genome.fa.s5.2.7.7.80.10.50.1000.81.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  81  of  103  ( 12320 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)
30239359--30239401	21	2.0	21	100	0	86	27	4	13	53	1.60
30258850--30258910	23	2.6	24	80	14	67	39	0	6	54	1.27
30263685--30263727	12	3.5	12	77	3	50	34	0	0	65	0.93
30267896--30267936	16	2.3	18	80	16	50	78	14	7	0	0.96
30268057--30268118	26	2.4	26	84	7	74	80	1	6	11	0.96
30268353--30268409	21	2.7	21	86	8	71	77	14	7	1	1.06
30268363--30268409	14	3.3	14	84	3	67	78	14	6	0	0.93
30268355--30268409	29	1.9	28	89	10	85	76	14	7	1	1.08
30268672--30268748	7	10.9	7	80	8	84	72	11	12	2	1.22
30268103--30269598	319	4.8	312	87	6	2066	50	11	9	28	1.71
30268992--30269038	14	3.3	15	82	8	62	78	8	8	4	1.07
30268983--30269045	21	3.0	21	75	11	56	77	6	7	7	1.11
30268983--30269046	14	4.5	14	76	9	58	76	6	7	9	1.15
30269289--30269353	7	8.9	8	88	8	70	75	13	10	0	1.05
30269279--30269349	37	1.9	36	88	8	108	76	12	9	1	1.09
30277626--30277833	42	5.3	41	69	23	146	56	2	1	39	1.24
30277614--30277728	20	5.5	20	73	16	99	49	2	2	45	1.29
30277614--30277728	23	5.5	22	69	21	70	49	2	2	45	1.29
30277614--30277728	42	2.7	43	81	5	144	49	2	2	45	1.29
30277943--30277999	27	2.2	26	84	6	71	50	3	1	43	1.29
30278034--30278444	42	10.3	40	69	16	225	54	2	2	40	1.28
30277922--30278459	159	3.4	157	87	4	744	54	2	2	40	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30278112--30278168	27	2.1	27	80	6	62	54	1	0	43	1.10
30278168--30278235	26	2.6	26	70	19	61	57	2	2	36	1.29
30278236--30278299	11	6.1	11	69	10	53	57	0	1	40	1.08
30278407--30278461	22	2.6	20	82	8	65	45	0	1	52	1.11
30279255--30279321	26	2.8	23	72	16	64	47	4	2	44	1.38
30279289--30279323	18	1.9	18	88	0	52	51	2	2	42	1.31
30279347--30279387	2	20.5	2	100	0	82	48	0	0	51	1.00
30282091--30282129	18	2.1	19	85	4	53	48	10	7	33	1.66
30289415--30289444	15	2.0	15	100	0	60	13	20	0	66	1.24
30310356--30310419	28	2.2	29	77	2	67	40	18	10	29	1.85
30311968--30312001	6	5.5	6	96	3	59	32	0	0	67	0.91
30312387--30312434	7	6.7	7	80	4	51	37	0	2	60	1.09
30312398--30312442	21	2.1	23	88	12	69	33	0	4	62	1.15
30314478--30314522	21	2.1	23	88	12	69	33	0	4	62	1.15
30325653--30325721	8	8.4	8	77	15	61	79	4	1	14	0.95
30325654--30325721	7	9.4	7	76	10	57	79	4	1	14	0.96
30325658--30325712	28	2.0	28	82	7	67	76	5	1	16	1.06
30325653--30325730	36	2.2	36	84	6	97	79	3	1	15	0.94
30326230--30326288	11	4.8	13	71	21	56	64	0	33	1	1.04
30326229--30326295	21	3.0	22	75	16	66	62	0	35	1	1.04
30326328--30326395	30	2.3	30	89	5	102	69	0	30	0	0.89
30326312--30326351	6	7.0	6	83	11	57	70	0	30	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30326337--30326384	20	2.2	23	82	14	57	72	0	27	0	0.84
30329447--30329509	29	2.2	29	82	0	72	19	23	15	41	1.90
30331574--30331671	52	1.9	52	89	2	153	26	22	15	35	1.94
30333362--30333581	29	7.6	29	70	12	157	33	15	17	33	1.92
30333364--30333591	58	4.0	57	86	4	332	33	14	17	33	1.91
30337400--30337440	2	21.0	2	95	5	75	51	0	0	48	1.00
30337468--30337497	11	2.6	12	94	5	53	86	3	0	10	0.67
30338756--30338809	15	3.6	15	82	7	65	22	5	12	59	1.54
30348950--30349119	61	2.8	61	99	0	331	35	18	20	25	1.95
30349082--30349156	37	2.0	38	92	2	125	40	22	17	20	1.92
30348972--30349416	31	14.2	31	70	11	318	36	19	19	24	1.95
30349120--30349450	62	5.4	62	90	3	535	37	19	19	23	1.94
30349130--30349480	31	11.4	31	73	10	236	36	19	19	24	1.94
30349743--30349802	12	4.8	12	76	11	50	73	5	1	20	1.11
30350537--30350586	26	1.9	26	84	8	66	40	8	36	16	1.77
30352699--30352766	12	5.8	11	73	19	57	51	2	4	41	1.37
