genome.fa.s12.2.7.7.80.10.50.1000.9.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  9  of  18  ( 2130 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)
3763081--3763147	27	2.5	27	97	0	125	20	11	14	52	1.74
3763654--3763684	14	2.2	14	94	0	53	35	0	9	54	1.33
3764660--3764704	21	2.1	21	83	4	54	35	4	22	37	1.74
3765453--3765487	17	2.1	16	94	5	61	25	28	2	42	1.69
3775930--3775967	2	18.5	2	89	5	58	50	5	0	44	1.24
3777136--3777308	36	4.9	35	83	5	208	31	8	15	45	1.75
3777330--3777477	35	3.8	36	71	23	109	33	7	14	44	1.73
3777366--3777402	14	2.6	14	91	0	56	29	10	18	40	1.85
3777329--3777431	50	2.1	50	94	0	179	31	9	16	42	1.80
3777379--3777491	35	3.2	35	88	1	154	38	5	10	45	1.62
3782629--3782928	63	4.7	63	77	7	275	35	14	14	37	1.86
3784706--3784744	21	1.9	20	84	5	51	23	20	23	33	1.97
3796396--3796448	21	2.5	21	81	6	63	37	5	18	37	1.75
3798168--3798289	64	1.9	65	86	5	176	29	14	22	32	1.94
3798250--3798336	44	2.0	44	84	8	115	35	10	22	31	1.88
3798938--3798975	20	1.9	20	88	0	58	39	13	15	31	1.86
3800432--3800462	15	2.1	15	100	0	62	29	0	19	51	1.47
3801048--3801072	13	1.9	13	100	0	50	76	0	0	24	0.80
3801356--3801413	30	1.9	30	83	13	75	39	3	31	25	1.73
3803613--3803665	25	2.1	25	82	0	61	26	16	33	22	1.96
3805782--3805862	31	2.6	31	86	3	101	48	11	17	23	1.79
3809858--3809890	17	1.9	17	88	11	50	42	15	3	39	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3810042--3810171	59	2.2	60	80	10	144	43	10	7	39	1.67
3810042--3810202	29	5.5	28	77	10	144	41	11	8	38	1.72
3812155--3812242	45	2.0	45	90	0	140	32	26	15	25	1.96
3829093--3829180	26	3.2	26	65	20	70	30	25	7	36	1.84
3829087--3829201	57	2.0	57	100	0	230	29	27	6	35	1.83
3833358--3833409	12	3.8	13	79	20	54	82	0	7	9	0.84
3833374--3833414	15	2.6	16	88	7	57	85	0	4	9	0.73
3837236--3837299	31	2.1	31	100	0	128	39	20	15	25	1.92
3860319--3860371	21	2.6	21	69	3	54	20	5	11	62	1.49
3867237--3867286	17	2.9	17	82	11	66	6	18	0	76	0.99
3867245--3867286	12	3.6	12	84	9	52	7	16	0	76	1.00
3872422--3872466	23	2.0	23	90	0	72	37	24	8	28	1.86
3872504--3872649	65	2.2	65	83	0	175	43	17	10	27	1.83
3872551--3872597	22	2.1	22	88	0	67	48	17	6	27	1.71
3879338--3879407	33	2.0	36	84	13	94	28	1	4	65	1.20
3884465--3884492	2	14.0	2	100	0	56	50	0	0	50	1.00
3889069--3889166	48	2.0	48	100	0	196	38	14	14	32	1.86
3891584--3891648	33	2.0	32	84	3	85	44	20	12	23	1.84
3892892--3892950	23	2.5	22	76	10	55	52	0	0	47	1.00
3892992--3893045	27	2.0	26	85	7	72	51	1	1	44	1.22
3893116--3893266	15	9.9	15	71	19	66	48	1	1	49	1.18
3893122--3893166	17	2.8	17	86	6	67	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3893125--3893211	42	2.0	42	82	6	104	50	1	1	47	1.16
3893099--3893217	57	2.1	55	82	13	136	51	0	0	47	1.12
3893201--3893272	22	3.1	22	76	21	67	50	1	1	47	1.18
3893312--3893344	15	2.4	14	90	10	50	21	0	0	78	0.75
3899691--3899777	43	2.0	43	97	0	165	27	8	13	50	1.70
3916960--3917039	40	2.0	41	82	2	99	20	20	22	37	1.94
3921875--3921932	30	2.0	29	83	10	73	36	0	1	62	1.06
3922839--3922874	10	3.5	10	88	7	54	52	2	2	41	1.30
3924578--3924634	30	1.9	30	85	0	78	52	8	7	31	1.59
3925713--3925758	2	23.0	2	100	0	92	50	0	0	50	1.00
3929225--3929265	13	2.9	14	89	7	57	70	0	2	26	0.99
3929208--3929250	16	2.6	17	82	7	54	60	0	0	39	0.97
3929208--3929263	16	3.7	15	79	11	53	64	0	1	33	1.04
3929484--3929525	17	2.4	17	88	4	57	14	7	0	78	0.95
3929500--3929529	12	2.5	12	100	0	60	16	0	0	83	0.65
