genome.fa.s5.2.7.7.80.10.50.1000.28.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  28  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)
9311458--9311520	28	2.2	28	91	5	101	41	6	20	31	1.77
9314375--9314424	25	2.0	25	92	0	82	40	16	12	32	1.84
9314669--9314710	17	2.5	17	84	7	59	71	9	7	11	1.31
9320202--9320230	6	4.8	6	100	0	58	0	51	31	17	1.45
9324074--9324126	27	2.0	27	84	0	70	20	20	20	37	1.94
9325173--9325239	28	2.4	28	79	0	71	29	19	11	38	1.88
9329692--9329772	42	1.9	42	92	0	135	28	27	17	27	1.97
9342538--9342760	111	2.0	111	92	3	369	34	13	13	39	1.83
9344518--9344550	17	2.0	17	88	5	50	57	0	6	36	1.23
9351766--9351804	18	2.2	17	86	13	53	33	0	20	46	1.51
9352034--9352109	23	3.3	23	81	0	107	22	19	27	30	1.98
9358327--9358422	31	3.1	31	80	4	104	41	1	5	52	1.31
9361523--9361568	18	2.4	20	82	7	60	56	0	4	39	1.19
9363145--9363190	18	2.4	20	82	7	60	56	0	4	39	1.19
9364365--9364418	22	2.6	20	82	5	63	66	1	1	29	1.12
9368087--9368184	28	3.5	28	93	6	164	38	13	0	47	1.42
9368256--9368326	27	2.6	27	95	0	124	28	28	28	15	1.96
9368365--9368513	20	7.6	19	71	21	112	65	0	34	0	0.93
9368369--9368451	22	3.6	22	84	9	103	63	0	36	0	0.94
9368364--9368548	14	13.3	14	69	18	86	66	0	33	0	0.92
9368371--9368533	40	4.1	40	79	16	162	66	0	33	0	0.92
9368355--9368532	44	4.3	43	75	19	157	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9368362--9368533	79	2.2	80	82	8	221	67	0	32	0	0.91
9368566--9368603	19	2.0	19	85	10	51	31	0	7	60	1.25
9369095--9369131	16	2.2	17	90	4	58	75	5	5	13	1.15
9369084--9369193	40	2.7	41	69	17	95	63	3	7	25	1.37
9368880--9369357	239	2.0	238	95	0	857	55	4	11	28	1.54
9371095--9371216	26	4.7	26	100	0	244	23	18	8	49	1.75
9375094--9375141	3	15.7	3	91	4	78	62	4	0	33	1.14
9375183--9375212	12	2.5	12	100	0	60	70	10	0	20	1.16
9375187--9375237	21	2.4	20	84	15	59	66	7	0	25	1.18
9375377--9375475	27	3.7	27	93	0	162	18	26	29	26	1.98
9375549--9375649	29	3.5	29	86	8	152	50	0	10	38	1.38
9376665--9376734	36	1.9	36	82	2	86	34	7	20	38	1.80
9379795--9380046	114	2.2	114	87	0	353	24	21	28	26	1.99
9379976--9380065	41	2.2	41	91	0	144	22	17	31	28	1.97
9380253--9380360	38	2.8	39	79	6	114	20	0	41	37	1.59
9393739--9393810	21	3.4	21	83	5	92	38	16	43	1	1.57
9393782--9393807	12	2.2	12	100	0	52	42	15	42	0	1.47
9394225--9394307	42	2.0	42	90	0	130	30	24	19	26	1.98
9394435--9394686	42	6.0	42	89	4	341	24	24	20	30	1.99
9394102--9394514	209	2.0	209	92	0	693	34	16	19	30	1.94
9394435--9394683	127	2.0	127	86	6	353	24	24	20	30	1.99
9405268--9405328	31	2.0	31	90	0	95	26	14	19	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9406513--9406600	37	2.4	37	84	1	104	20	17	14	47	1.82
9416760--9416827	22	3.1	21	81	10	66	23	26	30	19	1.98
9421047--9421083	15	2.4	16	90	4	58	54	0	5	40	1.24
9434727--9434813	44	2.0	44	97	0	165	25	24	9	41	1.84
9436203--9436229	11	2.5	11	100	0	54	51	22	11	14	1.73
9436246--9436274	2	14.5	2	100	0	58	51	0	48	0	1.00
9441398--9441430	11	2.8	12	86	9	50	0	15	6	78	0.93
9442544--9442597	28	2.0	28	88	3	83	31	14	22	31	1.94
9442704--9442810	26	4.1	26	93	2	180	34	25	20	19	1.96
9442976--9443115	27	5.2	27	79	0	172	21	15	20	42	1.88
9442976--9443107	54	2.4	54	89	0	201	21	15	20	42	1.89
9444800--9444895	50	1.9	50	89	4	149	41	11	15	31	1.83
9446412--9446451	13	3.1	13	100	0	80	30	0	22	47	1.52
9447586--9447698	43	2.7	42	77	12	106	23	19	28	29	1.98
9448639--9448663	2	12.5	2	100	0	50	48	0	0	52	1.00
9450472--9450545	32	2.3	33	79	11	82	39	8	9	43	1.67