30352692--30352744	22	2.4	22	87	6	72	52	0	3	43	1.19
30364678--30364728	27	2.0	25	84	7	66	66	1	0	31	1.03
30364981--30365038	15	3.9	15	74	0	53	32	22	8	36	1.85
30366980--30367033	21	2.5	22	81	6	65	20	11	25	42	1.85
30367063--30367115	23	2.3	23	80	6	63	30	28	16	24	1.97
30367216--30367273	22	2.6	22	77	0	71	43	17	15	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30368420--30368837	211	2.0	213	86	1	597	45	5	7	41	1.56
30368800--30368854	17	3.2	17	77	12	58	47	1	3	47	1.30
30370003--30370038	18	2.1	18	89	5	56	47	0	2	50	1.15
30370853--30370895	22	2.0	22	90	9	70	0	34	0	65	0.93
30382701--30382984	115	2.5	117	84	6	350	36	9	15	38	1.80
30382719--30383019	115	2.6	113	79	7	320	36	8	15	38	1.79
30390436--30390485	26	2.0	26	84	4	66	36	10	10	44	1.72
30392531--30392576	6	8.2	6	80	9	53	80	0	4	15	0.86
30392531--30392576	17	2.8	17	83	12	60	80	0	4	15	0.86
30397042--30397433	198	2.0	198	94	1	696	24	20	16	38	1.93
30397997--30398069	38	1.9	37	91	2	119	35	13	8	42	1.74
30398413--30398438	2	13.0	2	100	0	52	50	50	0	0	1.00
30399774--30399813	19	2.1	19	85	0	53	27	0	15	57	1.38
30411104--30411133	15	2.0	15	93	0	51	36	0	0	63	0.95
30418429--30418455	2	13.5	2	100	0	54	48	0	51	0	1.00
30419798--30419902	28	3.5	29	75	10	104	56	3	17	22	1.57
30419765--30419913	31	4.9	31	80	12	132	56	3	18	21	1.56
30421068--30421123	2	27.5	2	96	3	103	50	0	1	48	1.11
30423039--30423157	30	4.0	30	69	19	95	52	9	10	26	1.66
30427153--30427865	353	2.0	357	96	2	1332	38	11	5	44	1.64
30428221--30428269	21	2.5	19	81	15	55	36	10	8	44	1.68
30429678--30429800	60	2.1	59	86	7	169	54	6	12	26	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30432927--30433104	55	3.2	54	78	3	194	12	11	33	42	1.79
30433144--30433270	23	5.5	23	84	0	164	25	19	31	23	1.98
30433251--30433332	31	2.6	31	78	3	85	28	15	21	34	1.95
30436802--30437108	31	9.9	32	77	4	283	40	19	17	22	1.91
30436810--30437109	93	3.2	92	83	2	341	40	20	17	22	1.91
30437780--30437825	14	3.3	13	80	14	56	56	2	8	32	1.42
30439192--30439674	156	3.1	156	84	0	626	27	20	18	33	1.96
30439213--30439727	156	3.3	156	83	1	595	27	19	19	33	1.96
30441318--30441612	31	9.5	31	86	2	317	37	21	16	24	1.93
30442101--30442200	53	1.9	52	91	2	164	29	31	17	23	1.96
30442188--30442489	47	6.4	47	79	3	322	23	33	15	27	1.95
30442191--30442265	24	3.2	24	68	24	68	21	32	18	28	1.97
30442188--30442491	94	3.2	94	82	5	373	23	33	16	27	1.95
30442188--30442536	94	3.7	94	83	3	364	23	32	16	27	1.96
30442188--30442546	47	7.7	47	77	3	231	23	33	16	26	1.95
30453063--30453104	22	1.9	22	90	9	68	33	23	9	33	1.87
30454776--30454822	10	4.5	11	92	7	73	27	0	0	72	0.85
30454776--30454822	7	6.9	7	77	22	55	27	0	0	72	0.85
30454780--30454818	17	2.3	17	100	0	78	28	0	0	71	0.86
30459780--30459873	17	5.6	17	73	15	63	25	0	0	74	0.82
30459776--30459883	13	7.8	13	70	19	67	25	0	0	74	0.83
30459775--30459883	4	27.5	4	78	15	79	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30459799--30459882	26	3.1	27	75	18	86	28	0	0	71	0.86
30459782--30459883	21	4.7	21	73	20	75	26	0	0	73	0.83
30470648--30470696	19	2.6	19	93	3	82	48	2	0	48	1.12
30470567--30470696	2	66.5	2	73	20	89	50	3	3	42	1.33
30473890--30474087	97	2.0	98	88	2	292	28	30	11	29	1.91
30477212--30477269	29	2.0	30	86	3	82	46	18	3	31	1.66
30484920--30484981	31	2.0	31	87	6	90	11	32	16	40	1.83
30496655--30496688	15	2.3	15	94	0	59	55	0	2	41	1.15
30502173--30502204	2	16.0	2	100	0	64	50	0	0	50	1.00
30504766--30504803	19	2.0	19	89	0	58	5	13	5	76	1.13

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