genome.fa.s2.2.7.7.80.10.50.1000.27.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   30   31   

This is table  27  of  31  ( 3649 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)
12795776--12796118	118	3.0	111	76	14	288	53	4	2	40	1.33
12796214--12796309	22	4.4	21	76	18	74	52	1	1	45	1.14
12796211--12796256	16	2.8	17	87	12	62	54	0	0	45	0.99
12796220--12796298	42	1.9	40	87	12	115	54	0	1	44	1.08
12796004--12796374	155	2.4	154	83	8	457	53	4	2	39	1.35
12796466--12796518	26	2.0	26	92	0	88	54	0	7	37	1.29
12796414--12796972	159	3.6	155	78	6	524	53	3	5	38	1.41
12796662--12796712	27	1.9	26	92	4	84	50	5	0	43	1.26
12796901--12797103	42	4.8	42	69	17	136	53	0	4	40	1.29
12796829--12797103	128	2.1	128	83	4	327	53	1	5	39	1.33
12796446--12797000	155	3.6	152	79	6	565	52	2	5	38	1.40
12797105--12797156	27	1.9	27	88	0	77	42	3	9	44	1.55
12797194--12797255	21	3.0	22	79	9	60	41	4	0	53	1.22
12798021--12798059	16	2.4	16	91	0	60	30	30	10	28	1.90
12800236--12800317	31	2.6	32	84	7	114	52	6	13	28	1.64
12801619--12801661	22	1.9	22	85	4	59	9	4	2	83	0.87
12801794--12801834	2	20.5	2	89	0	64	51	0	4	43	1.23
12801794--12801834	12	3.4	12	96	0	73	51	0	4	43	1.23
12805036--12805119	42	2.0	43	83	6	109	47	10	29	11	1.74
12814986--12815264	77	3.6	77	84	0	344	40	6	12	40	1.70
12814986--12815264	154	1.8	154	84	0	389	40	6	12	40	1.70
12825208--12825243	3	12.3	3	88	5	56	30	0	2	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12825360--12825389	13	2.3	13	100	0	60	40	16	0	43	1.48
12828476--12828516	5	7.8	5	84	10	55	19	21	2	56	1.54
12833223--12833567	178	1.9	178	85	2	478	35	15	13	34	1.88
12834824--12834932	58	1.9	57	90	1	173	33	8	17	40	1.79
12844932--12844969	3	12.7	3	100	0	76	68	0	0	31	0.90
12847104--12847134	15	2.1	15	100	0	62	0	6	25	67	1.14
12851621--12851656	19	1.9	19	88	5	56	80	5	11	2	0.98
12856386--12856454	29	2.4	29	97	0	129	36	7	20	36	1.80
12861003--12861027	13	1.9	13	100	0	50	88	0	8	4	0.64
12867999--12868035	19	1.9	19	88	0	56	54	2	0	43	1.14
12868020--12868073	16	3.3	15	75	14	54	57	5	0	37	1.22
12872000--12872036	2	18.5	2	100	0	74	51	0	48	0	1.00
12875827--12875860	15	2.2	16	89	5	52	29	14	14	41	1.86
12876769--12876822	24	2.2	24	80	9	65	42	0	0	57	0.98
12876851--12876900	20	2.4	21	78	15	59	56	0	2	42	1.11
12876902--12876932	7	4.6	7	92	8	55	25	0	0	74	0.82
12876902--12876932	13	2.3	14	94	5	55	25	0	0	74	0.82
12877607--12877739	57	2.4	53	86	6	176	12	21	3	62	1.44
12877597--12877757	53	2.9	55	85	5	193	11	19	4	64	1.43
12877722--12877901	96	1.9	98	83	6	242	17	15	8	58	1.60
12878066--12878113	23	2.1	23	84	7	62	39	2	18	39	1.63
12878864--12878904	21	1.9	22	85	5	57	43	7	9	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12878872--12878912	21	2.0	21	85	9	57	41	4	12	41	1.64
12887436--12887488	25	2.1	26	89	3	81	26	3	0	69	1.05
12887436--12887488	26	2.1	25	86	10	72	26	3	0	69	1.05
12887460--12887502	22	2.0	21	82	8	52	37	2	0	60	1.10
12887512--12887552	19	2.2	18	91	4	64	68	2	4	24	1.22
12887836--12887914	30	2.7	29	82	9	97	29	5	5	60	1.39
12889512--12889591	5	15.4	5	74	10	54	67	0	3	28	1.08
12889509--12889542	15	2.3	15	95	5	61	64	0	0	35	0.94
12889526--12889592	33	2.1	33	89	10	104	65	0	4	29	1.12
12889512--12889642	55	2.4	53	83	10	158	65	0	4	29	1.12
12889617--12889703	34	2.6	32	82	8	93	68	2	3	25	1.16
12897527--12897569	21	2.0	21	86	0	59	41	2	11	44	1.53
12900220--12900271	27	2.0	26	88	3	77	21	5	15	57	1.58
12900170--12900262	40	2.4	39	77	1	105	20	6	16	56	1.61
12909170--12909213	21	2.0	22	91	4	72	61	6	0	31	1.22