9453790--9453828	19	2.1	19	100	0	78	43	5	15	35	1.69
9464831--9464881	25	2.0	25	100	0	102	41	11	35	11	1.78
9478055--9478107	3	17.7	3	88	0	52	58	3	7	30	1.43
9481549--9481639	43	2.1	44	82	10	107	37	30	13	18	1.89
9483363--9483453	41	2.2	41	90	0	146	30	14	10	43	1.80
9486745--9486781	20	1.9	20	88	5	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9487270--9487307	19	2.1	18	90	9	60	60	2	0	36	1.11
9488109--9488152	18	2.5	17	82	10	52	38	2	2	56	1.24
9488521--9488558	19	2.1	18	90	5	58	26	0	7	65	1.19
9489247--9489278	16	1.9	17	93	6	57	46	0	0	53	1.00
9489300--9489329	15	1.9	16	93	6	53	50	6	6	36	1.55
9492538--9492585	25	2.0	25	87	4	71	16	25	20	37	1.93
9496680--9497121	109	4.1	109	94	0	762	31	16	17	34	1.92
9498038--9498073	16	2.2	16	95	0	63	22	16	19	41	1.90
9505390--9505433	21	2.1	21	100	0	88	38	18	13	29	1.89
9507747--9507943	108	1.8	108	82	4	254	25	16	11	45	1.81
9508395--9508741	40	8.2	43	71	11	254	31	23	20	24	1.98
9508395--9508739	126	2.7	126	96	0	629	31	24	20	24	1.98
9511018--9511449	109	4.0	107	87	5	642	32	16	17	33	1.92
9511018--9511449	212	2.0	212	91	2	704	32	16	17	33	1.92
9516028--9516062	11	3.1	12	88	12	56	34	0	0	65	0.93
9518771--9518816	15	2.9	17	78	12	53	47	0	19	32	1.50
9532194--9532240	24	2.0	23	84	12	60	44	8	21	25	1.80
9538811--9538870	24	2.5	24	83	0	75	16	38	5	40	1.71
9547085--9547161	38	2.0	38	100	0	154	49	10	12	27	1.74
9552427--9552492	32	2.1	32	100	0	132	40	9	21	28	1.83
9557690--9557753	25	2.6	25	80	14	87	25	23	20	31	1.98
9573250--9573323	26	2.7	27	91	4	114	44	0	9	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9573667--9573719	23	2.5	20	77	19	61	37	5	0	56	1.23
9573674--9573719	23	2.0	23	87	8	67	39	6	0	54	1.26
9574052--9574098	16	3.0	17	76	20	57	36	2	2	59	1.21
9582619--9582690	32	2.2	33	82	7	85	29	2	15	52	1.56
9585780--9585828	24	2.0	25	84	8	64	18	2	8	71	1.21
9586091--9586738	100	6.5	100	87	2	798	24	18	23	33	1.97
9586133--9586716	50	11.7	50	69	3	368	23	17	23	34	1.96
9588017--9588066	7	7.0	7	76	19	50	16	12	0	72	1.13
9588019--9588067	15	3.3	15	81	18	59	14	10	0	75	1.04
9588018--9588067	21	2.3	22	82	6	66	16	10	0	74	1.08
9588027--9588071	13	3.4	13	82	14	56	13	11	0	75	1.05
9588017--9588071	27	2.0	27	86	6	76	14	12	0	72	1.12
9590994--9591386	109	3.6	109	85	1	520	24	16	27	31	1.96
9592834--9592910	20	3.7	20	82	6	91	27	29	32	10	1.90
9612397--9612458	24	2.6	24	77	10	72	25	20	30	22	1.98
9612513--9612715	24	8.5	24	88	2	266	22	22	39	15	1.92
9619427--9619639	91	2.3	92	80	6	229	17	21	19	41	1.90
9619484--9619641	46	3.5	46	85	2	203	15	20	18	44	1.86
9619484--9619684	45	4.4	45	81	3	170	17	20	18	42	1.89
9632490--9632633	17	7.7	17	66	27	62	29	2	22	44	1.67
9632461--9632675	39	5.5	39	90	1	333	29	3	22	45	1.68
9642550--9642584	15	2.2	16	90	5	54	65	5	5	22	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9642802--9642850	19	2.6	18	81	9	55	71	0	10	18	1.13
9646154--9646179	11	2.4	11	100	0	52	73	15	0	11	1.11
9652705--9652748	22	2.0	22	82	8	54	52	18	6	22	1.69
9653134--9653222	41	2.2	41	81	0	106	24	23	33	17	1.96
9655274--9655316	19	2.3	18	81	18	52	34	23	20	20	1.96
9655910--9655980	21	3.4	21	82	3	90	33	21	29	15	1.94
9668677--9668705	15	1.9	15	100	0	58	34	6	13	44	1.71
9668610--9668798	104	1.8	104	97	0	360	41	11	18	28	1.85
9676968--9677055	45	1.9	46	81	2	106	39	5	21	32	1.77
9677059--9677100	6	6.8	6	91	2	66	54	0	28	16	1.42

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