genome.fa.s5.2.7.7.80.10.50.1000.39.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  39  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)
13153847--13153916	31	2.3	31	95	2	124	37	22	17	22	1.94
13154938--13154980	13	3.3	13	80	0	50	37	2	4	55	1.33
13157006--13158565	146	10.6	147	96	1	2697	29	16	17	36	1.91
13160591--13160620	15	2.0	15	100	0	60	53	20	0	26	1.46
13163439--13163474	16	2.2	16	90	0	54	66	0	16	16	1.25
13164070--13164099	11	2.6	11	94	5	51	36	3	0	60	1.14
13164081--13164121	21	2.0	21	90	0	64	34	2	0	63	1.08
13179911--13179957	23	2.0	23	91	0	76	42	4	10	42	1.59
13180423--13180469	23	2.0	23	91	0	76	42	4	10	42	1.59
13181164--13181273	25	4.6	24	78	8	102	18	26	18	37	1.93
13181211--13181267	22	2.6	22	80	8	71	15	24	17	42	1.88
13186675--13186733	6	9.0	6	87	10	64	25	0	0	74	0.82
13186673--13186732	7	8.7	7	89	10	88	25	0	0	75	0.81
13186675--13186735	20	3.0	20	86	11	88	27	0	0	72	0.85
13188776--13188853	39	2.0	39	94	0	138	43	15	17	23	1.87
13190136--13190160	1	25.0	1	100	0	50	0	0	100	0	0.00
13196140--13196198	16	3.7	16	73	8	57	52	30	0	16	1.44
13196769--13196816	24	2.0	24	91	0	78	43	2	37	16	1.60
13201811--13201862	26	2.0	25	85	3	68	46	5	0	48	1.26
13206145--13206216	23	3.1	23	69	16	67	44	19	15	20	1.86
13211764--13211811	19	2.4	21	76	13	57	64	2	0	33	1.05
13215471--13215566	30	3.2	30	74	14	92	35	2	3	59	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13226811--13226995	99	1.9	93	84	7	221	27	18	18	33	1.95
13226995--13227329	108	3.1	109	87	3	455	31	16	17	34	1.92
13231847--13231923	29	2.6	29	82	12	86	25	14	15	44	1.84
13234428--13234452	12	2.1	12	100	0	50	24	36	24	16	1.94
13234612--13234688	9	8.4	9	83	8	84	40	25	9	24	1.85
13241719--13241749	10	2.9	11	90	9	55	29	6	19	45	1.75
13244368--13244392	12	2.1	12	100	0	50	24	8	0	68	1.16
13246814--13246914	51	2.0	51	84	3	132	17	22	28	30	1.97
13249539--13249564	11	2.4	11	100	0	52	38	0	0	61	0.96
13249517--13249613	40	2.4	39	88	5	140	34	2	0	63	1.06
13249548--13249614	29	2.2	31	81	7	84	34	2	0	62	1.10
13249579--13249604	11	2.4	11	100	0	52	38	7	0	53	1.30
13252135--13252979	98	8.6	98	99	0	1645	36	25	10	27	1.89
13265256--13265365	19	5.8	19	87	0	166	38	15	10	35	1.83
13277339--13277396	29	2.0	30	93	3	100	43	10	12	34	1.76
13285095--13285272	73	2.5	72	81	4	198	25	24	22	27	2.00
13285229--13285493	114	2.3	114	83	3	311	27	23	21	27	1.99
13286818--13286844	14	1.9	14	100	0	54	51	0	3	44	1.19
13286862--13287167	43	7.2	43	81	4	350	23	18	29	27	1.98
13286862--13287167	85	3.6	84	82	3	344	23	18	29	27	1.98
13286862--13287167	128	2.4	126	83	5	355	23	18	29	27	1.98
13287698--13287849	78	1.9	78	96	2	279	37	4	38	19	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13287723--13287848	40	3.2	40	69	13	125	40	3	37	18	1.69
13288202--13288232	15	2.1	15	100	0	62	16	6	6	70	1.29
13288397--13288519	7	16.9	7	70	14	61	39	40	0	19	1.57
13288397--13288519	22	5.6	22	74	12	92	39	40	0	19	1.57
13288498--13288535	15	2.6	15	83	4	51	44	28	0	26	1.54
13288650--13288778	7	18.0	7	74	7	89	41	39	0	18	1.56
13288647--13288729	36	2.3	35	83	2	94	40	39	0	19	1.51
13288650--13288768	21	5.5	21	75	4	103	41	39	0	18	1.56
13289113--13289328	41	5.3	41	88	4	292	29	26	21	22	1.99
13289362--13289455	39	2.4	40	81	10	106	20	19	23	37	1.94
13289362--13289450	40	2.2	41	82	9	105	21	20	24	33	1.97
13289700--13289773	33	2.2	33	90	0	112	36	18	12	32	1.88
13290773--13290799	1	27.0	1	100	0	54	0	0	0	100	0.00
13294269--13294316	21	2.2	22	78	10	55	45	0	2	52	1.12
13301430--13301582	43	3.6	43	75	10	163	30	28	18	22	1.97
