genome.fa.s3.2.7.7.80.10.50.1000.3.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  3  of  29  ( 3437 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)
372305--372345	17	2.4	17	88	12	57	70	4	21	2	1.18
375087--375182	39	2.6	38	85	6	126	29	11	23	35	1.90
383872--383931	31	1.9	31	93	0	102	46	10	18	25	1.79
384514--384569	26	2.2	26	83	6	69	73	1	5	19	1.12
396634--396672	19	2.0	20	90	5	62	71	7	0	20	1.10
397691--397829	73	1.9	73	83	0	179	38	14	20	27	1.91
397678--397853	73	2.4	72	75	1	172	38	15	21	25	1.92
399243--399281	21	2.0	21	85	10	55	20	10	2	66	1.33
400876--400908	6	5.7	6	85	7	50	78	0	0	21	0.75
406700--406744	4	11.2	4	95	0	54	42	0	8	48	1.34
408543--408570	2	14.0	2	100	0	56	0	50	0	50	1.00
415124--415199	27	2.8	27	78	7	91	14	3	42	39	1.64
421904--421944	22	1.9	21	90	5	64	60	0	14	24	1.34
425142--425297	68	2.3	68	80	4	172	36	8	18	35	1.82
425247--425373	68	1.9	68	85	3	175	36	9	21	33	1.86
426797--426924	58	2.2	58	81	12	138	35	14	22	26	1.93
426811--426930	29	4.1	29	74	14	113	33	15	22	28	1.95
434373--434425	27	2.0	27	96	0	97	16	30	7	45	1.75
435348--435442	48	2.0	49	93	2	165	47	22	4	26	1.69
440607--441586	487	2.0	487	95	0	1753	28	12	23	36	1.90
446034--446272	119	2.0	119	96	1	444	29	14	24	31	1.94
452374--452428	27	2.0	27	96	0	101	14	12	21	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457614--457655	19	2.2	19	86	0	57	61	4	0	33	1.17
465492--465566	35	2.1	35	92	0	123	33	1	16	49	1.54
465497--465557	18	3.4	18	72	20	65	29	1	18	50	1.56
465501--465589	35	2.5	35	81	1	97	35	3	15	44	1.63
479355--479481	35	3.6	35	78	2	155	37	3	11	48	1.54
479348--479495	71	2.1	71	92	0	242	35	4	12	47	1.61
479355--479500	35	4.1	35	77	1	148	35	4	13	47	1.61
483377--483518	74	1.9	73	90	4	223	26	19	11	41	1.86
489731--489772	21	2.0	22	90	4	68	47	23	9	19	1.78
490482--490512	2	15.5	2	93	0	53	0	48	3	48	1.17
503002--503031	2	15.0	2	100	0	60	50	0	0	50	1.00
506677--506955	102	2.7	102	86	2	375	39	16	19	24	1.91
508059--508090	12	2.7	12	100	0	64	34	18	15	31	1.93
513749--513838	29	3.1	29	76	4	85	50	11	23	15	1.76
514567--514604	15	2.5	15	95	0	67	63	0	0	36	0.95
515400--515472	29	2.5	29	77	4	76	36	2	4	56	1.33
515428--515494	18	3.8	18	78	2	64	37	1	4	56	1.29
515451--515502	17	2.9	18	76	21	56	40	0	0	59	0.97
537533--537707	23	7.4	23	71	8	93	28	10	36	24	1.89
537577--537638	23	2.7	23	92	0	97	33	12	32	20	1.91
537739--537860	23	5.3	23	80	2	84	30	9	36	24	1.86
537749--537860	46	2.4	46	80	0	134	30	8	36	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537962--538019	23	2.5	23	77	0	62	36	15	27	20	1.93
538046--538125	23	3.4	23	82	3	97	31	10	30	28	1.89
538792--538841	24	2.1	24	96	0	91	20	14	38	28	1.91
538842--538897	26	2.2	26	83	0	67	28	23	21	26	1.99
539087--539147	31	2.0	31	93	0	104	27	18	18	36	1.94
540635--541022	151	2.6	150	81	5	464	33	17	14	34	1.90
541311--541407	45	2.2	45	100	0	194	19	12	19	48	1.80
541646--541926	81	3.5	81	76	4	264	30	16	27	25	1.97
543444--543851	160	2.6	160	79	1	442	36	19	21	23	1.95
543221--543668	239	1.9	238	82	0	563	35	19	19	25	1.95
543221--543891	79	8.4	79	72	8	354	36	18	19	25	1.95
547493--547564	35	2.1	35	81	5	83	36	12	12	38	1.81
559888--559990	51	2.0	51	98	0	197	30	19	14	35	1.92
560768--560800	17	1.9	17	93	0	57	9	6	3	81	0.95
565509--565657	15	10.2	15	66	25	79	46	1	1	51	1.18
