genome.fa.s5.2.7.7.80.10.50.1000.16.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  16  of  85  ( 10117 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)
5249237--5249280	3	14.3	3	90	4	70	63	4	0	31	1.14
5249326--5249364	20	2.0	21	85	10	55	66	10	0	23	1.22
5249392--5249428	11	3.5	11	88	7	58	0	29	0	70	0.88
5249527--5249584	27	2.1	27	83	0	71	13	29	27	29	1.94
5249624--5249678	27	2.0	27	92	0	92	34	1	9	54	1.43
5251143--5251365	89	2.5	86	84	6	295	39	21	7	30	1.81
5251585--5251672	18	4.7	19	68	19	60	39	3	1	55	1.24
5251677--5251849	88	2.0	88	87	2	249	32	8	21	38	1.83
5253889--5253926	18	2.1	18	100	0	76	26	21	23	28	1.99
5259955--5259988	14	2.4	14	90	9	52	32	8	0	58	1.29
5260465--5260538	29	2.5	29	84	4	94	27	13	13	45	1.81
5265147--5265177	16	1.9	16	93	0	53	61	3	16	19	1.48
5266054--5266086	17	2.1	16	88	11	50	42	0	18	39	1.50
5273401--5273427	12	2.2	12	100	0	54	48	0	0	51	1.00
5279832--5279958	24	5.3	24	69	18	68	22	29	16	32	1.96
5295461--5295531	26	2.7	26	97	0	133	28	23	18	29	1.98
5300434--5300464	14	2.2	14	100	0	62	38	0	6	54	1.26
5302925--5302984	30	2.0	31	87	9	88	21	35	0	43	1.53
5303107--5303187	17	4.6	17	72	20	69	38	3	2	55	1.31
5306695--5306732	13	2.9	13	88	0	58	42	26	10	21	1.85
5313608--5313705	49	2.0	50	95	2	180	41	15	18	24	1.89
5316391--5316443	4	13.2	4	95	0	97	26	0	24	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5324555--5324671	44	2.7	44	78	13	143	23	17	29	29	1.97
5326073--5327085	506	2.0	507	99	0	2019	34	14	14	35	1.87
5330622--5330683	30	2.0	30	84	3	79	46	9	6	37	1.62
5342778--5342902	62	2.0	63	98	1	243	41	18	20	19	1.90
5348352--5348435	3	28.3	3	81	15	104	32	1	2	64	1.14
5349002--5349038	4	9.2	4	93	0	56	18	0	5	75	0.99
5352394--5352454	30	2.0	30	100	0	122	32	19	19	27	1.96
5356823--5356862	20	1.9	22	85	10	57	65	12	12	10	1.49
5358813--5358854	17	2.5	17	80	7	50	47	2	28	21	1.63
5359083--5359210	61	2.1	61	97	0	238	42	4	16	35	1.69
5361649--5361677	6	4.8	6	100	0	58	31	17	17	34	1.93
5367572--5367611	17	2.4	17	95	0	71	25	25	32	17	1.97
5371256--5371309	20	2.7	20	100	0	108	5	24	25	44	1.75
5371832--5371869	19	2.1	18	90	5	58	28	5	15	50	1.66
5373010--5373060	22	2.3	22	100	0	102	52	21	5	19	1.66
5375451--5375494	22	2.0	22	100	0	88	31	13	31	22	1.93
5377108--5377159	20	2.7	19	82	14	70	38	9	0	51	1.35
5377727--5377803	33	2.3	34	86	2	111	44	27	6	22	1.77
5380110--5380165	23	2.4	23	87	0	76	48	12	21	17	1.80
5382570--5382946	188	2.0	189	99	0	747	35	18	7	38	1.79
5382941--5382986	22	2.1	22	88	8	67	36	2	0	60	1.09
5393925--5393997	31	2.5	29	75	14	78	65	1	1	31	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5399174--5399215	9	4.6	9	82	14	50	42	0	57	0	0.99
5401477--5401505	15	1.9	15	100	0	58	79	0	20	0	0.74
5405158--5405320	42	3.9	42	81	1	166	39	19	25	16	1.92
5405183--5405250	21	3.2	21	75	4	57	39	16	27	16	1.89
5405288--5405330	21	2.0	21	86	8	61	46	16	16	20	1.84
5407711--5407755	3	16.7	3	78	21	55	62	0	0	37	0.96
5407708--5407755	5	9.6	5	82	17	64	62	0	0	37	0.95
5407711--5407755	19	2.4	19	96	3	83	62	0	0	37	0.96
5410840--5410913	13	5.7	13	81	0	94	37	28	6	27	1.82
5414861--5414887	2	13.5	2	100	0	54	51	0	0	48	1.00
5418864--5418914	26	2.0	26	85	14	70	7	27	0	64	1.21
5421236--5421270	17	1.9	19	88	11	56	22	2	0	74	0.95
5424081--5424135	27	2.0	27	100	0	110	40	27	3	29	1.73
5424843--5424913	25	2.9	25	79	4	74	38	18	21	22	1.94
5424877--5424965	45	1.9	47	84	4	119	41	15	19	23	1.89