3930869--3930908	12	3.4	11	86	13	53	0	37	17	45	1.49
3935363--3935407	12	3.9	11	94	5	72	0	40	17	42	1.50
3935363--3935407	23	2.0	23	91	8	74	0	40	17	42	1.50
3944663--3944734	36	2.0	36	94	0	126	33	25	11	30	1.90
3949871--3949913	20	2.0	21	86	8	61	48	13	6	30	1.69
3949882--3949923	22	2.0	22	85	4	59	47	11	16	23	1.80
3953976--3954115	74	1.9	74	92	0	235	40	5	7	45	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3962336--3962392	29	2.0	29	89	0	87	35	8	3	52	1.50
3963407--3963452	22	2.0	23	87	4	67	28	0	6	65	1.17
3965412--3965479	35	1.9	35	87	0	100	19	11	29	39	1.87
3968354--3968427	30	2.6	30	84	14	95	56	0	0	43	0.99
3968354--3968414	31	2.0	30	87	3	86	59	0	0	40	0.98
3969360--3969417	29	2.0	29	86	6	82	36	1	0	62	1.06
3972767--3972817	16	2.7	19	71	22	54	43	0	0	56	0.99
3977631--3977695	29	2.2	30	78	10	73	29	4	12	53	1.58
3981092--3981162	20	3.5	20	69	14	65	35	14	15	35	1.88
3981092--3981182	40	2.3	40	96	0	164	37	14	14	34	1.86
3981112--3981209	20	4.8	20	69	12	65	38	15	13	32	1.86
3982445--3982594	40	3.8	40	92	0	237	30	8	26	36	1.85
3987706--3987769	32	2.0	32	96	0	119	60	12	10	15	1.58
4002998--4003176	89	2.0	89	100	0	358	32	10	30	26	1.89
4016730--4016759	12	2.4	13	94	5	53	0	43	0	56	0.99
4022560--4022795	118	2.0	120	88	3	352	30	12	25	32	1.93
4038759--4038899	74	1.9	73	86	1	183	24	21	15	38	1.92
4041405--4041450	20	2.3	19	82	10	56	4	23	4	67	1.27
4047615--4047759	73	2.0	73	85	5	195	24	17	15	41	1.89
4047630--4047789	73	2.2	73	82	6	191	21	18	17	42	1.89
4057569--4057599	2	15.5	2	93	0	53	48	3	0	48	1.17
4062092--4062282	68	2.8	67	85	5	251	36	12	21	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4062077--4062289	68	3.1	68	81	4	250	36	13	19	30	1.91
4073709--4073761	26	2.1	25	82	10	63	49	15	3	32	1.62
4081648--4081686	21	1.9	20	89	5	60	53	0	2	43	1.14
4084308--4084362	7	7.7	7	75	18	51	61	1	1	34	1.17
4084301--4084345	22	2.1	22	91	4	74	64	4	0	31	1.13
4088984--4089014	7	4.3	7	92	8	53	80	0	3	16	0.83
4089286--4089320	16	2.1	17	89	5	54	51	2	0	45	1.16
4091371--4091404	16	2.2	15	94	5	59	20	0	11	67	1.21
4091667--4091703	12	3.3	12	78	21	53	35	16	13	35	1.88
4092722--4093048	80	4.1	80	85	3	403	32	8	23	36	1.85
4095584--4095609	2	13.0	2	100	0	52	50	0	0	50	1.00
4105000--4105044	22	2.1	22	84	12	58	60	6	2	31	1.35
4111493--4111523	11	2.8	11	95	0	53	25	6	9	58	1.54
4111506--4111588	37	2.2	37	85	6	114	24	8	14	53	1.68
4111700--4111769	36	1.9	36	83	11	90	37	8	5	48	1.58
4114736--4114763	14	2.0	14	100	0	56	50	0	0	50	1.00
4118377--4118414	15	2.5	16	91	8	62	36	26	0	36	1.57
4118630--4118686	30	1.9	30	88	0	87	7	43	29	19	1.77
4119452--4120099	250	2.6	249	81	5	761	32	10	7	49	1.66
4125845--4125954	40	2.8	40	90	2	168	33	4	22	39	1.75
4130727--4131944	248	4.9	249	82	6	1284	35	9	7	48	1.63
4130727--4131983	500	2.5	500	81	6	1436	35	9	7	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4133928--4133970	23	1.9	23	85	4	61	48	2	4	44	1.36
4133955--4134020	33	2.1	31	82	5	78	53	1	0	45	1.09
4142319--4142365	22	2.2	22	88	3	69	29	0	14	55	1.40
4145109--4145165	3	19.0	3	100	0	114	33	0	0	66	0.92
4148352--4148376	6	4.2	6	100	0	50	16	52	0	32	1.44
4154691--4154737	23	2.0	23	100	0	94	34	12	17	36	1.87
4156755--4156893	72	1.9	72	91	0	224	28	27	5	39	1.77
4176542--4176588	25	1.9	24	82	4	58	23	4	23	48	1.68
4181830--4181863	17	2.0	17	100	0	68	17	11	29	41	1.85
4187867--4187970	31	3.4	29	73	6	91	53	10	10	25	1.67

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