genome.fa.s11.2.7.7.80.10.50.1000.8.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_018397264.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_130.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8132550

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  8  of  14  ( 1638 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)
3708798--3708850	26	2.0	26	96	0	97	52	11	7	28	1.64
3717619--3717655	2	18.5	2	88	0	56	43	0	56	0	0.99
3725922--3726036	57	2.0	57	100	0	230	33	13	5	47	1.66
3734978--3735192	117	1.8	117	88	0	331	35	11	9	43	1.73
3734607--3738883	767	5.6	768	78	6	3654	35	11	12	40	1.80
3735746--3735975	117	2.0	117	84	0	307	38	10	8	42	1.69
3737309--3737502	106	1.8	106	89	0	307	41	11	7	39	1.69
3739644--3739692	23	2.1	22	85	14	64	42	4	18	34	1.69
3742407--3742585	91	2.0	91	90	0	286	42	14	8	34	1.76
3749530--3749590	32	2.0	30	87	6	86	62	4	3	29	1.32
3757590--3757632	17	2.5	17	85	11	52	48	4	0	46	1.22
3758295--3758368	20	3.8	19	76	16	80	55	1	0	43	1.08
3758346--3758389	15	2.6	17	79	13	56	52	2	0	45	1.13
3758286--3758386	39	2.4	41	77	14	107	52	1	0	44	1.19
3758339--3758398	19	3.1	19	75	2	57	55	1	0	43	1.10
3758510--3758684	63	2.8	61	79	9	201	38	6	11	43	1.66
3758815--3758854	19	2.1	19	86	9	55	40	30	10	20	1.85
3761147--3761193	23	2.0	23	83	4	58	4	17	0	78	0.90
3763154--3763184	2	15.5	2	93	0	53	54	0	0	45	0.99
3765589--3765622	2	17.0	2	93	0	59	47	0	2	50	1.16
3781992--3782026	16	2.2	16	100	0	70	57	11	17	14	1.66
3790040--3790067	2	14.0	2	100	0	56	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)
3801566--3801594	2	14.5	2	100	0	58	51	0	0	48	1.00
3814905--3814974	35	2.0	35	83	10	90	12	58	12	15	1.63
3821617--3821807	64	3.0	64	81	1	211	39	5	9	45	1.62
3821962--3822001	19	2.1	19	86	9	55	40	32	7	20	1.80
3823698--3823735	15	2.5	15	86	0	58	7	68	18	5	1.34
3823698--3823732	18	1.9	18	94	0	61	8	68	20	2	1.29
3825715--3825754	21	1.9	21	89	0	62	10	5	55	30	1.54
3858123--3858248	42	3.0	42	89	4	200	31	25	16	26	1.96
3871486--3871537	22	2.4	22	81	9	63	11	5	5	76	1.13
3889610--3889654	24	1.9	23	86	4	63	62	2	4	31	1.27
3891520--3891606	29	3.0	29	98	0	165	37	18	10	33	1.85
3899707--3899773	27	2.4	28	80	2	82	38	7	13	40	1.73
3899795--3900307	109	4.7	110	74	7	310	41	13	7	37	1.72
3899769--3900307	55	9.8	55	77	3	280	41	14	6	37	1.72
3899723--3900307	27	21.3	27	73	7	268	41	13	7	37	1.72
3899723--3900307	82	7.1	81	72	8	342	41	13	7	37	1.72
3904924--3904961	14	2.6	15	83	8	51	34	0	0	65	0.93
3905971--3906009	11	3.6	11	86	6	53	2	15	2	79	0.95
3907840--3907899	2	30.5	2	96	3	113	0	50	0	50	1.00
3919574--3919968	101	4.0	100	93	3	649	48	10	9	31	1.70
3950089--3950130	21	2.0	21	81	9	50	38	0	0	61	0.96
3955037--3955061	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3955932--3955963	2	16.0	2	100	0	64	50	0	0	50	1.00
3997601--3997664	31	2.1	31	82	2	76	50	9	6	34	1.60
4001817--4001887	30	2.4	30	88	2	108	57	2	1	38	1.22
4002179--4002231	25	2.1	26	89	6	83	54	0	0	45	0.99
4002188--4002254	25	2.6	26	74	9	66	47	0	0	52	1.00
4006049--4006396	175	2.0	168	86	4	473	26	12	28	32	1.92
4021317--4021365	26	1.9	25	84	12	64	53	2	0	44	1.12
4021419--4021454	19	2.0	19	89	10	58	69	5	0	25	1.10
4021615--4021750	69	2.0	67	90	5	211	61	6	5	26	1.44
4021839--4021876	15	2.5	15	83	8	51	73	0	0	26	0.83
4033836--4033863	2	14.0	2	100	0	56	50	0	0	50	1.00
4037060--4037085	10	2.6	10	100	0	52	0	7	0	92	0.39
4043086--4043139	23	2.3	23	100	0	108	44	27	11	16	1.82
4079800--4079830	2	15.5	2	100	0	62	48	0	0	51	1.00
