genome.fa.s5.2.7.7.80.10.50.1000.18.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  18  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)
5969003--5969225	81	2.8	81	88	3	326	21	19	30	29	1.97
5969003--5969225	40	5.5	41	91	1	326	21	19	30	29	1.97
5969532--5969585	7	7.6	7	77	4	54	18	0	31	50	1.48
5969533--5969585	14	3.7	14	85	5	61	18	0	32	49	1.48
5969593--5969664	29	2.6	27	78	12	74	23	0	31	44	1.54
5969623--5969663	20	2.0	20	85	4	55	21	0	29	48	1.50
5970113--5970142	15	2.0	15	93	0	51	20	0	36	43	1.52
5970150--5970211	21	2.9	21	85	7	72	24	0	35	40	1.55
5970201--5970239	7	5.6	7	96	0	69	28	0	15	56	1.40
5970197--5970246	21	2.4	21	82	0	73	26	0	24	50	1.50
5972586--5972610	13	1.9	13	100	0	50	24	8	28	40	1.83
5973085--5973343	64	4.0	64	100	0	518	39	15	16	27	1.89
5975626--5975725	41	2.5	40	79	9	96	26	27	19	28	1.98
5995187--5995277	43	2.1	43	87	2	130	34	10	9	45	1.73
5995628--5995822	42	4.6	43	82	5	173	26	13	26	33	1.94
5995750--5995835	43	2.0	43	88	0	127	27	18	23	30	1.98
6001624--6001826	85	2.4	85	84	6	250	34	13	9	41	1.78
6001949--6002058	10	11.3	10	70	18	54	67	1	2	28	1.15
6001950--6002058	20	5.6	19	72	12	80	66	1	2	28	1.15
6001999--6002126	19	6.9	18	70	14	73	63	1	6	28	1.28
6002003--6002053	26	2.0	26	84	7	68	66	1	3	27	1.20
6002218--6002255	10	3.8	10	80	13	51	26	2	0	71	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6002221--6002266	19	2.3	20	88	3	67	21	4	4	69	1.24
6002219--6002264	20	2.3	21	81	11	60	21	4	4	69	1.24
6002280--6002334	19	2.8	19	76	13	58	30	3	1	63	1.22
6003455--6003480	10	2.6	10	100	0	52	15	0	15	69	1.20
6007685--6007789	51	2.0	52	83	7	133	25	19	10	44	1.82
6007777--6007875	52	1.9	52	85	2	137	26	26	10	37	1.88
6017160--6017187	2	14.0	2	100	0	56	0	50	0	50	1.00
6019113--6019180	3	23.0	3	88	8	104	32	0	2	64	1.08
6019257--6019296	3	13.3	3	84	10	55	32	0	0	67	0.91
6019241--6019295	15	3.7	15	74	16	53	30	0	1	67	1.01
6019243--6019294	12	4.1	12	80	14	52	28	0	1	69	0.99
6020143--6020200	26	2.2	26	81	6	73	29	0	5	65	1.14
6028213--6028237	13	1.9	13	100	0	50	40	24	4	32	1.73
6040981--6041006	12	2.2	12	100	0	52	34	0	0	65	0.93
6041214--6041238	12	2.1	12	100	0	50	24	0	0	76	0.80
6042279--6042386	48	2.3	48	88	7	168	26	14	23	35	1.94
6045496--6045680	101	1.8	102	90	3	302	23	18	28	29	1.98
6045487--6045678	51	3.8	51	77	12	209	24	18	28	28	1.98
6058621--6058658	14	2.8	14	92	4	51	28	2	10	57	1.45
6058629--6058658	14	2.1	14	100	0	60	30	0	13	56	1.37
6059235--6059274	19	2.3	18	87	12	57	42	0	2	55	1.13
6059849--6059886	1	38.0	1	89	0	58	94	5	0	0	0.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6063895--6063924	14	2.1	14	100	0	60	53	20	0	26	1.46
6064218--6064251	14	2.3	15	90	5	52	41	11	2	44	1.56
6065936--6066197	131	2.0	131	98	0	506	45	16	13	24	1.83
6066533--6066577	21	2.1	22	84	12	58	66	8	11	13	1.44
6070697--6070728	15	2.1	15	94	0	55	15	6	9	68	1.36
6071906--6071954	21	2.4	21	96	3	91	40	0	12	46	1.41
6084667--6084718	28	1.9	26	88	7	77	48	0	7	44	1.31
6085640--6085701	25	2.5	25	94	0	106	25	17	22	33	1.96
6089317--6089353	18	2.1	18	94	0	65	29	5	2	62	1.31
6089317--6089348	9	3.6	9	91	0	55	28	6	0	65	1.16
6089405--6089453	19	2.7	19	79	14	59	26	2	6	65	1.27
6095003--6095089	40	2.2	40	85	8	115	31	8	20	40	1.82
6095272--6095443	45	3.9	45	82	7	208	20	19	20	40	1.92
6095262--6095443	89	2.0	88	84	6	233	20	18	19	40	1.91
6095423--6095466	6	7.2	6	79	5	52	18	20	13	47	1.82
