genome.fa.s6.2.7.7.80.10.50.1000.37.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:  35726063

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  37  of  109  ( 13028 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)
11984145--11984294	80	1.9	80	87	0	219	34	18	27	20	1.96
11987241--11987335	49	1.9	49	86	0	136	45	7	14	32	1.73
11999210--11999406	25	7.6	25	73	10	126	35	24	13	26	1.92
12003336--12003399	32	2.0	32	96	0	119	37	12	23	26	1.90
12004641--12004729	44	2.0	44	93	0	151	40	15	21	22	1.91
12008745--12008782	11	3.7	11	80	20	55	31	0	0	68	0.90
12008745--12008787	19	2.2	20	91	4	70	32	0	0	67	0.91
12008747--12008787	11	4.1	10	85	14	50	29	0	0	70	0.87
12027840--12027870	16	1.9	16	93	0	53	70	9	9	9	1.33
12031576--12031771	104	1.9	102	84	6	261	25	26	26	22	2.00
12032023--12032091	19	3.7	19	80	17	74	21	1	0	76	0.86
12032022--12032102	15	5.4	15	76	12	60	22	2	0	75	0.92
12032022--12032075	5	11.0	5	77	18	60	22	0	0	77	0.76
12032022--12032074	12	4.9	10	80	13	52	20	0	0	79	0.74
12037664--12037721	12	4.9	12	80	14	59	55	1	3	39	1.27
12043796--12043828	16	2.1	16	100	0	66	30	6	21	42	1.77
12045669--12045713	22	2.0	22	100	0	90	46	0	26	26	1.53
12049839--12049868	5	6.0	5	100	0	60	20	0	0	80	0.72
12056752--12056810	29	2.2	26	84	9	73	25	13	16	44	1.85
12057068--12057136	22	3.1	22	87	0	102	31	27	1	39	1.66
12057089--12057193	52	2.0	51	85	1	138	33	30	1	34	1.69
12057293--12057444	52	3.0	51	88	8	215	36	30	10	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12064416--12064464	12	4.3	12	77	7	50	55	0	2	42	1.11
12073371--12073400	4	7.5	4	100	0	60	76	0	0	23	0.78
12073850--12073881	15	2.1	15	94	0	55	50	9	12	28	1.71
12082177--12082207	16	1.9	16	93	0	53	74	9	6	9	1.23
12082541--12082708	61	2.8	61	81	0	185	29	26	14	29	1.95
12088975--12089939	482	2.0	483	99	0	1923	40	9	10	40	1.71
12090043--12090067	11	2.3	11	100	0	50	48	0	0	52	1.00
12101864--12101910	19	2.5	19	89	6	69	23	21	10	44	1.83
12105169--12105201	10	3.3	10	100	0	66	90	0	0	9	0.44
12106462--12106965	177	2.8	177	89	0	749	32	18	21	28	1.96
12106470--12106952	133	3.6	133	81	4	494	32	18	20	27	1.96
12106470--12106958	44	11.1	44	79	3	437	32	18	20	28	1.96
12106780--12107139	196	1.8	196	83	1	479	31	18	22	27	1.97
12107247--12107371	44	2.9	44	83	2	155	28	19	24	27	1.98
12107425--12107746	131	2.4	130	86	3	439	28	21	22	27	1.99
12108195--12108252	19	2.7	22	84	10	68	36	8	17	37	1.80
12114529--12114568	21	2.0	20	85	5	53	82	2	10	5	0.91
12116221--12116357	29	4.8	29	74	10	131	32	21	20	26	1.98
12116192--12116328	57	2.4	56	83	2	166	32	20	18	28	1.97
12116366--12116428	29	2.2	29	83	11	76	31	14	26	26	1.95
12119215--12119253	19	2.1	19	85	0	51	43	15	2	38	1.60
12120672--12120701	8	3.6	8	95	4	51	10	3	0	86	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12122331--12122366	17	2.1	17	90	10	56	66	2	0	30	1.06
12124049--12124087	19	2.1	19	85	0	51	43	15	2	38	1.60
12129342--12129381	11	3.5	11	89	3	53	20	30	2	47	1.63
12129341--12129392	22	2.4	21	81	12	61	21	28	3	46	1.69
12129354--12129455	51	2.0	51	92	3	170	23	29	2	44	1.68
12129618--12129679	18	3.5	18	70	16	58	37	0	1	61	1.06
12131292--12131326	18	1.9	18	94	0	61	28	28	0	42	1.56
12134941--12135357	126	3.3	126	87	3	597	26	20	19	34	1.96
12135400--12135640	96	2.5	97	78	7	267	39	18	2	39	1.66
12135400--12135629	95	2.4	96	79	8	270	37	18	3	40	1.66
12142089--12142119	15	2.1	15	100	0	62	48	19	19	12	1.81
12142861--12143162	151	2.0	151	98	0	586	45	6	14	33	1.72
12146663--12146697	18	2.0	17	88	5	52	42	22	0	34	1.54
12147539--12147609	35	2.0	35	100	0	142	35	11	11	42	1.77
12147548--12147604	18	3.2	18	68	22	57	36	8	10	43	1.70
