genome.fa.s4.2.7.7.80.10.50.1000.43.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  43  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)
16003327--16003411	2	40.5	2	91	4	107	43	0	7	48	1.30
16009456--16009497	9	4.7	9	77	11	50	19	40	7	33	1.78
16009456--16009579	63	2.0	63	91	0	203	20	34	12	31	1.91
16009928--16010076	31	4.9	31	85	3	194	25	18	18	37	1.93
16009945--16010066	60	2.0	60	88	0	181	24	18	18	37	1.94
16016271--16016507	117	2.0	117	88	0	348	26	34	18	21	1.96
16018670--16018940	31	8.7	31	86	1	337	38	22	17	21	1.93
16018670--16019030	62	5.7	62	82	5	346	38	22	16	22	1.92
16018902--16018977	38	2.0	38	100	0	152	42	21	13	23	1.88
16018940--16019030	31	2.9	31	86	0	137	40	23	12	24	1.88
16018871--16019007	69	2.0	69	89	2	213	41	21	13	23	1.88
16019710--16019957	47	5.3	47	79	2	257	23	30	18	27	1.97
16019984--16020062	24	3.3	24	75	7	90	29	30	12	27	1.93
16019957--16020061	47	2.2	47	86	3	140	26	31	13	28	1.94
16021667--16021691	13	1.9	13	100	0	50	24	4	0	72	1.02
16026726--16026778	14	3.9	14	76	14	65	28	1	0	69	0.99
16026737--16026785	16	3.1	16	75	21	50	28	4	0	67	1.09
16026904--16026967	23	2.7	23	86	11	78	23	1	0	75	0.90
16026904--16026969	17	3.7	18	76	17	66	22	1	0	75	0.88
16027144--16027187	20	2.2	20	87	4	61	18	2	0	79	0.83
16028446--16028673	111	2.1	111	89	3	343	17	33	17	32	1.93
16028993--16029034	17	2.4	17	92	4	66	2	9	4	83	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16029174--16029245	37	1.9	37	83	5	92	44	19	15	20	1.86
16029164--16029333	86	2.0	87	90	3	272	37	16	13	32	1.88
16029261--16030177	190	4.7	187	81	9	914	43	17	15	22	1.87
16029261--16030026	37	20.0	37	79	8	757	43	18	15	22	1.87
16029593--16029623	13	2.4	13	100	0	62	51	9	6	32	1.60
16029525--16029694	87	2.0	87	86	2	243	45	16	15	22	1.85
16029556--16029659	50	2.1	50	85	0	136	45	14	13	26	1.82
16029972--16030089	55	2.2	54	88	11	197	48	13	14	22	1.79
16030036--16030187	36	4.1	37	82	5	173	44	17	16	22	1.87
16030044--16030187	74	2.0	73	87	4	209	43	17	17	21	1.88
16032474--16032502	12	2.4	12	100	0	58	58	0	6	34	1.25
16033160--16033222	13	4.9	13	79	11	67	73	1	4	20	1.11
16033161--16033217	21	2.9	21	76	19	61	73	1	5	19	1.11
16033502--16033561	31	1.9	32	83	12	81	71	0	5	23	1.05
16054388--16054440	14	3.9	14	76	14	65	28	1	0	69	0.99
16054399--16054447	16	3.1	16	75	21	50	28	4	0	67	1.09
16054568--16054628	15	3.9	15	80	18	63	22	1	0	75	0.89
16054566--16054628	24	2.4	27	84	7	69	22	1	0	76	0.88
16054565--16054627	21	2.9	22	79	15	69	23	1	0	74	0.90
16054916--16054951	17	2.1	17	89	5	54	16	2	2	77	1.00
16055075--16055114	21	1.9	21	85	10	55	27	2	0	70	1.01
16054863--16055267	205	2.0	206	95	1	724	27	12	10	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16055105--16055156	17	2.9	17	83	11	59	17	5	1	75	1.10
16055105--16055156	9	5.7	9	78	17	54	17	5	1	75	1.10
16055649--16055683	17	2.1	17	100	0	70	17	17	0	65	1.27
16056319--16056549	111	2.1	111	90	0	372	18	35	16	28	1.93
16056971--16057007	17	2.1	18	95	5	67	2	8	5	83	0.88
16063588--16063795	106	2.0	106	94	0	362	49	13	7	29	1.69
16067433--16067466	12	2.8	12	86	0	50	8	35	11	44	1.72
16079047--16079093	23	2.0	23	87	0	67	21	10	6	61	1.50
16085144--16085190	14	3.3	14	80	14	51	78	2	10	8	1.04
16086391--16086421	2	15.5	2	100	0	62	0	0	48	51	1.00
16089300--16089370	31	2.3	31	77	2	79	30	7	16	45	1.75
16093738--16093802	21	3.2	20	71	22	55	29	3	1	66	1.16
16096343--16096410	9	7.9	9	73	14	54	51	0	1	47	1.09
16100989--16101041	20	2.7	21	91	8	85	56	0	5	37	1.23
16106851--16106880	3	10.0	3	92	0	51	63	0	0	36	0.95
