genome.fa.s8.2.7.7.80.10.50.1000.10.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: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  10  of  19  ( 2280 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)
3705290--3705332	16	2.8	16	86	10	54	37	0	0	62	0.95
3705636--3705797	23	7.1	23	70	20	92	39	1	1	58	1.14
3705629--3705730	47	2.2	46	76	10	102	38	1	0	58	1.16
3705592--3705804	115	1.8	117	86	8	310	37	1	2	58	1.20
3706155--3706210	14	4.1	14	74	4	51	35	0	5	58	1.21
3713954--3713986	15	2.1	16	88	5	50	75	3	0	21	0.93
3714182--3714240	15	3.5	15	72	24	55	45	0	0	54	0.99
3714187--3714228	23	1.9	22	85	9	59	50	0	0	50	1.00
3714184--3714264	36	2.2	36	100	0	162	48	0	0	51	1.00
3714223--3714265	23	2.0	22	86	9	61	51	0	0	48	1.00
3724849--3724966	30	4.1	29	76	6	105	38	0	1	59	1.08
3724866--3724911	21	2.1	22	84	4	58	32	0	0	67	0.91
3724847--3724965	60	2.0	58	81	3	139	40	0	1	57	1.08
3728932--3729117	94	2.0	95	93	1	320	27	18	17	36	1.93
3748827--3748887	28	2.2	28	88	2	88	47	9	8	34	1.66
3762431--3762702	134	2.0	134	88	4	406	35	18	15	31	1.91
3763109--3763142	17	2.1	17	88	5	52	20	2	0	76	0.92
3763240--3763294	28	2.0	28	85	0	74	27	12	0	60	1.33
3764077--3764125	17	2.9	16	80	16	55	8	18	2	71	1.21
3764069--3764126	24	2.5	24	74	2	64	6	17	1	74	1.12
3764929--3765008	39	2.1	39	100	0	160	60	15	2	22	1.47
3769569--3769606	20	2.1	19	85	14	53	5	13	5	76	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3776756--3776798	23	2.0	23	90	9	72	69	13	4	11	1.33
3794636--3794665	2	15.0	2	100	0	60	50	0	0	50	1.00
3794647--3794783	68	2.0	69	92	7	235	41	17	12	28	1.86
3796026--3796060	2	17.5	2	100	0	70	51	0	0	48	1.00
3796071--3796100	2	15.0	2	100	0	60	50	0	0	50	1.00
3800347--3800379	16	2.1	16	94	0	57	6	15	0	78	0.93
3804727--3804751	4	6.2	4	100	0	50	52	24	0	24	1.48
3807027--3807097	37	1.9	37	82	5	90	45	22	19	12	1.84
3807675--3807791	62	1.9	62	89	0	180	22	14	11	51	1.75
3808834--3808930	50	1.9	50	83	4	124	27	17	11	43	1.83
3810377--3810403	2	13.5	2	100	0	54	51	0	0	48	1.00
3821153--3821177	13	1.9	13	100	0	50	44	8	32	16	1.76
3826276--3826321	22	2.1	21	88	4	65	52	0	2	45	1.13
3835639--3835669	15	2.1	15	100	0	62	41	12	12	32	1.81
3851351--3851396	24	1.9	24	81	0	56	43	8	4	43	1.55
3851933--3851963	2	15.5	2	100	0	62	48	0	0	51	1.00
3867865--3867909	21	2.2	20	84	8	54	66	2	0	31	1.04
3869394--3869450	30	1.9	30	85	0	78	38	12	12	36	1.80
3874572--3874629	28	2.1	28	83	0	71	58	0	10	31	1.31
3875597--3875658	30	2.1	30	84	0	79	32	17	6	43	1.75
3876001--3876113	57	2.0	57	84	3	147	29	15	16	38	1.90
3876006--3876126	57	2.1	57	78	3	136	31	15	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3891636--3891668	18	1.9	17	88	11	50	30	0	0	69	0.88
3892199--3892285	34	2.6	32	83	10	102	29	2	0	67	1.03
3892320--3892400	33	2.5	34	83	15	86	27	3	1	67	1.14
3901080--3901130	25	2.0	25	85	14	70	37	1	17	43	1.61
3901780--3901809	3	10.0	3	92	0	51	63	0	36	0	0.95
3920055--3920086	16	2.1	16	88	11	50	0	12	6	81	0.87
3932256--3932288	2	17.0	2	93	6	59	48	0	0	51	1.00
3934733--3934769	2	18.5	2	94	0	65	51	0	0	48	1.00
3941924--3942103	89	2.0	90	94	1	317	40	20	11	27	1.87
3952007--3952033	4	6.8	4	100	0	54	77	0	22	0	0.76
3953130--3953175	18	2.5	19	82	13	60	43	2	4	50	1.34
3953784--3953823	19	2.0	19	85	9	53	50	0	0	50	1.00
3953881--3953940	27	2.3	26	80	8	61	46	1	1	50	1.21
3953897--3953949	27	2.0	27	88	0	79	52	3	0	43	1.19
3954037--3954106	33	2.2	32	82	7	81	45	14	0	40	1.45
