genome.fa.s15.2.7.7.80.10.50.1000.9.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

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

This is table  9  of  13  ( 1452 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)
4378959--4379013	26	2.1	27	86	3	76	30	12	18	38	1.88
4379711--4379796	42	2.0	42	86	0	118	40	29	13	16	1.87
4380125--4380149	13	1.9	13	100	0	50	56	0	0	44	0.99
4382595--4382723	67	1.9	67	87	9	192	46	7	7	37	1.62
4383282--4383370	29	3.0	30	83	6	101	15	28	12	43	1.83
4390305--4390336	3	10.7	3	100	0	64	65	0	0	34	0.93
4399534--4399717	22	8.3	22	67	14	92	46	3	1	48	1.28
4400047--4400074	2	14.0	2	100	0	56	50	0	0	50	1.00
4401479--4401518	21	1.9	21	85	10	55	42	25	0	32	1.55
4404946--4404976	16	1.9	16	93	0	53	25	41	0	32	1.56
4408452--4408505	25	2.2	25	80	12	58	46	5	1	46	1.37
4409235--4409289	23	2.3	25	81	12	71	52	3	0	43	1.18
4409257--4409293	15	2.5	14	91	8	56	54	0	0	45	1.00
4409251--4409289	8	4.8	9	84	15	50	53	0	0	46	1.00
4409227--4409295	20	3.6	18	72	21	52	52	2	0	44	1.16
4409947--4410022	23	3.3	23	73	14	68	48	0	7	43	1.32
4412063--4412144	20	4.2	19	73	17	53	73	2	23	1	1.03
4412063--4412106	20	2.2	21	84	8	56	70	2	27	0	0.99
4412094--4412155	14	4.1	15	79	12	56	74	1	22	1	1.00
4412102--4412144	21	2.1	20	82	4	50	79	2	16	2	0.95
4412555--4412637	20	4.2	19	72	18	55	73	2	22	1	1.02
4412555--4412598	20	2.2	21	84	8	56	70	2	27	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4413047--4413129	20	4.2	19	72	18	55	73	2	22	1	1.02
4413047--4413090	20	2.2	21	84	8	56	70	2	27	0	0.99
4411710--4413171	494	3.0	492	96	2	2723	33	9	20	35	1.86
4413093--4413148	11	4.8	11	77	18	51	73	1	23	1	1.03
4413558--4413593	6	6.2	6	87	6	56	83	0	16	0	0.65
4417720--4417781	28	2.2	29	85	8	83	35	3	9	51	1.51
4420387--4420479	21	4.5	21	65	22	52	54	8	12	23	1.65
4420389--4420811	212	2.0	212	87	1	616	43	11	17	27	1.84
4423444--4423487	18	2.5	18	81	3	54	54	0	6	38	1.27
4426615--4426686	36	2.0	37	88	2	110	36	11	15	37	1.83
4429547--4429588	20	2.1	20	90	0	66	35	19	9	35	1.84
4439448--4439522	30	2.5	30	91	0	114	49	5	32	13	1.64
4439448--4439534	15	5.8	15	69	15	63	49	4	32	13	1.63
4442063--4442203	30	4.8	29	83	11	123	39	15	19	24	1.91
4442033--4442203	56	3.0	56	78	10	143	39	15	19	25	1.91
4444737--4444800	27	2.4	27	94	0	110	50	14	17	18	1.79
4448076--4448148	34	2.2	32	82	4	83	28	23	20	27	1.99
4448591--4448615	2	12.5	2	100	0	50	52	0	0	48	1.00
4449308--4449353	18	2.6	18	82	10	58	21	19	0	58	1.39
4449308--4449361	23	2.4	21	74	17	54	20	16	1	61	1.44
4454490--4454533	18	2.3	19	85	14	56	18	11	4	65	1.40
4462375--4462428	24	2.2	24	93	0	90	35	14	18	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4462664--4462699	16	2.4	14	83	16	54	25	19	16	38	1.92
4462668--4462700	16	2.1	16	100	0	66	27	18	18	36	1.94
4462572--4462779	108	1.9	108	96	0	380	29	20	12	36	1.90
4465992--4466061	36	1.9	36	85	0	95	47	8	24	20	1.78
4468713--4468760	13	3.5	13	81	16	53	0	20	2	77	0.88
4468713--4468750	19	2.0	19	89	0	58	0	21	0	78	0.74
4468954--4469008	14	3.9	14	86	9	60	23	1	1	72	1.04
4468963--4469008	7	6.6	7	84	0	56	21	0	2	76	0.90
4468970--4469013	14	3.1	14	90	0	52	20	0	4	75	0.98
4472750--4472843	31	3.0	31	82	3	100	39	5	38	17	1.72
4473156--4473210	24	2.3	24	87	0	74	10	3	16	69	1.32
4475832--4475872	21	2.0	20	90	4	64	46	2	4	46	1.37
4481680--4481712	16	2.1	16	94	0	57	36	9	0	54	1.32
4487563--4487864	152	2.0	153	81	7	364	31	12	19	36	1.89
4490784--4491066	101	2.8	101	89	0	404	24	19	14	37	1.89
