genome.fa.s4.2.7.7.80.10.50.1000.20.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:  31929104

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   

This is table  20  of  82  ( 9773 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)
6861491--6861584	43	2.2	43	90	0	143	26	18	30	24	1.97
6863418--6863485	21	3.2	21	85	2	91	39	17	17	25	1.91
6866144--6866182	20	2.0	20	85	10	53	48	10	12	28	1.74
6869216--6869333	36	3.3	36	85	2	103	21	38	19	20	1.93
6869247--6869347	36	2.8	36	87	0	139	21	38	18	20	1.93
6875917--6876167	42	6.0	42	87	0	322	23	33	20	23	1.97
6875923--6876162	126	1.9	126	88	1	365	23	33	19	23	1.97
6880120--6880261	29	4.9	28	85	6	185	38	10	13	37	1.79
6880120--6880294	59	3.0	58	84	5	226	38	10	12	38	1.77
6880120--6880271	28	5.3	28	83	10	173	39	9	12	38	1.76
6880436--6880468	17	1.9	17	88	11	50	39	3	15	42	1.62
6881625--6881706	39	2.1	38	88	2	119	29	34	18	18	1.94
6881682--6881743	28	2.2	28	91	0	97	25	29	27	17	1.98
6894986--6895028	19	2.3	18	84	4	59	44	2	0	53	1.13
6918807--6918856	23	2.1	23	82	10	57	56	2	22	20	1.53
6919926--6920060	43	3.2	43	91	3	211	25	15	34	24	1.95
6920099--6920147	2	24.5	2	100	0	98	0	0	48	51	1.00
6920335--6920412	39	2.0	39	89	0	120	21	19	19	39	1.92
6923225--6923306	11	7.7	11	74	18	68	24	2	0	73	0.96
6923228--6923306	7	10.7	7	76	10	68	24	2	0	73	0.96
6923214--6923306	22	4.2	21	78	12	80	24	2	1	72	1.03
6925320--6925360	21	2.0	21	85	9	57	0	9	9	80	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6925338--6925425	16	5.0	18	70	20	62	2	11	5	80	0.97
6925323--6925381	29	2.1	27	82	17	68	0	11	8	79	0.93
6925334--6925374	21	2.0	21	85	0	55	0	12	9	78	0.98
6925318--6925398	8	9.8	8	71	18	51	0	8	8	82	0.84
6925319--6925401	22	3.8	22	75	12	73	0	8	8	83	0.82
6925317--6925421	9	10.9	9	70	20	61	1	10	6	80	0.96
6925386--6925431	23	2.0	23	82	4	56	4	17	2	76	1.06
6925327--6925437	51	2.2	51	82	8	127	1	12	7	78	1.03
6925620--6926088	141	3.3	140	87	1	672	34	17	23	24	1.96
6927261--6927412	80	1.9	80	88	0	232	12	26	11	49	1.75
6934090--6934139	23	2.1	24	85	3	66	40	10	12	38	1.76
6934155--6934196	11	4.0	10	77	22	50	30	0	0	69	0.89
6934144--6934194	9	5.4	9	76	17	50	29	0	1	68	1.00
6934144--6934209	21	3.3	20	78	14	59	27	1	1	69	1.06
6934153--6934199	14	3.3	14	77	13	51	31	0	0	68	0.90
6935492--6935562	37	2.0	35	86	8	99	9	45	9	35	1.71
6935821--6935863	14	3.1	13	80	12	50	11	2	2	83	0.83
6937041--6937145	34	3.2	33	71	12	83	32	26	13	27	1.94
6956490--6956552	20	3.2	20	90	2	101	30	41	3	25	1.71
6960883--6960911	14	2.0	15	93	6	51	48	10	0	41	1.37
6974223--6974247	12	2.1	12	100	0	50	36	0	0	64	0.94
6975573--6975705	52	2.5	51	75	6	131	26	11	13	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6984143--6984259	58	2.0	57	91	4	191	34	10	18	36	1.85
6988459--6988500	13	2.9	14	80	13	50	2	23	0	73	0.94
6988459--6988500	19	2.4	18	81	14	52	2	23	0	73	0.94
6990321--6990354	15	2.3	15	89	0	50	82	0	17	0	0.67
6990453--6990483	16	1.9	16	93	0	53	45	0	0	54	0.99
6990793--6990889	41	2.4	39	79	8	104	54	3	3	39	1.32
6990879--6990936	27	2.2	26	90	6	91	50	0	3	46	1.18
6991790--6991982	73	2.6	74	79	7	207	22	22	16	38	1.93
6993083--6993233	75	2.0	75	89	2	232	25	21	19	33	1.96
6994239--6994272	16	2.2	15	89	5	50	73	0	0	26	0.83
6994452--6994521	3	22.7	3	80	13	56	74	0	25	0	0.82
6994447--6994536	13	6.5	14	79	14	98	76	0	22	1	0.85
6994448--6994521	7	10.7	7	79	12	82	74	0	25	0	0.82
6994448--6994541	44	2.1	42	83	14	111	76	0	22	1	0.85
6994447--6994543	15	6.6	15	73	15	69	77	0	21	1	0.83