16110610--16110717	45	2.4	45	84	6	141	9	16	36	37	1.81
16111982--16112025	18	2.5	18	77	3	54	72	13	0	13	1.12
16112170--16112239	36	1.9	36	88	0	104	44	11	10	34	1.74
16118651--16118698	23	2.1	23	84	0	60	18	6	4	70	1.25
16118701--16118748	15	3.5	15	71	23	52	47	0	0	52	1.00
16119204--16119248	24	1.9	23	82	13	56	44	17	11	26	1.82
16119441--16119484	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16121566--16121596	13	2.4	13	100	0	62	45	9	16	29	1.79
16121739--16121804	33	2.0	34	88	8	102	68	0	4	27	1.09
16121752--16121856	55	1.9	55	84	11	144	63	0	4	31	1.15
16121834--16121900	25	2.8	24	69	22	61	64	0	2	32	1.09
16121821--16121912	39	2.4	36	78	10	103	67	0	4	28	1.10
16121825--16121930	47	2.3	45	79	7	106	64	0	4	30	1.20
16132204--16132287	40	2.1	41	82	10	111	33	3	20	42	1.69
16132217--16132331	40	2.9	38	79	14	117	33	4	18	43	1.70
16132828--16132865	19	2.0	19	94	0	67	28	0	28	42	1.56
16147682--16147813	64	2.1	64	98	0	255	37	16	13	31	1.88
16153044--16153247	111	1.8	112	87	3	304	44	9	12	33	1.75
16158151--16158253	45	2.3	45	81	5	118	35	12	20	31	1.90
16160183--16160228	19	2.4	20	85	10	69	54	0	4	41	1.20
16160190--16160228	19	2.1	19	95	4	71	51	0	5	43	1.24
16163526--16163572	21	2.3	21	81	3	60	53	0	8	38	1.32
16164469--16165558	544	2.0	544	93	0	1851	34	22	9	33	1.86
16166236--16166312	28	2.8	28	93	0	127	33	15	12	37	1.86
16167273--16167309	14	2.5	15	83	16	51	37	8	18	35	1.81
16167723--16167776	24	2.3	24	87	3	74	38	20	7	33	1.80
16168332--16168415	24	3.5	24	95	1	143	41	8	23	26	1.82
16170316--16170341	3	8.7	3	100	0	52	30	0	0	69	0.89
16170642--16170683	21	2.0	21	95	0	75	14	7	14	64	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16170636--16170790	72	2.2	72	95	0	274	30	6	14	49	1.68
16170714--16170755	21	2.0	21	95	0	75	14	7	14	64	1.48
16172942--16172985	19	2.3	19	88	4	61	43	0	9	47	1.35
16172952--16172992	19	2.2	19	86	0	55	43	0	7	48	1.30
16178632--16178780	54	2.8	54	81	4	174	18	30	28	21	1.97
16182697--16182742	21	2.2	20	88	3	65	82	10	2	4	0.89
16182689--16182750	21	3.2	19	82	8	63	82	8	1	8	0.91
16184169--16184211	17	2.5	17	96	0	77	23	18	0	58	1.40
16184906--16184993	44	2.0	43	88	2	131	51	10	9	29	1.67
16186143--16186195	15	3.3	16	78	7	54	22	7	9	60	1.53
16195159--16195217	29	2.0	29	96	0	109	35	11	13	38	1.82
16223872--16223986	41	2.8	41	85	2	160	39	18	17	25	1.92
16226706--16226746	6	6.8	6	97	0	73	63	17	2	17	1.42
16240282--16240387	44	2.4	44	82	3	124	27	10	20	41	1.85
16240282--16240387	22	4.8	22	82	2	97	27	10	20	41	1.85
16244085--16244201	43	2.7	43	77	2	119	29	17	23	28	1.97
16247665--16247962	45	6.7	45	73	7	173	41	25	9	23	1.84
16247645--16247726	23	3.6	23	78	4	87	35	31	10	21	1.89
16247671--16247875	22	9.2	22	72	8	85	40	25	10	23	1.87
16247714--16247881	89	1.9	89	82	7	216	42	23	10	23	1.85
16247669--16247891	67	3.3	68	70	9	188	40	25	10	24	1.86
16247872--16247952	23	3.6	23	70	9	85	41	27	6	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16248063--16248148	22	3.9	22	72	3	73	46	24	8	20	1.78
16248006--16248148	23	6.4	23	71	8	82	45	25	9	18	1.80
16248057--16248152	45	2.2	45	81	5	115	42	28	8	20	1.81
16248462--16248506	15	3.0	15	80	0	54	28	11	35	24	1.90
16249785--16249813	4	7.2	4	100	0	58	48	27	0	24	1.51
16252030--16252085	29	1.9	29	85	7	78	37	19	0	42	1.52
16252074--16252131	30	1.9	30	89	6	91	31	10	6	51	1.62
16253306--16253348	15	2.9	15	76	13	52	34	6	30	27	1.83
16256813--16256874	22	2.6	24	82	10	74	56	0	0	43	0.99
16260693--16260771	2	41.0	2	81	7	74	41	0	6	50	1.28

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