12156088--12156126	13	3.0	13	96	0	69	33	23	28	15	1.95
12156253--12156562	43	7.2	42	80	4	325	26	30	18	24	1.98
12156253--12156532	85	3.3	85	84	3	330	26	30	18	24	1.98
12156255--12156562	128	2.4	128	84	4	370	26	30	18	25	1.98
12156753--12156815	18	3.5	18	91	0	108	58	0	14	26	1.36
12156743--12156816	36	2.0	37	97	2	141	59	0	13	27	1.35
12162441--12162479	19	2.1	19	100	0	78	41	0	23	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12164704--12164755	27	1.9	27	88	0	77	44	13	0	42	1.44
12166083--12166134	27	1.9	27	92	0	86	46	11	0	42	1.40
12167291--12167345	28	2.0	28	85	7	76	40	7	5	47	1.54
12167429--12167466	15	2.5	16	83	12	53	36	44	0	18	1.50
12168021--12168194	41	4.2	41	87	0	231	33	27	24	14	1.94
12168299--12168428	40	3.2	40	78	11	124	20	24	23	30	1.99
12175999--12176153	53	2.9	53	90	0	229	28	24	13	33	1.93
12177778--12177834	28	2.0	28	100	0	114	38	17	19	24	1.93
12186552--12186584	12	2.8	12	95	0	57	9	9	48	33	1.66
12187101--12187173	22	3.3	23	76	5	80	34	4	20	41	1.72
12187101--12187206	44	2.4	44	85	6	135	34	6	19	38	1.78
12187133--12187173	17	2.4	17	83	0	55	36	4	21	36	1.75
12187142--12187198	22	2.6	22	77	5	62	35	10	19	35	1.86
12187101--12187239	44	3.2	43	76	10	129	35	6	17	40	1.75
12188745--12188775	16	1.9	16	93	0	53	38	0	6	54	1.26
12188821--12188871	24	2.0	25	81	7	59	43	5	1	49	1.38
12189510--12189585	24	3.2	24	94	0	116	46	10	5	38	1.61
12190056--12190101	17	2.6	17	93	3	74	26	13	28	32	1.93
12193992--12194043	24	2.2	24	89	0	77	50	9	3	36	1.54
12194629--12194676	25	2.0	25	87	4	71	47	2	10	39	1.49
12195075--12195109	18	1.9	18	88	0	52	68	2	0	28	1.04
12195688--12195721	9	3.8	9	88	0	50	50	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12203596--12203719	47	2.6	49	74	7	119	31	23	14	30	1.94
12206299--12206359	32	1.9	32	93	0	104	37	9	0	52	1.35
12214731--12214761	16	1.9	16	93	0	53	25	0	0	74	0.82
12218064--12218197	40	3.4	39	80	7	155	31	23	24	20	1.98
12218219--12218416	41	4.9	41	82	4	231	22	19	28	29	1.98
12218758--12218795	15	2.6	14	87	4	58	18	0	36	44	1.50
12218753--12218805	22	2.5	21	84	3	70	22	0	30	47	1.52
12218874--12218937	21	2.9	22	79	6	67	20	1	40	37	1.62
12219117--12219164	15	3.3	15	82	5	62	18	0	35	45	1.50
12219156--12219229	39	1.9	39	83	8	98	21	1	40	36	1.62
12219117--12219248	7	18.0	7	68	14	61	21	0	38	39	1.59
12218817--12219330	272	1.9	263	87	5	748	30	2	24	42	1.67
12220363--12220459	46	2.1	46	96	0	176	25	8	31	34	1.86
12224141--12224318	43	4.1	43	78	5	173	25	17	25	31	1.97
12224152--12224318	86	1.9	86	87	0	244	25	17	25	31	1.97
12224160--12224325	43	3.9	43	83	3	199	25	18	25	31	1.97
12236524--12236940	27	15.5	26	82	11	364	19	17	21	41	1.90
12236526--12236940	54	7.7	52	82	8	492	19	17	21	41	1.90
12236525--12236940	81	5.1	81	83	8	490	19	17	21	41	1.90
12240906--12240939	16	2.1	17	88	5	52	35	14	0	50	1.44
12244108--12244142	18	1.9	18	88	11	54	48	8	20	22	1.76
12249009--12249057	23	2.1	23	100	0	98	48	0	4	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12256516--12256569	22	2.5	22	75	6	56	42	14	24	18	1.88
12256628--12256683	26	2.2	26	90	0	85	37	30	19	12	1.89
12256639--12256694	26	2.2	26	96	0	103	41	21	19	17	1.91
12256697--12256773	27	2.9	27	86	9	113	31	24	25	18	1.97
12256838--12256895	24	2.4	24	85	5	82	46	22	8	22	1.79
12256971--12257032	27	2.3	27	83	2	72	25	22	16	35	1.94
12261004--12261132	28	4.6	28	72	3	89	30	22	17	29	1.97
12263659--12263706	19	2.6	18	76	6	51	60	27	4	8	1.44
12268721--12268762	20	2.0	20	86	9	57	38	7	21	33	1.81
12269167--12269204	18	2.1	18	90	0	58	28	10	10	50	1.70

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109