genome.fa.s29.2.7.7.80.10.50.1000.2.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_018397282.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_25.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1368273

Tables:   1   2   3   4   

This is table  2  of  4  ( 427 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)
320650--321033	189	2.0	190	98	0	743	33	11	13	41	1.80
322796--324293	496	3.0	493	88	3	2162	36	11	23	28	1.90
334786--334821	11	3.3	11	92	0	63	44	0	5	50	1.25
335751--335808	28	2.1	28	83	3	73	39	5	17	37	1.72
340332--340382	25	2.1	25	85	3	68	37	17	13	31	1.89
342368--342443	31	2.5	31	85	8	93	42	17	19	21	1.90
345639--345680	21	2.1	19	86	8	57	28	2	9	59	1.41
348072--348101	15	2.0	15	93	0	51	43	0	0	56	0.99
356199--356244	23	2.1	23	84	8	60	34	0	0	65	0.93
356649--356766	27	4.2	28	83	3	96	43	11	6	38	1.68
356661--356803	27	5.3	27	78	4	135	44	11	8	35	1.72
357584--357628	9	5.4	9	84	12	53	33	2	0	64	1.06
357582--357628	24	2.0	24	87	8	69	36	2	0	61	1.08
358871--358948	37	2.1	37	97	0	147	46	2	26	24	1.66
376085--376120	12	3.0	12	87	0	54	66	0	0	33	0.92
379582--379638	26	2.2	26	100	0	114	56	8	7	28	1.56
384715--384766	18	2.9	18	79	0	68	55	3	0	40	1.18
393330--393361	14	2.4	14	90	10	50	37	0	3	59	1.13
394008--394062	23	2.4	23	84	0	74	25	14	23	36	1.93
395871--395938	26	2.6	26	81	6	75	29	13	5	51	1.64
396224--396308	23	3.7	23	82	0	98	37	14	20	28	1.91
396380--396689	23	13.5	23	70	6	144	32	9	22	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396353--396887	69	7.8	69	77	5	438	32	8	23	35	1.85
396433--396887	23	19.8	22	71	8	158	32	8	23	35	1.86
396655--396885	92	2.5	91	77	5	241	32	7	22	36	1.83
396836--396910	23	3.3	23	92	0	114	26	10	26	36	1.89
402627--402659	2	16.5	2	93	0	57	48	0	0	51	1.00
403317--403341	12	2.1	12	100	0	50	68	0	0	32	0.90
422871--422962	45	2.0	46	97	2	177	46	4	13	35	1.62
434432--434465	2	17.0	2	100	0	68	50	0	0	50	1.00
436879--436970	42	2.2	42	96	0	166	32	30	6	30	1.83
437057--437123	35	1.9	35	93	0	116	4	31	35	28	1.77
442132--442228	14	6.9	14	66	9	63	31	29	6	31	1.82
442133--442228	41	2.3	43	94	3	169	32	30	6	31	1.82
442458--442490	16	2.1	16	88	5	50	66	18	3	12	1.36
449232--449274	18	2.3	19	84	4	52	46	9	9	34	1.68
450849--450892	19	2.5	17	82	17	54	22	0	2	75	0.92
455850--455907	25	2.3	25	96	0	107	22	15	34	27	1.94
459592--459659	29	2.3	30	78	12	70	32	17	14	35	1.91
469508--469546	19	2.0	20	90	5	62	69	0	2	28	1.02
469508--469567	19	3.7	15	77	18	50	66	0	1	31	1.01
469519--469567	15	3.3	15	79	20	59	65	0	2	32	1.04
470389--470455	8	8.9	7	74	19	55	76	2	2	17	1.05
470395--470455	23	2.7	23	80	11	65	77	3	3	16	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473764--473795	2	16.0	2	100	0	64	50	0	0	50	1.00
485650--485712	29	2.2	27	83	13	74	50	0	4	44	1.23
485691--485729	17	2.4	16	83	8	53	51	2	0	46	1.14
486065--486099	2	17.5	2	100	0	70	48	0	0	51	1.00
489224--489257	17	1.9	18	94	5	61	82	2	8	5	0.93
489699--489754	27	2.1	27	83	6	69	48	1	3	46	1.30
489683--489754	35	2.1	35	82	10	85	45	1	4	48	1.30
509565--509618	21	2.6	21	96	0	99	38	20	11	29	1.87
510211--510319	33	3.2	32	79	11	103	23	11	25	39	1.88
512163--512196	18	2.0	16	88	11	50	70	5	20	2	1.21
512287--512405	63	1.9	63	89	1	186	47	5	6	40	1.52
515400--515458	30	2.0	30	83	12	77	49	6	1	42	1.39
520915--520953	19	2.1	19	85	0	51	43	0	2	53	1.14
534422--534473	19	2.7	19	90	0	77	25	25	13	36	1.92