13315549--13315610	31	2.0	32	90	6	101	40	16	11	32	1.83
13317564--13317730	39	4.4	36	74	15	124	30	6	2	60	1.35
13317633--13317738	9	11.4	9	73	13	74	30	4	1	63	1.26
13317633--13317750	9	12.3	10	70	12	52	28	5	1	64	1.24
13317564--13317731	19	8.8	18	71	16	92	30	6	2	60	1.35
13317585--13317739	38	4.1	36	75	15	127	30	6	1	61	1.32
13317640--13317757	19	6.2	19	75	10	82	29	5	1	63	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13325889--13325939	12	4.2	12	82	9	59	50	5	23	19	1.69
13352802--13353036	81	2.9	81	87	2	348	33	25	10	31	1.90
13357206--13357249	22	2.0	22	90	0	70	11	20	25	43	1.85
13357365--13357436	31	2.3	31	95	0	126	18	26	27	27	1.98
13357449--13357562	43	2.7	43	90	1	176	28	34	18	19	1.95
13357449--13357586	43	3.2	43	86	1	170	31	33	16	18	1.94
13363511--13363661	41	3.7	41	94	0	268	29	27	21	21	1.99
13368364--13368483	23	5.4	22	77	7	127	38	23	20	17	1.93
13368365--13368483	46	2.7	45	90	5	188	37	23	21	17	1.94
13371536--13373342	46	39.3	46	99	0	3485	37	23	21	17	1.94
13377662--13377972	43	7.3	43	83	2	374	26	28	16	28	1.97
13377662--13377972	128	2.4	129	84	1	401	26	28	16	28	1.97
13380008--13380049	22	1.9	21	85	9	57	33	0	11	54	1.37
13382303--13382340	7	5.4	7	81	12	51	31	50	2	15	1.58
13382411--13382507	48	2.0	48	93	0	167	38	22	6	32	1.79
13382585--13382632	25	1.9	25	95	0	87	62	2	0	35	1.07
13382702--13382777	7	10.9	7	78	10	75	32	43	0	23	1.54
13382670--13382777	14	7.6	14	75	9	67	35	39	0	25	1.56
13382698--13382777	21	3.8	21	81	6	90	33	42	0	23	1.55
13382743--13382794	15	3.5	15	86	5	61	32	36	0	30	1.58
13383004--13383058	25	2.2	25	75	12	60	21	9	7	61	1.50
13383107--13383140	18	1.9	17	88	5	50	64	8	2	23	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13383143--13383333	41	4.8	40	81	7	217	29	28	20	20	1.98
13383143--13383333	81	2.4	79	84	4	240	29	28	20	20	1.98
13384669--13384893	118	1.9	118	90	3	364	40	7	7	44	1.60
13384783--13385227	138	3.2	138	91	0	719	40	8	6	44	1.61
13384549--13385222	256	2.5	260	86	5	926	40	8	6	44	1.61
13384997--13385210	71	3.1	71	63	26	184	41	7	6	44	1.59
13385002--13385216	67	3.1	67	64	21	174	40	8	6	44	1.60
13393107--13393166	29	2.1	29	100	0	120	21	10	20	48	1.78
13403303--13403461	45	3.6	45	81	5	171	35	28	13	22	1.92
13409890--13409960	20	3.5	20	68	0	61	35	21	29	14	1.92
13415182--13415256	26	2.9	26	82	9	82	36	16	6	41	1.74
13418086--13418238	25	6.1	25	76	8	150	26	18	20	33	1.96
13418086--13418232	75	2.0	75	82	5	181	27	19	20	33	1.96
13426572--13426614	12	3.6	12	87	0	59	18	20	0	60	1.36
13426657--13426698	12	3.7	12	81	18	54	11	16	2	69	1.29
13427719--13427763	13	3.5	13	88	11	67	11	2	6	80	0.99
13427720--13427751	12	2.7	12	100	0	64	12	0	6	81	0.87
13434195--13434373	52	3.5	51	84	4	238	26	28	16	28	1.97
13434195--13434373	51	3.5	50	83	8	229	26	28	16	28	1.97
13438454--13438515	26	2.4	26	91	0	97	38	12	12	35	1.82
13440264--13440296	16	2.1	16	94	0	57	57	15	9	18	1.63
13443555--13443585	13	2.4	13	94	0	53	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13444832--13444885	25	2.1	26	89	3	83	29	1	7	61	1.34
13444956--13444987	16	2.0	16	93	0	55	28	6	0	65	1.16
13451361--13451469	55	2.0	55	92	0	182	38	4	19	37	1.72
13451765--13451794	14	2.1	14	93	0	51	20	16	26	36	1.93
13456366--13456410	21	2.1	21	100	0	90	33	13	20	33	1.91
13457454--13457566	54	2.1	54	81	3	129	24	26	22	26	2.00
13457520--13457608	42	2.1	42	85	0	115	26	29	19	24	1.98
13464626--13464674	20	2.5	20	96	0	89	22	24	0	53	1.47
13466403--13466435	5	6.6	5	100	0	66	39	0	0	60	0.97
13466523--13466565	23	1.9	22	81	13	52	27	20	4	46	1.71

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