1.93
16355241--16355327	28	3.1	28	65	15	81	20	12	37	28	1.89
16357311--16357437	43	3.0	43	89	2	184	22	33	18	25	1.97
16366865--16366903	15	2.7	15	92	4	62	0	20	2	76	0.90
16370333--16370357	13	1.9	13	100	0	50	48	8	0	44	1.32
16383717--16384204	256	1.9	256	88	1	746	25	20	24	29	1.99
16385068--16385101	16	2.1	17	88	5	52	26	0	5	67	1.13
16392546--16392589	19	2.1	22	84	12	58	61	18	0	20	1.35
16429833--16429903	31	2.3	31	87	2	99	59	4	16	19	1.54
16429898--16429982	30	2.8	31	81	3	109	48	5	16	29	1.70
16430828--16430858	15	2.1	15	100	0	62	38	22	19	19	1.93
16440188--16440241	25	2.2	26	83	10	76	24	1	11	62	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16443429--16443546	42	2.8	42	92	0	191	21	35	21	22	1.96
16445568--16445629	31	2.0	31	93	0	106	37	27	17	17	1.93
16446587--16446629	16	2.7	16	100	0	86	6	16	6	69	1.32
16460815--16460840	2	13.0	2	100	0	52	50	0	0	50	1.00
16471245--16471355	23	5.3	23	63	20	62	31	9	23	35	1.88
16471247--16471356	41	2.7	41	91	2	177	31	9	23	35	1.86
16471362--16471431	29	2.4	30	83	7	90	37	8	18	35	1.82
16471382--16471447	29	2.2	29	83	2	78	42	9	13	34	1.76
16475121--16475178	21	2.8	21	94	0	98	67	15	8	8	1.41
16475603--16475864	131	2.0	130	97	2	499	42	3	12	40	1.61

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