3960107--3960147	16	2.4	17	80	19	50	41	0	19	39	1.52
3960809--3960880	28	2.6	27	78	6	81	31	11	26	30	1.91
3976855--3976884	6	5.0	6	91	0	51	63	16	3	16	1.44
3984003--3984071	34	2.0	34	97	0	129	59	13	8	18	1.59
3986696--3986728	2	16.5	2	100	0	66	48	0	0	51	1.00
4012014--4012060	21	2.2	20	79	17	51	21	2	8	68	1.27
4018747--4018803	15	3.8	15	95	0	105	57	5	1	35	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4018826--4018870	23	2.0	23	90	0	72	68	0	0	31	0.89
4018828--4018870	12	3.6	12	81	9	52	72	0	0	27	0.85
4019083--4019197	55	2.1	53	84	6	142	28	3	1	66	1.18
4019168--4019199	15	2.1	15	94	0	55	31	0	0	68	0.90
4026591--4026632	3	14.0	3	100	0	84	33	0	33	33	1.58
4038747--4038888	74	1.9	74	88	0	212	41	4	8	45	1.56
4040074--4040102	14	2.1	14	93	6	51	44	0	0	55	0.99
4045161--4045198	20	1.9	20	100	0	76	31	15	15	36	1.90
4050112--4050407	28	10.0	29	67	12	111	62	3	1	32	1.22
4050562--4050603	22	1.9	22	90	0	66	52	4	4	38	1.44
4050061--4050692	119	5.3	119	95	0	1072	59	3	1	34	1.25
4050669--4050769	39	2.5	40	85	7	125	54	0	0	43	1.13
4050735--4050800	27	2.4	27	87	9	91	57	1	1	39	1.17
4050551--4050890	157	2.2	156	84	7	442	56	2	2	39	1.24
4050860--4050898	18	2.2	18	86	9	53	58	0	2	38	1.12
4050870--4050919	18	3.0	16	83	13	57	64	0	0	36	0.94
4050436--4051003	274	2.1	270	81	9	662	57	2	2	37	1.27
4050749--4051036	106	2.7	105	84	7	343	58	2	2	36	1.24
4051423--4051452	2	15.0	2	100	0	60	50	0	0	50	1.00
4057643--4057685	3	14.3	3	95	0	50	32	9	0	58	1.30
4059371--4059417	24	2.0	24	87	8	69	72	0	2	25	0.96
4059486--4059657	27	6.2	26	71	16	107	63	1	3	31	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4059563--4059633	21	3.4	22	83	12	96	67	0	0	32	0.91
4059535--4059713	53	3.1	58	70	16	165	61	1	2	34	1.18
4059486--4059713	113	2.0	113	93	1	386	62	1	3	32	1.20
4061096--4061161	29	2.3	29	79	10	73	50	0	13	36	1.42
4061908--4061945	20	1.9	20	89	10	60	71	0	0	28	0.87
4091588--4091643	19	2.9	19	73	7	60	37	1	0	60	1.07
4091767--4091807	21	2.0	21	85	0	55	48	0	7	43	1.30
4091874--4091907	17	2.0	17	88	11	52	58	0	0	41	0.98
4091885--4091944	24	2.5	23	82	12	68	66	0	0	33	0.92
4091888--4091948	27	2.3	26	77	8	68	65	0	0	34	0.93
4091895--4091957	27	2.5	25	85	10	83	63	1	0	34	1.04
4095917--4096022	31	3.4	30	81	13	126	65	1	1	31	1.14
4095917--4095987	14	4.7	14	81	10	70	67	0	1	30	0.99
4102541--4102634	24	4.3	23	70	22	78	41	1	4	53	1.27
4102542--4102603	19	3.2	19	72	17	63	41	0	4	53	1.22
4102582--4102634	23	2.2	24	87	9	74	39	1	3	54	1.29
4103911--4103966	12	4.4	12	75	24	53	60	0	39	0	0.97
4103911--4103966	27	2.2	26	84	15	73	60	0	39	0	0.97
4121510--4121560	20	2.5	20	83	0	66	19	1	29	49	1.60
4154227--4154274	20	2.5	19	79	3	51	20	8	22	47	1.77
4154317--4154378	22	2.9	22	85	2	90	30	1	16	51	1.54
4154211--4154383	19	8.6	20	67	11	68	27	4	18	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4154450--4154533	22	3.9	22	69	12	57	29	5	20	44	1.75
4154439--4154517	42	1.9	42	84	5	108	26	3	24	45	1.70
4155583--4155621	16	2.4	16	78	0	51	56	12	30	0	1.37
4169020--4169060	20	2.0	20	85	0	55	65	2	31	0	1.05
4171621--4171673	7	8.1	7	76	19	53	39	0	1	58	1.09
4171688--4171726	16	2.4	17	86	4	53	41	0	2	56	1.13
4171821--4171862	21	2.0	21	85	0	57	0	21	0	78	0.75
4175282--4175394	58	1.9	58	90	0	181	47	23	15	13	1.80
4182444--4182502	5	11.8	5	88	0	91	0	5	55	38	1.22
4188123--4188154	16	2.0	16	93	0	55	12	40	0	46	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19