genome.fa.s6.2.7.7.80.10.50.1000.49.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  49  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)
16022706--16022784	29	2.8	28	80	5	95	37	26	16	18	1.92
16024111--16024152	6	6.7	6	97	2	66	54	14	0	30	1.40
16024253--16024399	31	4.9	30	74	18	128	21	23	12	42	1.87
16024838--16025005	60	2.8	60	79	7	151	54	12	10	22	1.68
16033117--16033175	24	2.5	24	80	5	66	37	16	23	22	1.94
16036470--16036496	7	3.9	7	100	0	54	29	29	11	29	1.91
16036691--16036742	11	4.5	12	80	19	58	26	0	1	71	0.97
16036849--16036880	15	2.1	15	94	0	55	28	0	0	71	0.86
16036848--16036906	20	3.3	19	82	13	72	28	0	0	71	0.87
16043239--16043326	25	3.4	25	77	9	88	67	4	3	25	1.26
16044699--16045110	44	9.3	45	75	6	349	29	25	16	27	1.97
16044667--16045117	133	3.4	132	93	0	731	28	25	15	29	1.96
16045293--16045319	2	13.5	2	100	0	54	48	0	0	51	1.00
16056940--16056992	29	1.9	29	85	11	76	67	3	7	20	1.31
16057356--16057443	25	3.4	25	77	9	88	67	4	3	25	1.26
16060286--16060336	23	2.2	23	89	0	75	29	9	19	41	1.84
16078483--16078547	30	2.1	31	82	2	78	35	3	1	60	1.22
16079746--16079866	45	2.9	42	78	8	113	28	6	30	34	1.83
16081008--16081075	29	2.3	29	85	5	84	36	20	14	27	1.92
16082039--16082072	15	2.3	15	90	5	52	67	23	5	2	1.26
16083430--16083487	23	2.4	25	82	5	66	24	5	24	46	1.72
16083630--16083694	6	11.3	6	88	6	75	0	35	1	63	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16083630--16083687	5	11.4	5	87	12	75	0	37	0	62	0.96
16084190--16084459	137	2.0	137	86	1	380	37	23	9	28	1.87
16090372--16090408	16	2.4	16	90	4	58	59	5	2	32	1.34
16090533--16090663	19	6.6	19	69	17	79	55	14	0	29	1.45
16090507--16090559	27	2.0	27	96	0	97	54	15	0	30	1.41
16090599--16090663	19	3.3	20	81	8	80	53	15	1	29	1.51
16098321--16098392	37	1.9	37	97	0	135	48	0	25	26	1.51
16101176--16101354	51	3.5	51	100	0	358	31	25	13	28	1.94
16101196--16101327	25	5.2	25	62	17	74	31	25	12	30	1.92
16114281--16114313	17	1.9	17	88	11	50	15	0	6	78	0.93
16118405--16118522	57	2.1	57	86	0	164	32	6	11	50	1.64
16121296--16121330	5	7.0	5	100	0	70	60	0	0	40	0.97
16121990--16122019	10	2.8	11	90	10	53	10	6	6	76	1.15
16134087--16134173	29	2.8	31	77	14	92	26	32	24	17	1.97
16136787--16136864	39	2.0	39	92	0	129	30	17	24	26	1.97
16136910--16137051	46	3.1	46	98	0	275	27	19	15	37	1.92
16142479--16142512	18	1.9	17	94	5	59	41	0	2	55	1.15
16151735--16151935	80	2.5	80	83	4	242	35	14	14	35	1.87
16152449--16152546	38	2.5	39	81	6	128	30	6	20	42	1.76
16152532--16152627	43	2.3	39	81	12	104	34	13	20	31	1.92
16152735--16152917	58	3.2	58	78	5	149	47	13	2	36	1.57
16154966--16155034	31	2.2	31	82	10	88	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16156042--16156067	7	3.7	7	100	0	52	88	0	11	0	0.52
16162749--16162806	20	3.0	20	82	10	66	39	10	8	41	1.70
16170256--16170301	23	2.0	23	91	0	74	39	15	10	34	1.82
16174237--16174287	25	2.0	25	100	0	102	27	7	21	43	1.80
16174529--16174582	27	2.0	27	100	0	108	33	11	7	48	1.67
16175351--16175393	23	2.0	23	86	9	63	46	2	0	51	1.13
16175334--16175403	25	3.1	22	76	10	54	47	2	2	47	1.32
16175431--16175632	100	2.0	101	99	0	397	37	17	13	31	1.89
16176573--16177012	197	2.3	191	77	7	447	33	20	20	24	1.97
16177397--16177435	20	2.0	20	89	0	60	20	0	30	48	1.50
16177421--16177509	7	12.9	7	75	2	63	20	1	31	47	1.58
16177439--16177510	28	2.6	27	77	12	74	23	1	30	44	1.62
16177733--16177769	9	4.1	9	89	0	56	48	13	8	29	1.71
16178836--16179242	125	3.3	125	86	1	539	32	15	21	29	1.94
16180580--16180649	9	7.8	9	77	6	61	50	18	0	31	1.48
16182822--16182916	43	2.2	43	88	0	145	24	16	28	30	1.97
