genome.fa.s3.2.7.7.80.10.50.1000.25.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  25  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)
10828920--10829537	210	3.0	209	84	3	812	46	4	7	41	1.52
10829652--10829698	23	2.1	22	84	7	60	51	4	0	44	1.21
10829670--10829714	22	2.0	23	82	8	56	48	2	2	46	1.26
10835233--10835301	29	2.7	24	69	28	61	42	1	0	56	1.08
10837024--10837114	30	3.0	29	82	7	94	60	0	1	38	1.04
10837024--10837114	29	3.0	30	78	12	96	60	0	1	38	1.04
10838924--10838962	12	3.3	12	86	13	55	74	0	0	25	0.82
10839056--10839149	25	3.6	25	69	22	52	34	2	0	63	1.06
10839111--10839197	6	13.7	6	72	11	66	26	1	0	72	0.92
10839044--10839195	70	2.2	70	83	8	184	31	1	0	67	0.99
10839099--10839194	32	3.0	32	89	1	138	30	1	0	68	0.96
10839089--10839197	33	3.0	39	74	21	128	30	0	0	68	0.96
10839089--10839198	32	3.0	39	74	20	128	30	0	0	69	0.95
10841289--10841342	21	2.6	21	93	0	90	20	12	25	40	1.88
10841354--10841419	23	2.9	23	82	6	73	30	10	22	36	1.88
10842347--10842402	29	2.0	28	85	3	76	48	0	8	42	1.34
10850836--10850887	21	2.5	21	81	9	54	50	1	0	48	1.12
10851794--10851909	58	2.0	58	98	0	223	24	23	12	40	1.88
10862978--10863007	2	15.0	2	92	0	51	0	46	0	53	1.00
10865155--10865221	28	2.5	28	78	4	75	41	10	7	40	1.67
10865230--10865283	26	2.1	26	85	0	72	37	3	11	48	1.57
10865261--10865329	31	2.2	32	80	12	81	30	10	11	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10865734--10865800	33	2.0	33	82	0	80	43	10	4	41	1.59
10865846--10865950	29	3.6	29	81	11	124	57	0	2	39	1.20
10866646--10866725	15	5.5	15	73	15	62	71	1	0	27	0.94
10866648--10866718	5	14.4	5	76	15	51	73	1	0	25	0.92
10866648--10866725	7	10.9	7	71	19	54	71	1	0	26	0.93
10866634--10866802	40	4.1	40	75	21	141	64	0	3	31	1.15
10866773--10866849	33	2.6	28	74	18	82	63	0	5	31	1.16
10866749--10866835	33	2.6	33	81	5	95	65	0	3	31	1.09
10866820--10866879	24	2.5	23	75	20	59	58	0	5	36	1.20
10867048--10867091	15	2.9	15	86	0	61	40	13	2	43	1.57
10873727--10873756	15	2.0	15	100	0	60	40	6	20	33	1.78
10873976--10874061	20	4.3	20	73	5	75	24	2	0	73	0.95
10873977--10874052	33	2.3	33	88	2	107	25	2	0	72	0.98
10875787--10875825	19	2.0	19	85	5	51	69	0	0	30	0.89
10875770--10875829	20	3.3	20	69	26	60	61	1	0	36	1.06
10877985--10878033	24	2.0	25	92	4	82	22	30	2	44	1.64
10886569--10886593	10	2.5	10	100	0	50	44	16	8	32	1.76
10892600--10892627	2	14.0	2	100	0	56	50	0	0	50	1.00
10897526--10897578	28	2.0	28	85	7	74	33	0	1	64	1.05
10897521--10897577	21	2.8	21	71	10	55	35	0	1	63	1.05
10908734--10908758	2	12.5	2	100	0	50	52	0	48	0	1.00
10914069--10914183	49	2.3	49	90	0	185	38	15	13	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10928114--10928158	21	2.1	21	84	8	56	46	0	8	44	1.34
10932891--10932917	2	13.5	2	100	0	54	48	0	0	51	1.00
10934084--10934174	44	2.0	46	80	8	105	56	3	0	40	1.16
10934204--10934392	27	6.6	28	68	18	86	53	2	2	41	1.29
10934310--10934360	16	3.2	16	81	15	70	49	0	1	49	1.12
10934312--10934362	15	3.3	15	81	13	68	49	0	1	49	1.12
10934226--10934476	123	2.1	121	86	7	343	54	2	2	40	1.28
10934343--10934670	149	2.1	150	86	8	450	54	3	2	39	1.30
10934428--10934519	41	2.2	41	79	9	98	52	2	3	42	1.30
10934562--10934673	42	2.7	42	78	14	124	54	1	2	41	1.25
10934697--10934787	26	3.5	26	74	14	73	50	0	3	46	1.17
10934714--10934802	27	3.3	27	75	12	76	46	0	5	48	1.26
10937341--10937680	18	19.6	18	64	21	81	29	2	1	66	1.14
10937341--10937592	18	12.6	20	67	19	84	29	3	1	66	1.15
10937283--10937483	87	2.3	89	87	7	284	33	4	1	60	1.26