4507077--4507153	31	2.5	31	95	0	136	53	1	18	27	1.52
4508435--4508474	19	2.1	19	90	9	64	30	22	15	32	1.94
4513248--4513280	17	1.9	17	88	11	50	0	18	3	78	0.87
4515193--4515978	197	3.9	197	88	4	1209	24	18	17	38	1.92
4515582--4515997	208	2.0	211	93	1	712	25	17	17	38	1.92
4522361--4522402	18	2.4	18	84	4	50	4	19	4	71	1.22
4523423--4523455	2	17.0	2	93	6	59	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)
4536026--4536099	23	3.0	25	82	7	91	33	10	21	33	1.88
4537785--4537827	21	2.0	22	86	4	61	44	0	0	55	0.99
4542545--4542617	31	2.4	30	88	6	103	41	8	10	39	1.70
4542545--4542617	30	2.4	30	86	8	103	41	8	10	39	1.70
4549248--4549284	17	2.4	16	86	13	51	32	0	8	59	1.27
4549333--4549376	15	2.9	16	78	21	51	56	4	2	36	1.32
4553686--4553743	21	2.8	20	81	2	71	37	10	13	37	1.79
4557855--4557908	25	2.2	25	86	6	74	72	0	0	27	0.85
4560569--4560908	60	5.7	60	78	6	341	26	19	31	23	1.98
4560569--4560902	180	1.9	180	85	5	469	26	19	31	23	1.98
4560937--4560966	14	2.1	14	100	0	60	30	23	13	33	1.93
4563106--4563163	12	4.8	12	76	4	53	53	10	10	25	1.66
4567572--4567619	18	2.6	19	80	12	55	0	18	4	77	0.93
4568246--4568273	13	2.2	13	100	0	56	21	14	10	53	1.70
4570078--4570104	12	2.2	12	100	0	54	14	7	7	70	1.32
4577035--4577404	118	3.1	117	85	1	465	47	17	19	16	1.83
4584338--4584720	211	1.8	211	84	5	524	31	27	12	28	1.93
4592310--4592345	12	2.9	13	84	16	58	0	41	16	41	1.48
4604019--4604122	26	3.8	28	71	8	90	41	13	13	31	1.83
4604196--4604279	26	3.2	26	79	3	96	44	21	7	27	1.78
4617519--4617561	19	2.3	19	84	11	54	65	9	2	23	1.34
4619951--4620003	25	2.1	25	92	0	88	24	15	13	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4646066--4646138	31	2.3	32	81	9	87	31	2	1	64	1.16
4646502--4646533	17	1.9	17	93	6	57	56	6	12	25	1.59
4646889--4646926	12	3.2	12	88	0	58	42	0	7	50	1.31
4669189--4669400	113	1.9	112	85	1	289	25	16	30	28	1.97
4683338--4683372	17	2.1	17	88	0	52	20	11	2	65	1.37
4686057--4686115	30	2.0	30	100	0	118	44	10	16	28	1.81
4687866--4687929	31	2.1	31	100	0	128	40	6	12	40	1.68
4690170--4690499	81	4.1	81	80	5	360	39	13	14	31	1.86
4690240--4690305	26	2.7	24	80	15	80	33	21	16	28	1.95
4690239--4690393	24	6.0	25	70	20	86	37	14	17	30	1.89
4690202--4690504	162	1.9	161	86	2	428	39	12	15	32	1.85
4690452--4690517	32	2.1	31	86	5	89	37	10	13	37	1.80
4690451--4690545	30	3.1	30	81	3	109	36	11	13	37	1.81
4703782--4703833	19	2.7	19	84	3	59	36	0	0	63	0.95
4707956--4708038	29	2.8	30	81	5	87	34	13	10	40	1.79
4710004--4710029	2	13.0	2	100	0	52	50	0	0	50	1.00
4715542--4715606	34	1.9	34	100	0	130	26	30	15	27	1.96
4720795--4720827	15	2.1	16	88	5	50	33	9	6	51	1.58
4720956--4721032	38	2.0	38	90	5	120	33	10	10	45	1.72
4727811--4727928	59	2.0	59	89	0	182	36	22	10	31	1.87
4730085--4730131	22	2.1	22	84	7	60	21	8	4	65	1.37
4732950--4733113	71	2.3	71	87	2	222	35	7	13	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4732938--4733113	35	5.0	35	81	4	210	36	7	12	43	1.71
4736602--4736810	36	5.9	36	77	2	208	30	7	15	42	1.74
4736615--4736809	107	1.9	96	92	1	237	29	7	15	41	1.75
4736602--4736810	71	2.9	71	77	2	233	30	7	15	42	1.74
4746347--4746387	20	2.0	20	85	0	55	34	21	14	29	1.93
4747905--4747957	14	3.8	13	82	9	52	81	0	11	7	0.88
4749029--4749087	31	2.0	30	86	6	84	35	18	11	33	1.88
4749110--4749285	75	2.3	74	81	9	205	30	15	17	36	1.91
4750230--4750832	212	2.8	212	86	4	875	46	4	8	40	1.55
4750798--4750852	17	3.2	17	77	12	58	47	1	3	47	1.30

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