genome.fa.s32.2.7.7.80.10.50.1000.26.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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   

This is table  26  of  33  ( 3877 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)
3771145--3771218	17	4.1	17	79	20	71	2	4	10	82	0.90
3784189--3784235	22	2.1	23	84	4	60	42	12	19	25	1.86
3785183--3785259	20	3.8	20	83	6	93	41	11	14	32	1.82
3786878--3786929	20	2.6	20	84	0	68	36	11	9	42	1.74
3787240--3787338	52	1.9	52	85	0	135	35	18	24	22	1.96
3787180--3787382	95	2.1	95	87	0	289	32	16	25	26	1.96
3787383--3787572	52	3.8	52	78	12	218	32	16	26	24	1.96
3787195--3787518	136	2.4	136	86	1	441	32	16	25	25	1.97
3787348--3787952	95	6.7	90	82	8	641	30	18	25	25	1.98
3787180--3787645	231	2.0	231	91	1	756	32	17	25	25	1.97
3787434--3787946	179	2.9	175	83	9	643	30	18	25	25	1.98
3787530--3787682	84	1.9	82	83	5	202	32	20	21	25	1.98
3787536--3787684	41	3.7	40	78	5	147	30	19	23	26	1.98
3787789--3788030	128	1.9	129	88	4	373	28	17	27	26	1.98
3787879--3787982	38	2.7	38	93	0	172	25	19	29	25	1.98
3787955--3788092	51	2.7	51	79	2	141	33	15	25	25	1.95
3788169--3788344	27	6.0	27	74	19	129	32	13	31	22	1.92
3788149--3788444	61	4.8	62	80	10	311	35	12	30	21	1.91
3788158--3788755	34	18.6	32	74	14	403	37	12	29	20	1.89
3788319--3788746	67	6.5	66	74	11	299	38	12	28	20	1.89
3788513--3788570	27	2.1	27	96	0	107	36	12	31	20	1.89
3788446--3788616	94	1.8	94	83	5	229	38	11	30	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3788776--3788847	31	2.3	31	82	4	90	36	13	26	23	1.93
3790046--3790118	21	3.5	19	75	21	58	4	4	12	79	1.01
3790059--3790125	19	3.2	20	73	21	57	5	4	13	76	1.13
3794919--3794982	27	2.4	27	86	0	83	23	23	29	23	1.99
3795446--3795503	13	4.0	13	74	23	53	34	15	17	32	1.91
3795427--3795502	32	2.4	32	93	0	125	34	14	15	35	1.88
3795427--3795489	19	3.7	18	74	24	64	34	12	15	36	1.86
3795519--3795573	20	2.8	20	83	5	67	34	16	10	38	1.84
3797028--3797066	21	1.9	20	89	5	60	53	0	0	46	1.00
3803495--3803535	20	2.2	19	86	8	57	80	2	9	7	0.99
3803519--3803552	14	2.4	14	95	5	59	76	0	17	5	0.98
3803626--3803661	11	3.4	10	85	14	54	0	16	0	83	0.65
3803627--3803677	23	2.3	22	83	10	59	3	17	1	76	1.03
3803700--3803765	12	5.8	11	79	12	71	4	16	0	78	0.90
3803695--3803770	21	3.5	21	77	13	73	6	14	0	78	0.93
3803848--3803888	17	2.6	16	85	11	57	31	0	0	68	0.90
3804072--3804110	3	13.0	3	88	0	60	28	0	5	66	1.12
3807143--3807174	2	16.0	2	100	0	64	50	0	50	0	1.00
3807991--3808018	2	14.0	2	100	0	56	0	50	0	50	1.00
3809318--3809346	2	15.0	2	92	7	51	51	0	0	48	1.00
3811740--3811801	32	1.9	33	90	3	99	41	19	11	27	1.85
3811417--3812760	671	2.0	671	99	0	2643	39	15	13	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3814674--3814723	21	2.3	21	80	10	57	56	4	18	22	1.58
3816525--3816555	15	2.1	15	93	0	53	48	16	22	12	1.80
3818369--3818394	13	2.0	13	100	0	52	30	15	15	38	1.88
3820930--3820991	32	1.9	33	90	3	99	41	19	11	27	1.85
3826605--3826657	20	2.7	20	88	5	72	41	15	15	28	1.87
3827750--3827817	19	3.9	19	78	21	85	35	11	14	38	1.83
3827752--3827814	32	2.0	32	96	0	117	34	12	15	36	1.86
3827771--3827795	13	1.9	13	100	0	50	36	16	16	32	1.90
3827857--3827882	13	2.0	13	100	0	52	30	15	15	38	1.88
3827837--3827903	33	2.0	33	88	0	98	25	14	16	43	1.86
3830309--3830702	107	3.7	106	72	11	318	27	27	14	30	1.95
3830419--3830588	52	3.3	53	78	11	181	28	25	13	32	1.94
3830251--3830587	104	3.2	103	70	13	281	29	25	12	31	1.93
3830246--3830695	212	2.1	212	86	4	622	28	26	13	31	1.94
3830602--3830804	79	2.6	78	82	4	230	24	29	16	29	1.96