565554--565601	25	1.9	25	95	0	87	43	0	2	54	1.12
565550--565658	40	2.7	40	85	7	130	44	0	1	53	1.11
565618--565650	17	2.0	17	88	5	50	48	0	3	48	1.17
565678--565708	16	1.9	16	100	0	62	58	0	0	41	0.98
565712--565758	16	2.9	16	90	3	67	48	4	0	46	1.21
565729--565796	23	2.7	26	77	20	72	48	1	1	48	1.19
565633--565945	141	2.2	145	88	7	462	46	3	1	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565852--565885	16	2.1	16	88	0	50	52	2	0	44	1.16
565738--565949	76	2.8	75	72	13	204	45	3	1	49	1.27
565949--565992	20	2.2	20	83	4	52	15	11	0	72	1.11
568977--569056	36	2.2	36	93	0	133	30	11	23	35	1.90
590123--590155	17	1.9	17	88	11	50	48	6	0	45	1.27
593448--593478	16	2.0	15	93	6	53	12	3	19	64	1.41
593527--593598	36	2.0	37	94	2	128	55	1	20	22	1.51
594788--595007	80	2.8	80	87	3	284	33	7	23	35	1.83
594999--595036	19	2.0	20	89	5	60	34	2	21	42	1.67
598108--598145	19	2.1	19	90	5	60	55	0	2	42	1.14
600460--600497	15	2.4	17	86	8	53	52	0	18	28	1.45
601508--601541	2	17.0	2	93	0	59	2	0	47	50	1.16
620080--620187	55	2.1	52	84	8	139	27	11	25	35	1.90
627185--627395	72	2.9	72	86	0	296	28	9	23	38	1.85
630688--630747	25	2.4	26	77	8	70	28	31	16	23	1.96
633632--633687	29	1.9	29	85	0	76	25	12	16	46	1.81
642674--642713	19	2.2	19	86	4	55	22	25	7	45	1.78
652749--652809	29	2.1	29	87	0	86	55	6	3	34	1.42
661219--661255	19	1.9	19	89	10	58	51	5	10	32	1.60
668334--668371	15	2.5	15	100	0	76	10	13	5	71	1.30
670855--671017	77	2.1	78	82	7	199	41	10	5	42	1.62
670872--671018	77	1.9	77	85	2	206	39	10	6	43	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672744--672906	73	2.2	73	84	0	200	25	21	15	36	1.93
681685--681823	73	1.9	73	82	2	172	25	17	18	38	1.93
681807--681864	21	2.8	21	94	0	98	20	22	17	39	1.92
701891--701941	22	2.3	22	100	0	102	23	21	9	45	1.82
710266--710295	15	2.0	15	100	0	60	33	20	6	40	1.78
714867--714915	23	2.1	23	82	14	57	46	22	6	24	1.74
719865--719894	14	2.1	15	93	6	53	36	0	0	63	0.95
721456--721499	22	2.0	22	90	0	70	27	9	13	50	1.72
737409--737449	17	2.4	17	87	0	55	34	12	34	19	1.89
748568--748593	3	8.7	3	100	0	52	69	0	0	30	0.89
756449--756579	65	2.0	67	85	7	178	36	9	19	34	1.85
756448--756617	65	2.5	67	76	11	177	37	10	18	34	1.84
763970--764095	63	2.0	63	100	0	252	41	4	15	38	1.69
766840--767101	128	2.0	132	85	6	356	43	5	7	43	1.54
775872--775915	19	2.2	20	80	15	56	13	6	6	72	1.25
779460--779752	147	2.0	145	89	1	442	48	19	15	16	1.82
785482--785511	3	10.0	3	100	0	60	66	0	0	33	0.92
791039--791076	11	3.5	11	89	3	51	84	2	13	0	0.73
796744--796787	14	3.1	14	86	3	61	4	2	13	79	0.98
796748--796792	14	3.1	14	83	6	54	6	2	13	77	1.05
797625--797668	20	2.1	22	87	8	65	15	4	11	68	1.36
809800--809844	21	2.1	22	88	12	67	75	0	17	6	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
810091--810144	22	2.4	23	87	6	76	70	0	27	1	0.98
810117--810146	14	2.1	14	93	6	51	80	0	20	0	0.72
810095--810148	13	4.3	13	78	21	53	72	0	25	1	0.95
821404--821455	23	2.2	23	86	10	70	34	15	23	26	1.94
821417--821499	23	3.7	22	83	3	94	32	13	19	34	1.90
827098--827206	31	3.5	31	84	0	119	33	18	14	33	1.91
827867--828150	23	12.3	23	73	5	119	27	30	11	30	1.92
828120--828171	23	2.3	23	83	6	61	21	32	21	25	1.98
828197--828253	23	2.5	23	91	0	87	22	31	14	31	1.93
828282--828554	23	11.9	23	71	12	150	27	30	9	32	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29