10937442--10937497	21	2.5	23	77	14	62	30	1	0	67	1.01
10937461--10937681	5	43.4	5	67	16	75	27	1	1	69	1.04
10937459--10937684	85	2.6	86	90	6	352	27	1	1	69	1.04
10937539--10937654	26	4.5	24	74	20	78	25	0	1	71	1.01
10937414--10937675	55	4.6	54	70	18	167	28	2	1	67	1.11
10944358--10944383	13	2.0	13	100	0	52	69	15	0	15	1.20
10961892--10961920	2	14.5	2	100	0	58	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10965363--10965415	6	8.8	6	80	0	61	50	30	16	1	1.56
10967422--10967484	2	33.0	2	78	15	62	47	3	3	46	1.34
10969328--10969396	23	3.0	22	72	19	61	49	4	26	20	1.67
10979120--10979192	37	2.0	37	100	0	146	30	13	19	36	1.90
10979488--10979710	112	2.0	112	99	0	437	29	18	26	25	1.98
10980363--10980408	14	3.2	14	81	3	56	26	0	0	73	0.83
10980361--10980411	23	2.2	22	83	13	59	23	0	0	76	0.79
10989386--10989601	108	2.0	108	99	0	423	38	21	10	29	1.86
10994338--10994528	98	1.9	98	84	0	256	44	3	14	37	1.62
10994697--10994748	15	3.5	16	80	12	58	44	0	0	55	0.99
11001448--11001475	2	14.0	2	100	0	56	50	0	0	50	1.00
11015607--11015649	2	21.5	2	85	0	59	46	51	0	2	1.13
11021558--11021654	51	1.9	51	95	0	176	26	19	15	38	1.92
11039449--11039541	31	3.0	31	80	13	95	59	6	9	24	1.53
11046252--11046282	10	3.1	10	95	0	53	45	48	6	0	1.28
11051649--11051680	15	2.1	15	94	0	55	21	18	31	28	1.97
11064054--11064116	28	2.2	29	83	11	76	55	7	20	15	1.65
11064300--11064399	35	2.9	35	80	5	105	28	9	17	46	1.78
11071117--11071226	30	3.7	30	82	3	132	38	0	3	57	1.23
11071290--11071341	14	3.4	14	71	19	50	46	3	3	46	1.39
11071975--11072000	12	2.2	12	100	0	52	46	0	23	30	1.53
11077322--11077375	22	2.4	24	74	20	62	38	14	22	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11080622--11080663	9	4.6	9	77	16	50	69	0	0	30	0.89
11081555--11081612	20	2.9	21	84	7	84	77	3	18	0	0.91
11100128--11100158	2	15.5	2	100	0	62	51	0	48	0	1.00
11105082--11105145	33	1.9	33	96	0	119	42	6	10	40	1.65
11105086--11105161	33	2.3	33	88	0	116	39	7	14	38	1.75
11105326--11105404	33	2.3	36	78	8	92	44	0	0	55	0.99
11105364--11105390	11	2.5	11	100	0	54	44	0	0	55	0.99
11119510--11119572	24	2.4	26	82	10	67	57	3	1	38	1.24
11121852--11121881	2	15.0	2	92	0	51	50	0	46	3	1.18
11129191--11129218	3	9.3	3	100	0	56	0	32	0	67	0.91
11136702--11136738	15	2.4	16	82	13	51	45	0	0	54	1.00
11145040--11145077	5	7.6	5	91	8	60	42	0	0	57	0.98
11155426--11155473	21	2.2	23	85	7	64	50	2	10	37	1.49
11157515--11157549	2	17.5	2	90	0	52	42	2	2	51	1.31
11158883--11158910	2	14.0	2	100	0	56	50	0	0	50	1.00
11166165--11166197	2	16.5	2	93	0	57	51	3	0	45	1.16
11182936--11182964	6	4.8	6	100	0	58	0	34	0	65	0.93
11196891--11196917	2	13.5	2	100	0	54	0	51	0	48	1.00
11197237--11197273	2	18.5	2	94	0	65	0	45	0	54	1.00
11197273--11197310	2	19.0	2	94	0	67	50	2	0	47	1.15
11218186--11218238	25	2.1	25	92	0	88	56	16	20	5	1.60
11246899--11246929	11	2.7	11	95	5	53	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11263136--11263372	75	3.2	75	93	1	395	28	31	22	17	1.97
11285298--11285326	15	1.9	15	100	0	58	34	0	0	65	0.93
11285903--11285944	14	3.2	13	80	12	50	47	0	0	52	1.00
11286477--11286512	18	1.9	19	88	5	56	38	8	0	52	1.32
11294750--11294865	18	6.4	18	75	11	85	44	6	6	41	1.58
11294749--11294885	73	1.9	73	85	0	193	43	6	6	43	1.56
11299016--11299045	15	1.9	16	93	6	53	56	0	36	6	1.26
11309118--11309143	2	13.0	2	100	0	52	50	0	0	50	1.00
11321696--11321751	30	1.9	29	82	7	69	19	12	14	53	1.72
11326710--11326737	2	14.0	2	100	0	56	50	50	0	0	1.00

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