12924167--12924448	152	1.9	152	93	1	485	41	13	16	28	1.86
12925741--12925776	16	2.2	17	90	5	56	75	11	8	5	1.19
12930176--12930224	26	2.0	26	88	11	77	32	0	0	67	0.91
12933453--12933523	29	2.4	29	88	4	106	23	11	19	45	1.83
12936703--12936757	26	2.1	26	82	0	65	40	16	7	36	1.76
12945418--12945446	14	2.1	14	100	0	58	20	44	6	27	1.77
12946505--12946548	21	2.0	22	91	4	72	61	6	0	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12953510--12953670	73	2.2	73	88	2	243	40	17	19	21	1.91
12961749--12961820	30	2.4	30	80	0	81	41	20	2	34	1.67
12967461--12967490	10	3.1	10	95	4	53	30	0	0	70	0.88
12967805--12967876	32	2.2	32	90	0	108	0	43	1	55	1.08
12967829--12967875	16	2.9	16	75	9	51	0	46	0	53	1.00
12968655--12969807	60	19.2	60	80	5	999	37	16	12	33	1.86
12968655--12969807	182	6.4	179	80	4	1095	37	16	12	33	1.86
12968654--12969807	122	9.6	120	83	3	1103	37	16	12	33	1.86
12970750--12970789	21	1.9	21	84	0	53	7	5	7	80	1.03
12979180--12979360	73	2.5	72	75	7	168	25	20	16	37	1.93
12982945--12982991	16	2.7	18	87	9	71	25	2	0	72	0.96
12983776--12983828	22	2.4	22	80	3	61	1	24	0	73	0.93
12983791--12983857	25	2.6	25	84	13	84	0	31	0	68	0.90
12983809--12983859	15	3.3	15	75	20	52	0	33	0	66	0.92
12983823--12983866	19	2.3	19	88	4	61	0	36	0	63	0.95
12984528--12984556	13	2.2	13	100	0	58	24	0	0	75	0.80
12988049--12988091	19	2.2	20	88	12	63	34	4	2	58	1.32
12991768--12991907	63	2.2	63	81	0	154	33	12	18	35	1.88
12995204--12995235	11	2.9	11	100	0	64	28	34	9	28	1.88
12995237--12995312	35	2.2	35	95	4	136	32	31	13	22	1.92
13003138--13003214	36	2.2	36	90	6	122	33	32	12	20	1.91
13007261--13007385	46	3.0	40	82	13	169	29	8	32	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13007261--13007387	40	3.0	40	82	12	173	29	8	33	29	1.87
13011532--13011685	5	31.4	5	68	18	65	70	0	1	27	0.98
13011532--13011721	33	5.9	32	73	14	131	68	0	2	28	1.03
13011532--13011720	26	7.4	24	69	20	91	68	0	2	28	1.03
13011664--13011732	33	2.3	28	71	21	66	66	1	4	27	1.19
13011627--13011716	39	2.4	36	75	17	92	71	0	2	26	0.98
13011937--13011993	15	3.8	15	80	0	60	33	22	7	36	1.81
13012541--13012576	6	5.8	6	93	6	63	83	0	16	0	0.65
13012541--13012576	13	2.9	12	92	8	63	83	0	16	0	0.65
13013838--13013868	16	1.9	16	93	0	53	54	0	25	19	1.44
13014416--13014462	22	2.2	21	88	3	67	46	0	4	48	1.21
13014291--13014584	141	2.0	143	84	8	384	32	6	3	57	1.40
13014976--13015000	4	6.2	4	100	0	50	24	0	24	52	1.48
13020272--13020305	17	2.0	17	88	0	50	14	76	2	5	1.09
13026950--13027057	25	4.0	25	72	17	85	66	0	3	29	1.09
13026943--13027055	53	2.1	54	80	11	133	68	0	3	28	1.06
13026939--13027004	33	2.0	33	82	8	82	74	0	1	24	0.91
13026960--13027117	55	2.9	53	78	9	131	67	0	3	29	1.06
13027032--13027116	34	2.5	33	88	5	118	70	0	1	28	0.95
13027032--13027117	33	2.6	34	88	5	122	69	0	1	29	0.96
13027835--13027898	32	2.0	32	90	0	101	20	20	14	45	1.85
13028865--13028911	21	2.1	21	84	7	58	42	0	4	53	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13036395--13036430	2	18.0	2	100	0	72	50	0	50	0	1.00
13042434--13042482	24	2.0	24	88	0	71	55	2	0	42	1.11
13048038--13048108	36	1.9	37	88	2	108	36	4	35	23	1.75
13056739--13056901	22	7.4	21	76	11	139	30	12	15	41	1.85
13056706--13056901	44	4.4	44	84	1	203	31	13	16	38	1.87
13056721--13056917	88	2.2	89	82	1	225	32	12	17	38	1.86
13056842--13056916	23	3.3	23	84	1	89	36	9	17	37	1.82
13062752--13062797	21	2.2	21	96	0	83	47	0	26	26	1.52
13064610--13064660	24	2.1	24	85	0	66	31	11	19	37	1.88
13066433--13066915	31	15.6	31	76	2	279	28	12	29	28	1.93

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   30   31