genome.fa.s12.2.7.7.80.10.50.1000.15.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  15  of  18  ( 2130 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)
6204814--6204891	39	2.0	39	85	5	104	20	8	25	44	1.80
6208345--6208494	28	5.4	27	73	4	93	38	8	6	46	1.61
6214664--6214703	17	2.3	18	86	4	55	67	0	2	30	1.04
6228029--6228405	117	3.2	116	70	8	303	39	9	4	46	1.56
6229870--6229920	26	1.9	27	84	11	70	64	1	0	33	1.05
6230583--6230623	20	2.0	20	90	0	64	48	0	2	48	1.14
6230616--6230655	19	2.1	19	85	0	53	55	2	2	40	1.27
6237585--6237627	2	21.5	2	100	0	86	48	0	0	51	1.00
6248436--6248465	15	1.9	16	93	6	53	63	0	0	36	0.95
6252088--6252163	36	2.1	36	85	0	98	26	15	15	42	1.87
6255420--6255492	32	2.3	32	86	6	96	15	61	8	15	1.55
6255496--6255555	29	2.1	29	87	6	86	15	61	6	16	1.53
6255392--6255550	75	2.2	75	93	3	270	15	61	8	15	1.56
6257075--6257113	2	19.5	2	89	0	60	46	2	2	48	1.29
6261753--6261789	17	2.2	17	90	0	56	45	2	0	51	1.15
6272924--6273017	25	3.8	25	95	0	161	38	12	18	30	1.88
6273316--6273448	68	2.0	68	96	0	248	39	15	17	27	1.90
6277260--6277313	15	3.5	15	75	12	56	46	0	3	50	1.19
6277264--6277320	23	2.5	22	80	11	60	49	0	3	47	1.18
6279639--6279715	38	2.0	38	87	0	109	29	12	24	32	1.93
6282763--6282822	30	2.0	30	87	6	86	28	8	33	30	1.86
6283261--6283758	261	1.9	261	91	2	811	37	12	8	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6290011--6290044	17	2.0	17	88	11	52	44	11	5	38	1.65
6296659--6296697	20	1.9	20	89	5	60	41	0	0	58	0.98
6296681--6296719	15	2.7	14	80	7	51	35	0	0	64	0.94
6298058--6298112	28	2.0	28	85	0	74	25	5	10	58	1.53
6302070--6302131	21	3.2	21	60	21	53	16	9	40	33	1.81
6302065--6302142	37	2.1	37	100	0	156	15	7	41	35	1.76
6304579--6304608	12	2.4	13	88	11	53	26	40	6	26	1.81
6308177--6308228	27	1.9	27	88	7	79	40	1	1	55	1.22
6308177--6308464	159	1.8	151	80	3	220	39	2	2	51	1.30
6308388--6308489	42	2.4	43	85	3	134	45	3	0	50	1.27
6308614--6308647	15	2.3	15	85	14	52	50	0	0	50	1.00
6308615--6308648	16	2.2	16	94	5	61	47	0	0	52	1.00
6308633--6308720	26	3.4	26	98	0	167	45	5	0	48	1.26
6310902--6310956	28	1.9	29	88	3	85	32	0	0	67	0.91
6311160--6311231	30	2.5	29	84	4	92	59	1	1	37	1.15
6312646--6312705	30	2.0	30	90	0	93	41	16	5	36	1.70
6325438--6325492	24	2.3	24	100	0	110	32	20	16	30	1.94
6329010--6329043	3	11.3	3	87	0	50	32	0	38	29	1.58
6348089--6348117	3	9.7	3	100	0	58	68	0	0	31	0.89
6352285--6352322	4	9.5	4	100	0	76	76	0	0	23	0.79
6352556--6352622	25	2.7	25	79	9	91	37	0	0	62	0.95
6352567--6352628	20	3.0	20	81	11	63	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6352600--6352633	18	1.9	18	88	5	52	44	0	0	55	0.99
6352619--6352652	10	3.3	10	88	8	50	47	0	0	52	1.00
6352597--6352683	43	2.1	41	83	12	106	44	0	0	55	0.99
6352619--6352683	21	3.1	21	76	8	62	46	0	0	53	1.00
6352556--6352677	25	5.2	25	67	21	70	41	0	0	58	0.98
6352556--6352694	25	5.6	25	69	19	60	42	0	0	57	0.98
6353233--6353257	2	12.5	2	100	0	50	0	52	0	48	1.00
6354346--6354407	18	3.3	18	75	8	54	45	1	3	50	1.27
6366240--6366270	2	15.5	2	100	0	62	48	0	0	51	1.00
6374456--6374486	15	2.1	15	93	0	53	64	0	0	35	0.94
6380349--6380392	22	2.0	21	83	12	54	59	20	11	9	1.59
6382710--6382930	110	2.0	110	88	5	331	37	7	7	47	1.60
6385891--6385933	17	2.5	17	80	3	50	41	2	4	51	1.35
6390750--6390960	105	2.0	105	98	0	404	26	16	16	41	1.89
6397504--6397531	3	9.3	3	100	0	56	0	35	0	64	0.94
