genome.fa.s12.2.7.7.80.10.50.1000.17.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  17  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)
7002246--7002290	22	2.0	22	100	0	90	42	13	13	31	1.82
7008827--7008894	32	2.1	34	86	8	97	33	0	1	64	1.02
7008818--7008888	31	2.2	32	81	13	85	39	0	1	59	1.06
7011289--7011350	31	2.0	31	87	6	90	35	16	16	32	1.91
7018085--7018128	22	2.0	22	82	8	54	18	38	6	36	1.77
7021250--7021320	26	2.7	25	70	23	65	60	4	4	30	1.35
7025004--7025043	11	3.5	11	83	10	53	65	0	0	35	0.93
7043335--7043372	18	2.1	18	95	0	67	60	2	36	0	1.11
7048569--7048658	44	2.0	44	100	0	180	35	16	17	30	1.93
7054152--7054211	30	2.0	30	90	3	95	31	6	10	51	1.61
7054159--7054221	29	2.1	30	82	2	74	33	6	12	47	1.67
7054567--7054601	17	2.1	17	100	0	70	17	37	28	17	1.92
7054842--7054897	15	3.7	15	82	0	76	32	1	32	33	1.69
7100238--7100914	275	2.4	274	83	6	807	44	9	11	34	1.73
7101799--7101854	26	2.2	26	100	0	112	35	21	10	32	1.88
7101837--7102553	272	2.7	271	84	4	880	43	11	11	33	1.77
7102397--7102646	134	1.9	134	86	0	358	44	12	9	33	1.74
7102397--7102679	134	2.1	134	84	1	352	44	12	9	32	1.76
7107174--7107396	119	1.9	119	86	3	324	31	7	14	46	1.73
7107296--7108279	266	3.7	263	81	6	1029	37	10	10	40	1.75
7107279--7108279	267	3.7	263	81	6	1025	37	10	10	41	1.75
7111554--7113454	264	7.1	264	82	4	1903	35	10	11	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7111583--7113454	530	3.5	521	82	5	2036	35	10	11	41	1.77
7111530--7113454	794	2.4	794	82	5	2198	35	11	11	41	1.77
7115800--7116318	267	2.0	262	81	6	602	38	10	10	40	1.73
7115793--7116347	264	2.1	261	79	6	593	38	10	10	40	1.74
7126847--7126907	32	1.9	32	86	6	88	40	16	6	36	1.74
7129065--7129113	23	2.1	23	84	3	62	44	2	8	44	1.45
7134313--7134514	100	2.0	100	93	1	343	40	10	14	34	1.81
7135052--7135082	4	7.5	4	96	3	53	70	0	29	0	0.87
7138777--7138802	2	13.0	2	100	0	52	50	0	0	50	1.00
7138980--7139007	3	9.3	3	100	0	56	67	0	32	0	0.91
7140182--7140213	2	15.5	2	93	6	55	50	0	3	46	1.17
7144080--7144110	16	1.9	16	93	0	53	41	3	9	45	1.53
7144135--7144168	17	1.9	18	88	5	52	47	0	0	52	1.00
7145386--7145431	2	23.0	2	100	0	92	50	0	0	50	1.00
7155300--7155346	17	2.7	18	83	6	69	53	14	0	31	1.42
7167750--7167954	50	4.0	51	79	8	211	28	20	12	38	1.89
7168349--7168509	81	2.0	81	88	2	243	38	8	12	40	1.74
7168354--7168542	81	2.3	81	84	1	227	41	7	10	40	1.68
7175773--7175910	31	4.4	31	82	6	163	15	17	42	23	1.88
7175773--7175894	63	1.9	63	90	3	192	16	14	43	25	1.86
7175773--7175910	63	2.2	63	87	3	190	15	17	42	23	1.88
7178054--7178094	20	2.1	19	86	13	57	43	14	2	39	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7184152--7184199	24	2.0	23	84	4	60	56	0	0	43	0.99
7215205--7215237	13	2.4	14	90	5	50	57	0	0	42	0.98
7215387--7215533	58	2.5	57	84	3	177	32	11	13	42	1.80
7230583--7230615	4	8.2	4	93	0	57	0	21	0	78	0.75
7251580--7251631	24	2.2	24	85	0	68	36	7	25	30	1.84
7257457--7257484	2	14.0	2	100	0	56	0	0	50	50	1.00
7258470--7258517	2	24.0	2	100	0	96	0	50	0	50	1.00
7259912--7259946	2	17.5	2	100	0	70	51	0	0	48	1.00
7260164--7260189	7	3.7	7	100	0	52	15	0	0	84	0.62
7266438--7266469	8	4.2	8	88	11	50	34	0	0	65	0.93
7276601--7276670	20	3.6	19	77	9	70	51	2	7	38	1.44
7277484--7277515	2	16.0	2	93	0	55	46	0	3	50	1.17
7278345--7278417	19	4.1	19	70	22	59	68	1	1	28	1.06
7278354--7278384	14	2.1	15	94	5	55	67	0	0	32	0.91
7278345--7278424	33	2.5	33	84	13	105	68	1	1	28	1.05