16190018--16190056	12	3.2	12	92	7	62	33	0	0	66	0.92
16201338--16201439	51	2.0	51	82	0	123	47	19	18	14	1.83
16203804--16204096	50	5.8	50	89	0	415	26	22	30	20	1.98
16209862--16209886	13	1.9	13	100	0	50	32	4	24	40	1.73
16216476--16217070	44	13.5	43	64	12	156	31	20	23	25	1.98
16216432--16217123	132	5.2	132	89	0	1037	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16217091--16217262	88	2.0	87	84	1	227	26	22	26	25	2.00
16219000--16219029	15	2.0	15	100	0	60	40	20	13	26	1.89
16219434--16219683	43	5.8	43	88	1	324	27	33	19	20	1.96
16224512--16224559	25	1.9	25	100	0	96	25	0	6	68	1.12
16224607--16224800	107	1.8	107	90	0	316	28	12	11	46	1.77
16224751--16224853	53	2.0	53	98	1	199	30	4	9	55	1.53
16225975--16226148	73	2.4	73	83	3	242	26	25	20	27	1.99
16225916--16226262	187	1.9	187	90	0	550	25	25	21	27	1.99
16226050--16226486	114	3.9	114	89	1	666	26	25	22	25	2.00
16226054--16226486	227	1.9	226	91	2	717	26	25	21	25	2.00
16234443--16234468	2	13.0	2	100	0	52	0	50	0	50	1.00
16237274--16237304	12	2.6	12	89	0	53	6	41	16	35	1.74
16238821--16238851	16	1.9	16	93	0	53	58	6	3	32	1.40
16243173--16243228	25	2.2	25	87	0	76	25	12	33	28	1.92
16243223--16243403	73	2.5	74	78	6	199	37	22	21	18	1.94
16243332--16243402	26	2.8	25	75	21	69	38	25	22	14	1.92
16244049--16244124	37	2.1	37	100	0	152	28	19	5	46	1.72
16251345--16251404	30	2.0	29	87	3	84	46	1	0	51	1.10
16262786--16263042	138	1.9	138	82	0	325	32	21	17	28	1.96
16262764--16263047	69	4.1	69	78	1	282	32	21	19	27	1.97
16262927--16263168	121	2.0	121	83	0	304	32	23	18	25	1.97
16263048--16263204	69	2.3	69	84	2	208	31	23	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16266399--16266538	46	3.0	46	92	2	228	30	25	7	36	1.84
16271873--16271952	30	2.6	32	76	7	85	46	8	20	25	1.79
16271862--16271949	30	2.9	30	73	8	79	47	7	19	25	1.76
16272743--16272782	17	2.4	17	87	4	55	37	7	0	55	1.29
16277911--16278088	88	2.0	89	98	1	349	51	4	11	32	1.57
16280467--16280528	30	2.1	30	93	0	106	59	14	1	24	1.44
16286007--16286054	18	2.7	18	78	9	62	41	2	16	39	1.60
16286482--16286529	21	2.3	21	92	0	78	20	2	22	54	1.55
16288404--16288533	54	2.4	54	89	1	206	25	23	18	32	1.97
16295795--16295832	3	12.7	3	100	0	76	31	0	0	68	0.90
16300492--16300518	6	4.5	6	100	0	54	33	14	18	33	1.92
16301160--16301204	19	2.4	19	96	3	83	46	8	15	28	1.76
16302627--16302674	2	23.5	2	87	4	51	45	0	0	43	1.04
16303104--16303229	40	3.1	41	78	6	143	39	18	17	24	1.91
16303287--16303421	41	3.3	41	80	12	125	19	20	26	33	1.97
16303794--16303834	21	2.0	20	85	4	55	19	0	41	39	1.52
16305087--16305148	26	2.3	27	77	5	72	54	3	8	33	1.46
16305223--16305254	13	2.4	14	85	15	50	78	6	0	15	0.95
16305711--16305844	19	6.8	19	90	3	196	37	14	10	38	1.80
16305688--16305843	61	2.6	60	85	8	174	39	13	9	37	1.77
16306029--16306900	84	10.2	82	73	11	416	28	22	19	29	1.98
16306068--16306900	128	6.5	128	74	9	661	28	22	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16306204--16306349	40	3.5	40	75	7	166	30	18	21	29	1.97
16306029--16306874	44	19.6	43	71	10	509	28	21	19	29	1.98
16308529--16308570	8	5.8	8	88	11	56	0	0	11	88	0.53
16308524--16308572	14	3.6	13	86	10	71	2	0	10	87	0.62
16308524--16308572	20	2.5	19	90	9	80	2	0	10	87	0.62
16314483--16314512	7	4.4	7	91	8	53	86	0	0	13	0.57
16314483--16314511	13	2.2	13	100	0	58	86	0	0	13	0.58
16314806--16314967	59	2.8	56	79	15	127	39	14	8	37	1.77
16314846--16315108	19	13.8	19	79	10	279	37	15	11	36	1.83
16314884--16315060	93	1.9	90	85	6	239	37	15	11	35	1.84

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