6402361--6402450	33	2.6	36	78	5	96	23	13	47	15	1.80
6402386--6402457	36	2.0	37	83	2	92	19	12	55	12	1.68
6403277--6403336	29	2.1	29	81	12	70	36	3	1	58	1.25
6405911--6405962	24	2.2	24	82	6	61	59	5	3	30	1.39
6406068--6406099	13	2.5	13	94	0	55	37	0	0	62	0.95
6411090--6411150	30	2.0	30	100	0	122	44	9	16	29	1.80
6411162--6411186	2	12.5	2	100	0	50	52	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6419106--6419163	23	2.5	23	86	5	73	27	10	24	37	1.88
6421669--6421693	5	5.0	5	100	0	50	80	0	20	0	0.72
6423329--6423413	33	2.5	32	80	12	82	68	0	3	28	1.06
6423630--6423673	15	2.9	15	93	0	70	36	27	4	31	1.77
6423632--6423686	15	3.7	15	90	0	65	34	27	5	32	1.80
6427056--6427162	54	2.0	54	92	0	178	32	25	18	23	1.97
6441387--6441456	27	2.6	27	75	8	79	34	4	32	28	1.77
6444256--6444368	34	3.3	34	81	2	136	41	22	9	26	1.84
6444268--6444387	34	3.5	34	78	7	109	45	22	7	24	1.78
6446881--6446912	2	16.0	2	93	0	55	50	3	0	46	1.17
6449533--6449569	4	9.2	4	100	0	74	24	24	0	51	1.49
6455594--6455628	2	17.5	2	100	0	70	48	0	0	51	1.00
6456344--6456382	19	2.1	19	85	4	53	33	2	5	58	1.33
6463401--6463435	17	2.1	17	88	0	52	40	8	0	51	1.33
6466307--6466343	19	1.9	19	89	10	58	72	0	16	10	1.10
6466528--6466552	3	8.3	3	100	0	50	32	0	0	68	0.90
6467277--6467351	33	2.3	33	83	0	96	37	18	8	36	1.80
6467567--6467596	11	2.6	11	94	5	51	60	0	0	40	0.97
6468251--6468298	24	2.0	23	84	11	62	50	16	2	31	1.57
6468273--6468461	79	2.3	79	80	8	184	46	11	6	35	1.66
6469420--6469455	2	18.0	2	94	0	63	50	2	0	47	1.15
6469606--6469641	3	12.0	3	93	0	63	33	2	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6474903--6474935	17	1.9	17	93	0	57	48	0	0	51	1.00
6476389--6476415	2	13.5	2	100	0	54	48	0	0	51	1.00
6477459--6477506	23	2.1	23	96	0	87	8	6	27	58	1.51
6482110--6482168	31	1.9	31	92	0	100	11	57	10	20	1.63
6484761--6484808	11	4.4	11	82	7	53	81	2	6	10	0.95
6484762--6484808	17	2.9	16	82	17	53	80	2	6	10	0.96
6484761--6484804	23	1.9	23	85	0	61	79	2	6	11	1.01
6500425--6500497	38	1.9	38	100	0	146	20	34	4	41	1.72
6501620--6501678	30	2.0	30	100	0	118	49	3	10	37	1.54
6501623--6501685	30	2.1	30	90	3	99	52	4	9	33	1.55
6501771--6501825	17	3.3	17	73	17	53	43	3	9	43	1.53
6501753--6501800	21	2.2	23	81	7	55	47	2	8	41	1.45
6502546--6502585	19	2.2	18	86	4	53	57	0	0	42	0.98
6504965--6505031	34	2.0	34	93	0	116	35	8	14	40	1.78
6514866--6514904	14	3.0	13	85	10	53	28	0	7	64	1.21
6516844--6516988	32	5.1	32	63	27	110	33	7	16	42	1.76
6516839--6516988	55	2.7	55	100	0	300	34	7	16	41	1.76
6525502--6525577	31	2.6	29	74	24	70	52	5	10	31	1.58
6527220--6527249	15	2.0	15	93	0	51	43	0	6	50	1.28
6527220--6528351	344	3.3	339	81	10	1254	44	6	6	41	1.58
6527892--6527926	2	18.5	2	88	11	56	45	0	0	54	0.99
6527892--6527926	11	3.3	11	96	4	63	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6528259--6528301	16	2.7	15	80	20	52	41	0	2	55	1.12
6527548--6528300	359	2.1	362	83	10	959	44	6	6	42	1.56
6528826--6528934	53	2.0	54	91	1	175	31	23	11	33	1.90
6531362--6531390	7	4.1	7	100	0	58	13	13	58	13	1.63
6538949--6539000	26	2.0	26	81	7	61	57	1	5	34	1.33
6542605--6542694	41	2.2	41	98	2	173	25	14	8	51	1.71
6552301--6552338	15	2.4	17	86	8	53	63	10	0	26	1.27
6552776--6553005	90	2.6	90	86	0	307	28	26	18	26	1.98
6554757--6554789	13	2.5	13	90	9	50	30	0	6	63	1.18
6560134--6560168	14	2.5	14	90	0	61	60	14	0	25	1.35

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18