genome.fa.s24.2.7.7.80.10.50.1000.2.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_018397277.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2651878

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 676 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)
507633--507675	15	2.9	14	82	10	50	74	4	0	20	1.00
507633--507662	15	2.0	15	93	0	51	80	3	0	16	0.85
517801--517888	40	2.3	39	84	4	106	37	25	12	25	1.91
528503--528548	15	3.1	15	93	0	74	63	2	2	32	1.19
528524--528567	21	2.0	22	91	4	72	61	6	0	31	1.22
533978--534016	13	2.9	14	84	7	53	69	7	15	7	1.35
534312--534392	35	2.3	35	95	0	144	34	16	17	32	1.92
537458--537501	21	2.0	22	86	4	63	61	9	0	29	1.27
539398--539452	28	2.0	28	88	0	83	32	9	23	34	1.86
539410--539562	74	2.1	72	87	6	227	34	11	22	32	1.89
539898--540007	50	2.2	50	80	6	125	34	25	16	23	1.95
546324--546374	19	2.7	19	80	14	70	35	11	21	31	1.90
554466--554567	35	2.9	36	80	1	116	28	20	13	37	1.91
556583--556629	12	3.8	12	86	13	69	0	40	17	42	1.49
556581--556629	24	2.0	25	96	4	91	0	40	16	42	1.48
563450--563492	22	2.0	22	86	9	61	67	4	2	25	1.22
565533--566255	378	1.9	378	85	2	990	42	8	7	42	1.63
571686--571764	23	3.5	23	85	1	97	37	31	8	21	1.84
571708--571782	23	3.3	23	88	3	89	33	33	10	22	1.89
571789--571861	22	3.3	22	72	14	69	45	20	9	24	1.81
575592--575616	10	2.5	10	100	0	50	84	0	0	16	0.63
577993--578498	165	3.1	165	82	0	636	31	14	18	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578477--578518	22	1.9	22	95	0	75	19	19	30	30	1.96
578684--578766	41	2.0	41	88	0	121	43	15	14	26	1.85
579230--579376	38	3.8	38	78	5	161	27	14	23	34	1.94
579713--579737	13	1.9	13	100	0	50	76	0	0	24	0.80
580411--580726	125	2.5	125	86	3	438	27	10	22	40	1.86
581205--581313	45	2.4	46	80	4	114	26	31	14	27	1.95
581333--581515	38	4.8	37	76	11	154	26	14	25	33	1.94
581333--581519	77	2.4	78	83	6	247	25	14	25	34	1.94
584152--584186	16	2.2	16	89	0	52	34	2	8	54	1.46
586160--586228	2	34.5	2	91	0	111	4	0	44	50	1.21
586147--586220	12	6.3	12	84	6	98	6	0	43	50	1.29
586147--586228	20	4.1	20	93	0	110	7	0	42	50	1.30
586147--586228	22	3.7	22	93	0	128	7	0	42	50	1.30
587343--587592	68	3.7	67	79	8	247	36	14	8	39	1.78
589003--589048	24	1.9	24	86	0	65	65	0	34	0	0.93
589002--589045	7	5.9	7	80	15	52	63	0	36	0	0.95
589002--589053	15	3.4	14	82	12	59	65	0	34	0	0.93
594576--594636	29	2.1	28	87	3	86	31	4	19	44	1.72
600470--601071	47	12.9	47	74	7	368	27	16	29	26	1.97
600515--600997	139	3.5	138	80	6	465	27	15	29	27	1.96
601606--601884	31	9.0	31	88	0	378	19	21	19	40	1.92
613645--613690	24	1.9	24	100	0	92	34	17	8	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626988--627030	21	2.0	22	86	4	61	27	18	13	39	1.89
633502--633527	2	13.0	2	100	0	52	50	0	0	50	1.00
639243--639298	21	2.7	21	82	0	67	30	23	19	26	1.98
644443--644563	60	2.0	60	98	0	233	28	14	21	35	1.92
645352--645395	20	2.3	19	88	7	63	47	2	0	50	1.13
645448--645504	26	2.1	27	93	3	98	35	22	7	35	1.82
649361--649425	34	1.9	34	84	6	87	30	12	26	30	1.92
657534--657607	38	1.9	38	97	0	139	39	28	10	21	1.87
666772--666806	2	18.0	2	94	5	63	48	0	51	0	1.00
684562--684595	2	17.0	2	87	0	50	44	0	5	50	1.26
684562--684595	10	3.4	10	95	0	59	44	0	5	50	1.26
687276--687301	2	13.0	2	100	0	52	50	0	50	0	1.00
696609--696685	29	2.7	29	95	2	138	24	19	28	27	1.99
702515--702583	30	2.3	30	100	0	138	36	18	13	31	1.89
