genome.fa.s19.2.7.7.80.10.50.1000.2.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_018397272.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3572271

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1018 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)
367961--368014	21	2.5	22	88	8	85	68	0	31	0	0.90
367964--368014	14	3.6	14	83	2	66	66	0	33	0	0.92
367961--368014	7	7.7	7	78	13	58	68	0	31	0	0.90
376236--376273	2	18.5	2	94	5	67	47	0	2	50	1.15
377709--377749	14	2.8	14	88	7	55	65	0	34	0	0.93
379115--379170	25	2.2	25	87	0	76	32	12	25	30	1.92
379122--379174	25	2.1	25	92	0	88	26	11	32	30	1.91
394812--394942	56	2.3	55	79	10	140	26	28	7	37	1.84
396538--396722	77	2.4	77	85	4	223	37	13	6	42	1.70
396558--396722	77	2.1	77	88	2	251	39	12	6	41	1.68
399947--399979	17	1.9	17	93	0	57	33	36	3	27	1.72
400721--400753	17	1.9	17	88	11	50	36	15	9	39	1.79
403484--403527	21	2.0	22	91	4	72	31	0	6	61	1.22
405252--405282	7	4.4	7	100	0	62	38	45	0	16	1.47
408962--408990	2	14.5	2	100	0	58	51	0	0	48	1.00
410848--410949	49	2.1	49	96	0	186	27	15	9	47	1.77
414655--414827	29	5.9	29	80	6	179	37	13	8	39	1.76
414665--414821	59	2.7	57	78	3	179	40	13	8	38	1.74
414655--414822	88	1.9	88	86	2	239	38	13	8	39	1.75
430745--430806	28	2.2	28	85	5	81	22	8	19	50	1.74
433450--433492	20	2.2	20	100	0	86	37	4	18	39	1.72
438319--438344	2	13.0	2	100	0	52	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456178--456206	13	2.1	14	93	6	51	65	6	0	27	1.18
459056--459084	14	2.0	15	93	6	51	37	0	6	55	1.27
459535--459611	34	2.2	34	81	6	84	38	6	10	44	1.65
463897--463938	2	21.0	2	87	0	57	54	2	0	42	1.13
468349--468554	109	1.9	110	88	1	315	24	9	15	50	1.74
470620--470676	25	2.2	25	84	9	71	42	15	12	29	1.84
472336--472396	20	3.0	21	73	24	58	45	4	3	45	1.41
486769--486794	2	13.0	2	100	0	52	50	0	0	50	1.00
495097--495121	10	2.5	10	100	0	50	48	12	0	40	1.40
496526--496598	36	2.0	36	89	0	110	43	8	9	38	1.67
501071--501144	28	2.6	28	78	16	82	24	13	17	44	1.85
501131--501187	18	3.2	18	71	0	60	21	14	22	42	1.88
501352--501475	59	2.2	56	83	9	146	41	8	6	42	1.62
502177--502228	23	2.3	22	80	9	59	67	11	5	15	1.40
512801--512865	32	2.0	32	100	0	130	41	24	6	27	1.78
514241--514280	21	2.0	20	85	5	53	47	0	25	27	1.52
522264--522318	20	2.8	20	85	0	74	32	18	12	36	1.88
522831--523031	68	3.0	68	78	1	224	35	16	9	37	1.82
523952--524017	23	2.9	23	83	0	87	33	12	19	34	1.89
524030--524089	21	2.9	21	77	2	68	38	10	13	38	1.78
532706--532746	21	2.0	21	85	9	57	24	2	2	70	1.11
541029--541072	21	2.1	21	95	0	79	0	40	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541020--541082	17	3.4	18	74	18	58	0	39	0	60	0.97
561291--561349	21	2.8	21	92	0	91	40	22	6	30	1.79
565701--565735	16	2.2	16	100	0	70	60	0	11	28	1.32
566226--566251	2	13.0	2	100	0	52	50	0	0	50	1.00
568050--568089	21	1.9	21	100	0	80	45	20	15	20	1.86
568956--568998	21	2.1	20	87	12	61	67	4	11	16	1.38
575526--575599	35	2.1	34	85	7	96	58	16	1	24	1.46
576750--576864	59	1.9	59	87	0	167	30	16	6	46	1.71
577190--577268	34	2.3	34	82	0	95	40	18	13	26	1.89
578057--578113	16	3.5	16	68	13	53	35	8	12	43	1.73
578057--578126	33	2.1	33	97	0	131	35	10	12	41	1.77
581285--581341	30	1.9	30	85	0	78	61	7	31	0	1.23
586457--586541	36	2.3	37	82	9	111	50	20	3	25	1.64
586565--586602	16	2.4	16	86	8	51	73	2	2	21	1.07