5425010--5425062	25	2.2	24	83	10	63	39	20	20	18	1.92
5431657--5431707	17	3.1	16	77	8	50	35	0	1	62	1.06
5434391--5434472	44	1.9	44	85	9	116	17	4	23	54	1.61
5437605--5437645	18	2.2	19	83	12	50	70	7	0	21	1.11
5445743--5445827	30	2.9	30	77	10	77	43	2	24	29	1.67
5448862--5448964	34	3.0	35	76	8	120	19	24	25	31	1.98
5448783--5448965	74	2.6	72	78	7	169	20	20	23	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5451917--5451958	21	2.0	21	90	9	68	23	9	4	61	1.45
5461546--5461600	25	2.2	25	83	0	65	32	23	25	18	1.97
5465956--5466001	6	7.7	6	77	18	51	67	2	0	30	1.03
5465960--5466008	16	3.3	15	82	5	55	65	2	0	32	1.04
5468541--5468569	15	1.9	15	100	0	58	27	0	17	55	1.42
5469056--5469276	110	2.0	110	97	0	415	36	11	16	36	1.84
5480959--5481195	118	2.0	119	99	0	467	51	5	4	37	1.46
5481310--5481353	22	2.0	23	86	4	63	54	25	13	6	1.63
5483230--5483279	22	2.3	22	75	0	55	24	4	4	68	1.24
5488825--5488867	16	2.8	15	80	13	52	65	0	0	34	0.93
5491254--5491311	27	2.1	28	84	6	75	46	17	12	24	1.81
5501974--5502042	22	3.2	21	78	13	77	33	5	2	57	1.37
5504727--5504760	17	1.9	17	88	5	50	55	8	5	29	1.54
5510658--5510792	67	2.0	67	91	0	216	21	16	31	30	1.95
5511659--5511811	77	2.0	77	89	2	236	47	7	18	26	1.75
5513571--5513607	16	2.3	16	100	0	74	24	13	32	29	1.93
5518748--5518820	23	3.2	23	88	0	119	30	26	21	21	1.99
5519421--5519465	21	2.1	21	100	0	90	22	24	8	44	1.81
5520463--5520525	3	21.0	3	100	0	126	66	0	0	33	0.92
5520701--5520766	35	2.0	32	82	11	80	48	0	12	39	1.40
5521690--5521716	6	4.5	6	100	0	54	85	0	0	14	0.61
5522529--5522693	44	3.7	44	86	2	215	27	23	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5522856--5523100	129	1.9	128	83	4	316	30	21	17	31	1.96
5523094--5523232	44	3.2	44	70	8	147	24	20	23	30	1.98
5523090--5523276	88	2.1	88	91	0	302	25	21	22	30	1.99
5523226--5523410	44	4.2	43	73	13	153	26	23	18	31	1.98
5523172--5523474	132	2.3	132	91	1	473	23	23	21	31	1.99
5533270--5533336	13	5.3	12	75	16	57	71	4	22	1	1.12
5533270--5533336	25	2.6	25	79	11	66	71	4	22	1	1.12
5541177--5541338	50	3.2	50	75	0	162	24	19	22	33	1.97
5541177--5541363	100	1.9	100	83	0	248	24	20	23	31	1.98
5541353--5541441	43	2.0	45	82	4	110	22	22	23	31	1.98
5541526--5541948	132	3.2	131	89	1	632	25	22	20	30	1.98
5544820--5544883	8	7.8	8	75	6	56	71	9	4	14	1.27
5544820--5544884	12	5.2	12	78	7	76	70	9	4	15	1.29
5545076--5545111	4	8.8	4	87	6	54	75	0	2	22	0.94
5545074--5545111	17	2.2	17	95	0	67	73	0	2	23	0.95
5546311--5546365	21	2.7	19	81	10	56	0	18	10	70	1.15
5556373--5556408	18	2.0	18	88	0	54	66	0	5	27	1.13
5563995--5564181	93	2.0	93	100	0	374	35	19	8	36	1.82
5567253--5567286	17	1.9	18	88	5	52	35	23	0	41	1.55
5567778--5567823	12	3.6	13	85	11	60	58	0	0	41	0.98
5568200--5568243	18	2.6	18	86	13	58	70	4	11	13	1.31
5568291--5568329	16	2.4	16	87	8	53	33	7	0	58	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5569954--5569995	14	3.1	14	80	13	52	52	0	2	45	1.13
5577682--5577759	39	2.0	39	100	0	156	64	12	7	15	1.49
5577684--5577752	20	3.5	20	76	20	83	66	13	5	14	1.42
5587573--5587623	21	2.4	21	80	6	59	49	0	13	37	1.43
5590298--5590382	9	9.4	9	76	0	89	44	18	8	28	1.78
5590297--5590382	27	3.2	27	83	0	100	45	18	8	27	1.78
5590686--5590728	18	2.4	18	84	0	50	11	2	44	41	1.53
5595836--5595883	20	2.4	20	82	6	53	31	2	6	60	1.33
5595852--5595894	22	2.0	21	82	13	52	39	2	4	53	1.34
5598281--5598511	114	2.0	115	94	1	410	16	17	15	50	1.79

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