6104735--6104769	18	1.9	18	88	0	52	77	5	2	14	1.07
6106122--6106174	18	2.9	18	80	2	61	41	45	1	11	1.51
6106266--6106323	9	6.4	9	85	0	80	25	10	20	43	1.84
6108100--6108201	20	5.1	20	74	8	82	40	15	29	14	1.87
6116124--6116160	5	7.4	5	100	0	74	81	0	0	18	0.70
6119878--6119945	24	2.8	24	84	6	75	48	11	10	29	1.73
6120055--6120084	15	2.0	15	93	0	51	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6120387--6120476	32	2.9	31	93	3	153	46	13	10	30	1.75
6120388--6120483	31	3.1	31	93	3	165	46	12	9	31	1.73
6128047--6128084	20	2.0	20	85	10	53	23	44	2	28	1.67
6136587--6136662	32	2.4	32	84	0	98	44	6	25	23	1.77
6141062--6141137	32	2.4	32	84	0	107	44	7	23	23	1.79
6141889--6141941	16	2.8	19	76	18	58	45	0	30	24	1.54
6142951--6142992	22	1.9	22	85	0	57	57	9	4	28	1.51
6149731--6149829	37	2.5	39	82	8	121	53	4	4	38	1.39
6150490--6150534	22	2.0	22	100	0	90	13	31	22	33	1.92
6151491--6151554	26	2.5	25	84	5	74	18	29	15	35	1.92
6154163--6154209	20	2.4	19	76	13	51	29	8	0	61	1.25
6166241--6166266	8	3.2	8	100	0	52	50	15	0	34	1.45
6167110--6167187	34	2.4	33	79	14	90	67	3	2	25	1.20
6170508--6170573	30	2.2	30	88	0	114	25	28	28	16	1.97
6174433--6174466	18	1.9	17	88	5	50	50	0	2	47	1.16
6174617--6174774	78	2.0	79	98	1	309	30	7	5	56	1.49
6174766--6174817	26	2.0	26	85	3	70	26	3	1	67	1.18
6174778--6174871	27	3.5	26	70	22	68	31	4	3	60	1.32
6175443--6175485	22	2.0	20	86	8	59	55	4	20	18	1.60
6175703--6175755	21	2.5	21	81	0	61	32	33	7	26	1.84
6178425--6178462	20	1.9	19	89	5	58	76	2	18	2	1.02
6185171--6185206	15	2.5	14	86	8	54	44	8	0	47	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6186898--6186955	29	2.0	29	100	0	116	31	10	24	34	1.89
6195461--6195515	16	3.5	15	76	11	56	43	5	0	50	1.25
6196311--6196352	16	2.6	17	81	11	52	38	0	0	61	0.96
6197311--6197361	25	2.0	26	88	3	77	15	3	5	74	1.16
6197312--6197381	13	5.3	13	76	8	61	11	2	8	77	1.10
6197340--6197379	14	2.9	14	88	3	55	7	2	10	80	1.00
6197417--6197484	24	2.7	24	78	15	75	36	0	0	63	0.95
6197410--6197470	23	2.7	22	80	14	63	34	0	0	65	0.93
6197536--6197614	30	2.7	28	81	12	88	43	1	1	54	1.16
6197625--6197664	19	2.0	21	90	9	66	50	0	0	50	1.00
6197817--6198001	86	2.2	85	95	1	334	29	2	25	42	1.69
6201069--6201174	30	3.6	30	77	2	106	27	25	24	22	2.00
6203876--6203959	20	4.3	20	71	19	88	57	0	1	41	1.06
6203876--6203930	21	2.6	21	88	5	76	52	0	0	47	1.00
6203928--6203974	24	2.0	25	87	8	71	59	0	4	36	1.17
6205619--6205673	27	2.0	27	92	0	92	20	12	12	54	1.70
6210964--6211002	18	2.2	18	90	0	60	51	23	7	17	1.71
6212513--6212590	40	2.0	40	87	5	113	35	2	0	61	1.10
6213190--6213394	42	4.9	41	88	4	243	28	21	23	25	1.99
6213190--6213395	85	2.4	83	85	7	258	29	21	23	25	1.99
6213816--6213887	21	3.4	21	90	3	101	4	45	16	33	1.67
6216459--6216615	74	2.1	74	82	9	194	26	21	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6216363--6216754	188	2.1	188	81	6	463	26	22	18	32	1.97
6216534--6216790	113	2.3	113	77	7	270	25	22	18	34	1.96
6217446--6217478	13	2.5	14	85	14	52	75	0	24	0	0.80
6217666--6217742	29	2.5	30	83	6	93	49	16	14	19	1.80
6228081--6228117	2	18.5	2	100	0	74	51	0	48	0	1.00
6228954--6228999	24	1.9	24	81	0	56	41	23	17	17	1.90
6231125--6231249	60	2.1	59	90	1	196	39	16	4	40	1.69
6235641--6235885	83	2.9	84	93	1	438	46	23	4	24	1.71
6240885--6242261	690	2.0	690	89	2	2093	39	11	21	28	1.87
6247364--6247408	19	2.2	20	80	11	56	40	15	17	26	1.90

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