540997--541038	21	2.1	20	82	8	50	59	7	0	33	1.25
541324--541362	17	2.3	17	95	0	69	23	30	7	38	1.83
547974--548018	12	3.7	12	80	13	56	82	0	15	2	0.77
559896--559930	18	2.0	17	88	5	52	25	0	0	74	0.82
560302--560345	20	2.2	20	100	0	88	22	15	13	47	1.81
560325--561065	123	6.0	123	81	4	740	26	17	19	36	1.94
560322--561067	185	4.0	185	82	3	808	26	18	18	36	1.94
560328--561067	62	12.0	62	76	6	617	26	17	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569546--569587	20	2.1	20	86	8	59	61	0	0	38	0.96
577457--577495	17	2.4	17	82	4	53	53	0	0	46	1.00
582828--582874	24	2.0	24	82	0	58	59	17	6	17	1.57
584828--584853	13	2.0	13	100	0	52	38	15	7	38	1.76
587078--587112	15	2.2	16	90	5	54	42	0	2	54	1.15
599806--599862	3	19.0	3	75	13	55	63	1	3	31	1.22
606315--606422	47	2.3	47	81	0	144	33	14	14	37	1.88
606444--606647	47	4.3	47	75	8	128	39	16	15	28	1.89
606488--606781	47	6.2	46	79	8	241	38	18	13	28	1.90
606488--606814	94	3.4	93	78	6	332	38	19	14	28	1.90
606444--606781	143	2.4	141	78	5	340	39	18	13	28	1.89
606840--606934	48	2.0	48	85	4	129	30	12	20	36	1.89
606896--606978	40	2.0	42	86	6	116	24	12	21	42	1.87
618416--618445	1	30.0	1	100	0	60	0	0	100	0	0.00
621786--621853	33	2.1	33	100	0	136	29	10	29	30	1.90
621898--621983	29	3.0	29	91	0	127	17	25	9	47	1.77
629069--629123	26	2.1	27	86	3	76	30	14	18	36	1.91
645622--645661	21	1.9	21	89	0	62	35	7	17	40	1.78
649304--649385	43	1.9	43	94	0	146	31	17	23	28	1.96
652027--652093	33	2.0	33	91	0	107	26	17	22	32	1.96
655172--655214	23	1.9	23	85	4	61	41	0	0	58	0.98
657653--657698	7	6.7	7	85	14	51	71	6	19	2	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657654--657692	13	2.9	13	85	7	51	71	7	17	2	1.21
667182--667206	3	8.3	3	100	0	50	36	0	0	64	0.94
668106--668147	19	2.2	20	86	4	59	16	14	2	66	1.35
669695--669835	70	2.0	70	100	0	282	48	5	6	39	1.52
670900--670934	16	2.2	16	89	0	52	25	0	25	48	1.51
677882--677935	10	5.6	10	80	8	58	46	25	3	24	1.69
677882--677934	20	2.8	20	80	5	65	45	26	3	24	1.70
677936--677972	18	2.1	18	89	0	56	27	0	18	54	1.44
683661--683990	109	3.0	108	88	2	455	52	10	10	25	1.68
697097--697137	21	2.0	21	86	9	59	41	19	9	29	1.83
701231--701517	98	3.0	91	79	13	305	45	17	21	14	1.84
705519--705748	115	2.0	115	95	0	415	34	10	12	43	1.76
709940--709978	14	2.8	13	85	11	51	2	28	0	69	1.02
714012--714046	15	2.3	15	95	0	61	31	34	0	34	1.58
721110--721171	31	2.0	31	93	0	106	35	20	14	29	1.93
723760--723793	18	1.9	18	88	5	52	23	5	29	41	1.78
738928--738952	10	2.5	10	100	0	50	20	0	8	72	1.10
751462--751495	16	2.1	16	94	0	59	41	0	29	29	1.57
754970--755037	15	4.5	15	83	0	82	32	29	2	35	1.73
754980--755037	30	1.9	30	92	0	98	31	34	3	31	1.74
755033--755102	34	2.1	34	89	5	106	31	14	28	25	1.95
755266--755325	15	4.0	15	75	0	57	8	36	31	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
755920--755972	15	3.5	15	84	0	70	33	1	30	33	1.69
768318--768342	13	1.9	13	100	0	50	8	32	0	60	1.26
770956--770980	2	12.5	2	100	0	50	0	48	0	52	1.00
780334--780462	42	3.1	42	79	4	127	25	32	24	17	1.96
790034--790070	16	2.3	16	90	9	58	43	0	24	32	1.55
804763--804801	14	2.8	13	85	11	51	69	17	2	10	1.28
805685--805726	14	3.0	13	83	16	57	21	0	2	76	0.90
805685--805727	5	9.0	5	85	14	56	20	0	2	76	0.89
805734--805768	10	3.2	11	88	12	54	80	0	2	17	0.84
813345--813413	37	1.9	37	85	11	99	36	14	23	26	1.93

Tables:   1   2   3   4