591909--592071	76	2.1	77	93	1	274	39	7	13	39	1.73
617843--617957	41	2.7	43	82	6	137	37	16	20	26	1.93
619178--619207	16	1.9	15	93	6	51	66	16	0	16	1.25
636281--636518	118	2.0	119	90	0	379	31	13	23	31	1.93
639205--639260	22	2.5	23	79	2	60	23	14	5	57	1.58
639913--639981	22	3.0	22	75	17	61	65	7	4	23	1.36
641016--641060	12	3.8	12	87	0	63	48	15	2	33	1.57
644935--644986	10	5.1	10	75	13	52	32	0	9	57	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648400--649057	334	2.0	334	85	3	896	29	17	15	38	1.90
649267--649306	21	1.9	21	89	0	62	30	22	7	40	1.81
660520--660571	20	2.6	20	87	0	68	23	1	5	69	1.20
665667--665707	20	2.0	20	95	0	73	17	4	12	65	1.42
668123--668163	21	2.0	20	85	9	55	19	4	9	65	1.40
669830--669877	24	2.0	23	84	4	60	27	0	8	64	1.22
669829--669921	19	4.8	20	70	17	54	25	0	9	64	1.24
680477--680510	18	1.9	17	88	5	50	20	0	0	79	0.73
681040--681070	16	1.9	16	93	0	53	64	19	3	12	1.41
685557--685581	12	2.1	12	100	0	50	76	0	24	0	0.80
685715--685756	13	3.3	13	80	3	50	69	0	30	0	0.89
685698--685756	22	2.8	21	78	14	66	64	0	35	0	0.94
690736--690775	8	5.0	8	84	0	53	0	35	0	65	0.93
690719--690775	24	2.4	24	85	5	71	0	35	0	64	0.93
690714--690766	16	3.5	16	77	12	58	0	33	0	66	0.92
690725--690775	16	3.3	15	76	10	50	0	35	0	64	0.94
692166--692226	16	3.8	16	89	6	72	0	37	0	62	0.96
699906--699930	13	1.9	13	100	0	50	76	0	24	0	0.80
718208--718283	34	2.2	35	83	9	93	61	10	2	25	1.41
723115--723151	18	2.0	20	84	10	51	35	13	2	48	1.57
724246--724325	35	2.3	35	84	0	106	33	16	18	31	1.93
726705--726736	15	2.1	15	94	0	55	40	0	6	53	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731716--731757	21	2.0	21	90	0	66	26	42	4	26	1.75
732238--732275	11	3.5	11	82	3	51	28	18	10	42	1.83
732612--732722	11	10.1	11	67	22	56	52	1	1	44	1.22
732653--732718	18	3.6	18	80	10	80	51	1	0	46	1.10
737813--737905	46	2.0	46	91	0	150	43	18	11	26	1.85
740676--740708	15	2.2	15	94	0	57	30	6	18	45	1.73
744745--744806	30	2.1	30	87	0	88	48	0	30	20	1.50
745472--745535	28	2.3	28	97	0	119	40	9	26	23	1.85
756071--756112	11	3.9	11	82	14	52	50	0	0	50	1.00
756078--756112	11	3.1	12	88	12	56	45	0	0	54	0.99
756071--756132	22	2.7	24	82	5	74	50	0	3	46	1.17
756075--756132	24	2.5	22	83	5	71	50	0	3	46	1.18
756116--756166	26	1.9	27	84	4	68	52	1	3	41	1.31
766543--766649	30	3.6	30	79	1	117	57	2	1	37	1.24
768512--768571	26	2.3	26	85	0	75	41	0	3	55	1.16
772342--772408	23	2.9	24	80	6	84	29	17	20	31	1.96
778576--778650	24	3.0	25	69	18	66	72	2	21	4	1.14
779188--779229	15	2.8	15	96	0	75	11	26	0	61	1.30
779567--779797	87	2.6	87	78	10	247	38	10	8	42	1.70
779577--779797	58	3.8	58	77	10	211	39	10	8	41	1.70
779577--779794	29	7.5	28	77	11	190	40	11	7	40	1.69
784639--784808	35	4.9	35	75	3	130	37	7	11	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
786090--786170	36	2.2	36	95	0	144	33	20	20	24	1.97
794671--794770	31	3.2	31	68	22	75	34	11	17	38	1.84
794945--795164	93	2.4	93	85	1	262	34	13	18	34	1.90
794573--795071	62	8.0	62	80	3	509	33	13	18	34	1.90
794806--795142	31	10.8	32	68	14	143	33	13	18	34	1.89
795091--795463	62	6.0	62	74	8	301	32	17	18	31	1.94
794982--795190	93	2.2	92	84	5	251	33	12	17	35	1.88
795074--795312	129	1.9	124	80	10	279	32	16	18	33	1.93
796762--796834	35	2.1	35	92	0	119	31	16	23	28	1.96
797913--797988	25	2.8	26	80	15	75	71	1	25	2	1.07

Tables:   1   2   3   4   5   6   7   8   9