6994647--6994830	59	3.3	57	78	15	206	54	5	39	0	1.28
6994700--6994826	49	2.6	49	80	14	147	56	4	38	0	1.20
6994630--6994830	108	1.8	110	87	4	300	53	5	40	0	1.28
6994804--6994847	6	7.7	6	87	12	58	81	0	18	0	0.68
6994804--6994847	17	2.6	17	89	7	63	81	0	18	0	0.68
6997707--6997750	20	2.2	20	84	12	54	40	9	2	47	1.48
7006450--7006475	12	2.2	12	100	0	52	30	0	7	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7010379--7010487	37	2.9	37	87	2	130	25	35	10	28	1.88
7015702--7015737	15	2.4	15	90	0	54	27	13	13	44	1.82
7017639--7017677	14	2.9	14	88	3	53	53	0	0	46	1.00
7029724--7029762	18	2.2	18	85	0	51	41	2	7	48	1.45
7029767--7029829	20	3.2	20	90	2	101	30	41	3	25	1.71
7029828--7029937	43	2.6	43	86	2	141	20	35	17	26	1.95
7033067--7033120	25	2.2	25	89	0	81	27	16	31	24	1.96
7033067--7033130	25	2.6	25	84	0	74	28	17	31	23	1.97
7034919--7035121	92	2.2	92	84	2	248	37	32	9	20	1.86
7035296--7035564	43	6.3	43	86	1	333	26	15	30	27	1.96
7035296--7035564	129	2.1	129	87	0	385	26	15	30	27	1.96
7035604--7035644	2	21.0	2	95	5	75	48	0	0	51	1.00
7040447--7040647	91	2.2	92	84	3	264	38	30	8	22	1.85
7044179--7044363	41	4.6	41	77	10	163	24	15	35	24	1.94
7044502--7044640	69	2.0	69	97	2	262	20	15	28	35	1.93
7051599--7051713	33	3.4	33	90	3	167	30	26	11	31	1.91
7051724--7051803	35	2.3	35	84	0	97	46	27	5	21	1.72
7054449--7054492	22	2.0	22	86	8	63	40	6	20	31	1.79
7055238--7055383	41	3.6	41	78	9	149	23	14	35	26	1.93
7057596--7057629	13	2.5	14	90	4	52	0	20	2	76	0.92
7060375--7060507	42	3.1	43	88	3	198	27	35	15	21	1.94
7072577--7072640	25	2.4	25	84	7	74	21	20	32	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7072598--7072657	25	2.4	25	88	0	84	25	15	31	28	1.95
7074255--7074286	2	16.0	2	93	0	55	46	0	0	53	1.00
7075520--7075610	42	2.2	42	90	7	141	24	34	15	26	1.95
7082118--7082469	178	2.0	176	94	0	614	24	11	23	40	1.88
7089337--7089498	43	3.8	43	91	1	245	21	20	37	20	1.94
7089497--7089559	20	3.2	20	90	2	101	25	3	41	30	1.71
7093392--7093419	2	14.0	2	100	0	56	50	0	0	50	1.00
7093467--7093494	2	14.0	2	100	0	56	50	0	0	50	1.00
7105607--7105664	2	29.0	2	96	0	107	50	1	0	48	1.11
7109564--7109620	23	2.5	23	85	5	71	24	14	24	36	1.92
7109505--7109830	117	2.8	117	88	0	490	22	12	28	35	1.91
7109681--7109730	23	2.2	23	85	0	73	24	12	24	40	1.88
7109911--7109967	22	2.5	22	80	2	60	22	7	26	43	1.78
7110635--7110703	24	2.9	24	84	0	84	30	17	30	21	1.96
7113356--7113433	21	3.4	21	71	21	66	38	17	8	34	1.82
7113331--7113435	49	2.1	50	89	1	158	40	19	8	32	1.82
7127658--7127730	34	2.1	34	87	0	101	30	10	26	32	1.90
7134202--7134307	38	2.7	40	83	2	144	26	37	13	22	1.91
7134425--7134460	2	18.0	2	100	0	72	50	0	0	50	1.00
7148586--7148678	43	2.2	43	90	1	143	24	16	34	24	1.95
7150020--7150159	25	5.3	25	62	18	68	24	44	12	18	1.85
7149975--7150171	54	3.6	54	95	0	349	24	42	13	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7152380--7152434	25	2.2	25	90	3	83	14	23	14	47	1.81
7152634--7152680	24	1.9	25	83	12	62	34	25	12	27	1.92
7152655--7152782	34	3.7	33	78	9	132	34	25	14	26	1.94
7152940--7152987	25	1.9	25	83	8	62	25	25	6	43	1.77
7153226--7153273	19	2.5	18	77	12	51	0	18	8	72	1.08
7154995--7155039	24	1.9	23	86	4	63	68	4	22	4	1.25
7156734--7156891	79	2.0	77	96	3	298	20	30	16	32	1.94
7161308--7161354	22	2.2	22	92	3	78	29	14	23	31	1.95
7161545--7161600	23	2.4	23	87	0	76	30	39	5	25	1.78
7161608--7161717	43	2.6	43	82	2	123	20	34	17	27	1.95

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