7278383--7278479	25	3.8	24	72	18	79	64	1	4	29	1.18
7278449--7278562	38	3.1	36	75	12	99	63	0	4	31	1.20
7289005--7289045	4	10.2	4	94	0	73	26	0	21	51	1.48
7289405--7289444	8	4.8	8	87	6	53	85	0	2	12	0.71
7289405--7289434	9	3.4	9	90	9	53	90	0	0	10	0.47
7309002--7309043	21	2.0	21	86	9	59	28	0	2	69	1.01
7334802--7334830	14	2.1	14	100	0	58	27	6	20	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7336169--7336206	14	2.7	14	80	15	51	26	2	5	65	1.27
7336814--7336856	15	2.9	15	89	0	59	34	4	23	37	1.76
7337102--7337133	16	1.9	17	93	6	57	31	0	0	68	0.90
7337069--7337151	24	3.5	24	75	13	66	30	2	1	66	1.12
7337085--7337152	24	3.0	24	79	10	72	30	1	1	66	1.10
7337001--7337231	114	2.0	113	96	0	426	31	5	2	61	1.32
7337283--7337357	25	2.9	25	76	7	71	30	1	1	66	1.08
7337306--7337379	33	2.3	33	82	13	84	29	1	1	67	1.07
7353809--7354056	136	1.8	136	88	1	379	45	15	9	28	1.78
7355399--7355508	55	2.0	55	94	0	193	33	16	19	30	1.94
7358127--7358277	79	1.9	80	90	1	241	47	10	21	19	1.80
7368491--7368531	13	2.9	14	79	13	57	53	17	0	29	1.44
7375939--7376009	36	2.0	34	91	5	115	54	1	2	40	1.23
7378398--7378463	27	2.5	27	83	11	84	62	0	1	36	1.05
7396647--7396684	15	2.5	15	100	0	76	34	7	10	47	1.67
7397797--7397837	19	2.2	19	100	0	82	29	4	19	46	1.71
7408484--7408508	2	12.5	2	100	0	50	0	0	48	52	1.00
7408510--7408540	2	15.5	2	93	0	53	45	0	3	51	1.17
7411486--7411515	12	2.5	12	88	0	51	73	0	0	26	0.84
7415174--7415230	20	2.8	20	83	0	69	38	3	10	47	1.55
7415187--7415230	18	2.4	18	88	0	61	40	2	9	47	1.48
7415189--7415229	14	2.9	14	85	0	55	39	2	9	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7417420--7417533	35	3.3	35	66	19	103	41	23	9	25	1.85
7417419--7417556	68	2.0	68	97	0	258	44	22	10	23	1.83
7418348--7418539	97	2.0	96	94	1	339	31	17	15	35	1.91
7428550--7428596	23	2.0	23	91	0	76	46	0	8	44	1.33
7431726--7431790	33	2.0	33	90	0	103	47	7	0	44	1.31
7431848--7431942	30	3.2	30	86	5	131	60	0	3	36	1.13
7440809--7440868	19	3.2	19	100	0	120	35	5	21	38	1.75
7440818--7440873	9	6.0	9	75	8	58	35	7	21	35	1.81
7440809--7440859	10	5.3	10	72	9	52	35	3	21	39	1.72
7446418--7446509	44	2.1	44	100	0	184	41	9	15	33	1.80
7446979--7447003	2	12.5	2	100	0	50	52	0	48	0	1.00
7449975--7450014	19	2.0	21	90	9	66	45	7	0	47	1.31
7455650--7455690	11	3.5	12	83	12	50	75	0	24	0	0.80
7461490--7461514	12	2.1	12	100	0	50	32	28	0	40	1.57
7481959--7481984	2	13.0	2	100	0	52	50	0	50	0	1.00
7491724--7491788	27	2.4	27	76	2	67	53	1	4	40	1.31
7493275--7493336	25	2.6	25	84	5	83	29	0	3	67	1.06
7493267--7493342	24	3.2	24	80	9	93	26	0	2	71	1.00
7504441--7504471	2	15.5	2	100	0	62	0	51	0	48	1.00
7509888--7509922	17	2.1	17	94	0	61	34	8	25	31	1.86
7512022--7512064	19	2.3	19	84	8	61	53	4	0	41	1.21
7536747--7536795	2	24.5	2	91	0	80	46	0	4	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7567354--7567459	47	2.3	47	94	0	185	22	30	33	13	1.92
7577469--7577522	5	10.6	5	79	16	58	75	3	20	0	0.95
7594319--7594377	30	2.0	30	82	0	73	32	18	6	42	1.77
7597182--7597230	20	2.4	21	83	10	57	59	4	0	36	1.17
7599384--7599441	30	1.9	30	85	0	80	56	5	6	31	1.47
7600900--7600933	15	2.1	15	89	10	50	44	0	0	55	0.99
7601396--7601432	12	3.2	11	88	11	56	40	0	2	56	1.13
7630966--7631209	116	2.0	119	90	7	386	39	15	3	41	1.64
7646402--7646436	18	1.9	18	94	0	61	25	5	54	14	1.62
7648107--7648202	45	2.2	45	86	5	133	32	25	10	32	1.89

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