4087696--4087724	3	9.7	3	100	0	58	68	0	0	31	0.89
4119070--4119094	2	12.5	2	100	0	50	52	0	0	48	1.00
4120902--4120945	23	2.0	22	95	4	79	54	9	11	25	1.65
4126170--4126243	36	2.1	36	94	0	130	32	27	13	27	1.94
4128073--4128129	30	1.9	30	92	0	96	47	12	26	14	1.79
4134687--4134725	14	2.8	14	88	0	51	35	0	2	61	1.10
4134691--4134725	14	2.5	14	90	9	54	40	0	0	60	0.97
4146344--4146368	5	5.0	5	100	0	50	40	20	20	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4163670--4163696	2	13.5	2	100	0	54	48	0	0	51	1.00
4164723--4164758	13	2.8	13	95	0	63	5	22	0	72	1.05
4180770--4180831	2	31.5	2	87	9	92	51	0	3	45	1.17
4185267--4185309	13	3.2	14	80	9	54	4	25	0	69	1.07
4192724--4192831	28	4.1	27	73	14	91	61	1	3	33	1.25
4194743--4194809	32	2.1	32	97	0	125	40	2	19	37	1.67
4212205--4212255	27	1.9	26	84	4	66	21	29	19	29	1.98
4217910--4218343	217	2.0	217	93	0	742	24	16	21	37	1.93
4228062--4228133	12	5.5	12	74	18	54	33	2	26	37	1.71
4228063--4228121	21	2.8	22	82	15	79	32	3	27	37	1.73
4228296--4228323	6	4.7	6	100	0	56	0	17	64	17	1.30
4228751--4228777	6	4.5	6	100	0	54	0	18	66	14	1.25
4233563--4233684	65	1.9	65	85	0	172	36	15	15	31	1.89
4239214--4239255	21	2.0	21	100	0	84	47	23	9	19	1.78
4241919--4241958	18	2.3	19	87	12	59	35	2	0	62	1.09
4247239--4247264	2	13.0	2	100	0	52	50	0	50	0	1.00
4254367--4254481	54	2.2	53	95	3	205	42	11	17	28	1.84
4261959--4261998	2	20.0	2	100	0	80	50	0	0	50	1.00
4262894--4262945	23	2.3	23	96	0	95	23	25	25	26	2.00
4269432--4269473	7	5.9	7	94	2	66	11	4	0	83	0.79
4272031--4272068	18	2.1	19	90	5	60	34	15	5	44	1.69
4280328--4280418	43	2.1	43	87	6	130	51	3	5	39	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4281372--4281401	15	2.0	15	93	0	51	76	0	6	16	0.99
4283447--4283637	32	5.8	32	76	17	112	69	0	1	28	1.02
4283453--4283602	19	7.5	19	66	23	69	70	0	2	27	1.03
4283453--4283577	5	25.0	5	66	15	53	69	0	2	27	1.06
4283454--4283597	21	7.2	19	65	22	55	70	0	2	27	1.04
4283871--4283909	15	2.6	15	84	11	53	38	23	5	33	1.77
4290139--4290192	2	27.0	2	88	0	72	42	0	7	50	1.30
4300574--4300797	77	2.9	75	82	6	279	28	23	14	33	1.94
4316972--4317107	71	1.9	71	89	0	209	27	15	22	34	1.94
4318785--4318816	12	2.6	13	85	14	50	59	0	0	40	0.97
4323558--4323615	17	3.7	15	73	13	55	67	1	5	25	1.21
4331235--4331282	24	2.0	23	84	8	60	41	0	0	58	0.98
4331397--4331438	16	2.6	16	85	7	50	59	2	2	35	1.23
4331972--4332057	43	2.0	43	86	2	120	36	4	26	32	1.77
4334470--4334494	13	1.9	13	100	0	50	40	0	0	60	0.97
4338802--4338842	22	2.0	20	85	9	55	2	29	0	68	1.03
4339864--4339896	3	11.0	3	100	0	66	0	0	33	66	0.92
4348125--4348208	25	3.5	25	73	26	83	46	0	0	53	1.00
4348153--4348200	18	2.7	18	81	12	64	43	0	0	56	0.99
4348125--4348214	46	1.9	48	90	4	148	45	0	0	54	0.99
4348125--4348222	21	3.9	27	76	16	95	47	0	0	52	1.00
4348125--4348220	26	3.9	25	74	19	85	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4348174--4348230	28	2.2	25	81	9	60	54	1	0	43	1.10
4364546--4364576	3	10.3	3	100	0	62	32	32	0	35	1.58
4375815--4375839	2	12.5	2	100	0	50	0	48	0	52	1.00
4377605--4377633	2	14.5	2	100	0	58	51	0	0	48	1.00
4378482--4378506	10	2.5	10	100	0	50	24	48	0	28	1.52
4381270--4381308	15	2.5	16	83	8	53	51	5	41	2	1.38
4381522--4381560	6	6.5	6	90	0	51	0	43	2	53	1.14
4394164--4394304	73	1.9	74	89	1	221	48	9	1	41	1.44
4421428--4421525	44	2.2	44	85	3	126	32	17	10	39	1.83
4421441--4421544	52	2.0	52	82	0	127	34	20	9	35	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14