720022--720097	35	2.2	35	92	0	125	34	5	13	47	1.65
720032--720116	35	2.4	35	82	2	98	37	5	14	42	1.69
729741--729969	115	2.0	116	95	0	415	28	18	12	39	1.88
730655--730698	21	2.0	22	86	4	63	63	11	0	25	1.27
735230--735307	28	2.8	28	100	0	156	41	12	23	23	1.88
757272--757296	13	1.9	13	100	0	50	56	8	4	32	1.47
757727--757765	19	2.1	19	100	0	78	41	20	5	33	1.74
769257--769495	28	8.4	28	76	5	203	38	10	12	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
769275--769495	85	2.6	83	78	7	228	39	10	12	37	1.78
771150--771242	32	2.7	34	88	8	127	33	6	13	46	1.69
771150--771256	36	3.1	34	86	6	128	31	6	15	45	1.72
783505--783541	19	1.9	20	88	5	58	40	10	5	43	1.63
784835--784903	36	1.9	36	88	2	104	30	11	26	31	1.91
789740--789789	21	2.4	21	83	6	57	66	10	6	18	1.42
800920--800969	10	4.8	11	76	14	52	22	2	0	76	0.89
813063--813101	21	1.9	20	89	5	60	23	10	28	38	1.87
819097--819348	125	2.0	125	97	0	477	26	26	10	36	1.89
821696--821802	54	2.0	54	96	0	196	35	21	21	21	1.96
823278--823646	187	2.0	188	91	2	609	32	25	12	29	1.92
825579--825618	16	2.3	18	80	20	50	55	2	0	42	1.13
825630--825662	17	1.9	17	88	11	50	51	3	0	45	1.16
825735--826202	253	1.8	254	82	3	602	48	4	8	37	1.56
834217--834256	18	2.3	18	86	4	55	2	27	2	67	1.16
844155--844204	22	2.3	22	89	0	82	56	0	2	42	1.11
845804--845834	2	15.5	2	100	0	62	51	0	0	48	1.00
846138--846272	37	3.5	38	80	9	125	39	25	9	25	1.86
852693--852790	38	2.6	38	86	3	135	40	22	12	24	1.88
853743--853791	25	1.9	25	83	4	62	30	18	6	44	1.74
855785--855830	22	2.1	21	84	4	56	41	17	15	26	1.88
858044--858091	21	2.3	21	96	0	87	33	12	8	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
903281--903360	36	2.2	36	86	2	108	31	15	25	28	1.95
905052--905233	61	3.0	61	91	4	269	32	16	19	31	1.94
905047--905245	31	6.5	31	79	13	225	33	16	19	31	1.93
905583--905674	20	4.6	20	77	6	87	41	14	9	34	1.78
905602--905694	40	2.3	40	88	0	141	41	11	11	34	1.78
905622--905697	20	3.8	20	81	6	82	42	9	14	34	1.78
928372--928544	86	2.0	86	97	1	330	26	5	17	50	1.67
930175--930245	21	3.4	21	75	7	72	49	2	1	46	1.25
934600--934669	21	3.3	20	76	7	77	50	4	2	42	1.37
937926--937968	20	2.2	20	91	0	68	53	18	4	23	1.63
940097--940308	80	2.7	80	82	2	264	34	21	8	35	1.83
948827--948871	21	2.1	21	88	8	65	66	4	6	22	1.33
948827--948869	11	4.0	11	81	3	52	65	4	6	23	1.37
958239--958357	58	2.1	57	90	1	184	36	10	14	37	1.81
963888--963923	12	2.9	13	84	16	58	0	41	16	41	1.48
964570--964613	21	2.0	22	91	4	72	61	6	0	31	1.22
968354--968397	12	3.6	13	90	9	67	0	38	18	43	1.50
969046--969089	21	2.0	22	86	4	63	61	9	0	29	1.27
985648--985688	8	5.0	8	82	5	55	0	34	0	65	0.93
985647--985695	25	1.9	26	91	4	82	0	34	0	65	0.93
985636--985701	25	2.6	25	76	9	80	3	33	0	63	1.10
985634--985704	17	4.4	16	74	12	56	2	32	0	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990339--990461	35	3.5	35	75	7	108	26	13	19	41	1.87
990339--990476	35	3.9	35	76	6	93	28	14	18	39	1.90
990763--990830	20	3.4	21	76	8	70	25	0	10	64	1.24
1005007--1005191	73	2.5	74	84	3	223	23	20	17	38	1.93
1018604--1018644	18	2.2	20	86	8	59	41	12	14	31	1.83
1034710--1034760	21	2.5	20	84	9	59	3	7	9	78	1.07
1034716--1034766	27	2.0	26	88	7	77	3	7	9	78	1.07
1042230--1042263	16	2.2	16	89	5	52	14	2	14	67	1.34
1044862--1045055	28	6.7	30	78	10	138	39	11	10	38	1.76
1044861--1045057	29	6.9	28	78	7	189	38	11	10	39	1.77

Tables:   1   2   3   4   5   6