3843216--3843252	13	2.8	13	91	4	56	86	5	8	0	0.70
3843219--3843260	22	1.9	22	90	9	68	85	7	7	0	0.73
3843215--3843270	25	2.2	24	82	17	62	83	7	8	0	0.80
3844252--3845149	55	16.3	55	90	5	1356	28	30	20	20	1.97
3844502--3844589	29	3.1	29	61	26	71	26	35	19	19	1.95
3844905--3844993	26	3.3	26	67	22	74	28	33	17	20	1.95
3846013--3846080	19	3.9	19	78	21	85	35	11	14	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3846015--3846077	32	2.0	32	96	0	117	34	12	15	36	1.86
3846034--3846058	13	1.9	13	100	0	50	36	16	16	32	1.90
3846120--3846145	13	2.0	13	100	0	52	30	15	15	38	1.88
3846100--3846166	33	2.0	33	88	0	98	25	14	16	43	1.86
3848624--3848692	27	2.5	27	88	2	93	24	31	21	21	1.98
3848569--3848962	107	3.7	105	72	11	325	27	27	14	30	1.95
3848679--3848848	52	3.3	53	77	14	174	28	24	13	32	1.93
3848511--3848847	104	3.2	103	70	13	281	29	25	12	31	1.93
3848511--3848915	212	1.9	212	88	3	618	28	26	13	31	1.94
3848862--3849064	79	2.6	79	82	3	230	24	30	16	29	1.96
3852210--3852234	13	1.9	13	100	0	50	36	16	16	32	1.90
3852190--3852256	33	2.0	33	88	0	98	32	11	14	40	1.83
3852297--3852321	13	1.9	13	100	0	50	32	16	16	36	1.90
3852330--3852458	52	2.5	52	94	0	222	34	17	17	30	1.94
3866477--3866597	52	2.3	52	97	0	224	28	18	18	34	1.94
3866477--3866617	52	2.7	51	90	4	212	30	17	18	33	1.94
3866606--3866630	13	1.9	13	100	0	50	36	16	16	32	1.90
3866670--3866739	33	2.1	33	89	0	104	40	14	11	34	1.82
3866695--3866719	13	1.9	13	100	0	50	32	16	16	36	1.90
3869346--3869466	52	2.3	52	97	0	224	28	18	18	34	1.94
3869346--3869486	52	2.7	51	90	4	212	30	17	18	33	1.94
3869475--3869499	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869539--3869608	33	2.1	33	89	0	104	40	14	11	34	1.82
3869564--3869588	13	1.9	13	100	0	50	32	16	16	36	1.90
3872215--3872335	52	2.3	52	97	0	224	28	18	18	34	1.94
3872215--3872355	52	2.7	51	90	4	212	30	17	18	33	1.94
3872344--3872368	13	1.9	13	100	0	50	36	16	16	32	1.90
3872408--3872477	33	2.1	33	89	0	104	40	14	11	34	1.82
3872433--3872457	13	1.9	13	100	0	50	32	16	16	36	1.90
3875650--3875733	1	84.0	1	71	0	51	84	11	3	0	0.74
3875652--3875733	20	4.2	20	83	10	98	84	12	3	0	0.75
3875650--3875729	15	5.5	14	77	16	74	83	12	3	0	0.77
3877171--3877545	59	6.3	59	76	10	309	29	29	16	24	1.96
3877171--3877545	28	12.6	30	77	9	261	29	29	16	24	1.96
3877389--3877571	28	6.3	29	87	5	214	34	27	16	21	1.95
3877645--3877781	52	3.0	44	75	16	141	24	27	18	29	1.98
3877594--3877781	95	2.0	95	88	4	281	24	26	19	29	1.98
3878595--3878619	13	1.9	13	100	0	50	36	16	16	32	1.90
3878575--3878641	33	2.0	33	88	0	98	32	11	14	40	1.83
3883570--3883609	21	2.0	21	95	5	73	40	10	22	27	1.86
3886538--3886598	20	3.0	20	90	9	88	21	14	16	47	1.82
3886955--3886985	9	3.4	9	100	0	62	22	0	19	58	1.40
3887546--3887600	20	2.8	20	82	0	74	32	18	14	34	1.91
3887667--3887724	20	2.8	22	79	12	77	39	15	12	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3890231--3890303	32	2.3	32	87	0	110	35	9	17	36	1.83
3890320--3890361	21	2.0	21	100	0	84	42	9	19	28	1.82
3892691--3892874	51	3.6	51	81	5	235	32	25	10	32	1.89
3892861--3892932	27	2.6	28	82	8	94	25	33	18	23	1.97
3892690--3892984	52	5.6	51	71	13	224	29	27	11	31	1.92
3892891--3893060	79	2.1	80	90	1	261	27	27	14	30	1.95
3892996--3893111	51	2.3	51	80	3	126	29	24	14	31	1.95
3893095--3893170	28	2.7	28	87	4	100	23	34	18	23	1.96
3892758--3893259	237	2.1	239	85	3	665	27	26	13	32	1.94
3893125--3893327	79	2.6	78	80	8	225	25	28	15	30	1.96

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