genome.fa.s4.2.7.7.80.10.50.1000.22.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  22  of  26  ( 3073 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)
9314762--9314803	2	21.0	2	90	0	66	47	2	0	50	1.14
9324962--9324988	6	4.5	6	100	0	54	0	14	0	85	0.61
9329219--9329243	5	5.0	5	100	0	50	0	20	0	80	0.72
9329750--9329789	13	3.0	13	85	14	55	75	0	25	0	0.81
9333866--9333904	20	2.0	20	85	10	53	38	0	0	61	0.96
9354177--9354204	2	14.0	2	100	0	56	50	0	0	50	1.00
9358907--9358938	2	16.0	2	100	0	64	50	0	50	0	1.00
9359760--9359792	2	16.5	2	100	0	66	51	0	0	48	1.00
9371400--9371448	25	2.0	25	100	0	98	40	24	12	22	1.88
9380981--9381107	63	2.0	63	92	3	211	29	18	25	26	1.98
9393486--9393524	12	3.4	11	82	10	51	33	0	5	61	1.18
9403330--9403355	3	8.7	3	100	0	52	0	30	0	69	0.89
9412811--9412851	21	1.9	22	85	5	57	7	34	24	34	1.83
9434906--9434939	2	17.0	2	100	0	68	50	0	0	50	1.00
9444706--9444836	66	2.0	66	92	0	217	38	17	10	33	1.84
9445545--9445604	28	2.1	28	84	0	75	60	11	11	16	1.60
9446416--9446457	21	2.0	21	85	0	57	38	0	40	21	1.53
9448835--9448859	3	8.3	3	100	0	50	64	0	36	0	0.94
9449696--9449904	82	2.5	81	75	11	190	30	10	39	20	1.86
9470576--9470787	42	5.0	42	82	0	253	22	22	27	27	1.99
9474132--9474168	19	1.9	19	88	0	56	27	0	16	56	1.40
9474445--9474500	25	2.3	26	78	12	73	44	1	1	51	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9488536--9488683	80	1.9	80	81	5	183	20	29	9	40	1.84
9509009--9509042	15	2.3	15	95	5	61	55	2	5	35	1.39
9530279--9530305	2	13.5	2	100	0	54	51	0	0	48	1.00
9531683--9531711	14	2.1	14	93	6	51	41	17	17	24	1.90
9535574--9535604	14	2.2	14	94	0	53	41	0	6	51	1.27
9537335--9537387	13	4.0	13	74	11	54	73	0	0	26	0.83
9541165--9541213	16	3.1	16	88	5	64	65	2	26	6	1.27
9545045--9545086	3	14.0	3	100	0	84	66	0	0	33	0.92
9546876--9546928	27	2.0	27	88	0	79	49	1	1	47	1.23
9547334--9547366	17	2.0	17	94	5	59	48	3	0	48	1.17
9547689--9547775	32	2.8	32	75	1	86	26	19	29	24	1.98
9547688--9547756	31	2.2	31	81	2	84	23	23	33	20	1.97
9549410--9549445	18	2.0	18	88	0	54	22	11	16	50	1.77
9551769--9551827	30	2.0	31	83	6	77	61	3	0	35	1.13
9551794--9551839	21	2.2	21	84	3	58	60	2	0	36	1.09
9552323--9552361	4	9.8	4	88	0	51	20	5	2	71	1.17
9553536--9553581	18	2.6	18	96	0	83	13	36	28	21	1.91
9553736--9553787	22	2.4	22	84	12	63	51	0	0	48	1.00
9558104--9558138	10	3.5	10	92	7	54	62	0	0	37	0.95
9558339--9558409	34	2.1	34	100	0	142	42	11	23	22	1.86
9560322--9560359	16	2.3	17	86	13	53	39	13	0	47	1.42
9560418--9560461	13	3.5	12	78	9	52	47	6	0	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9560750--9560782	17	2.0	17	94	5	59	57	0	6	36	1.23
9562527--9562559	17	2.0	16	94	5	57	63	0	0	36	0.95
9562854--9562895	17	2.5	17	77	14	50	61	0	2	35	1.09
9590549--9590589	21	2.0	21	90	0	64	31	2	17	48	1.60
9610431--9610467	16	2.2	17	95	4	67	35	5	0	59	1.20
9610477--9610527	21	2.5	21	81	9	61	33	0	3	62	1.13
9611643--9611681	20	2.0	20	85	10	53	51	2	0	46	1.14
9611642--9611690	19	2.6	18	80	9	53	57	2	0	40	1.10
9621503--9621647	22	6.7	22	73	3	123	24	8	20	45	1.80
9621570--9621651	43	1.9	43	89	0	128	26	8	19	45	1.79
9621653--9621730	23	3.4	23	83	1	95	26	11	25	35	1.90
9631493--9631539	24	2.0	23	87	4	67	51	2	21	25	1.59
9632192--9632220	15	2.0	15	93	6	51	24	0	0	75	0.80
9649388--9649446	31	1.9	32	86	13	88	30	3	8	57	1.45
9649396--9649456	31	2.0	31	83	6	79	34	3	6	55	1.42
9649677--9649743	29	2.2	32	76	7	77	56	0	1	41	1.08
9659376--9659409	4	8.5	4	93	0	59	26	44	26	2	1.69
9661648--9661679	17	1.9	17	93	6	57	68	0	28	3	1.04
9661647--9661685	17	2.4	16	82	4	51	64	0	33	2	1.08
9662363--9664086	345	5.0	344	89	1	2508	31	16	19	33	1.94
9673925--9673949	2	12.5	2	100	0	50	52	0	48	0	1.00
9698897--9698935	10	4.0	9	90	6	51	41	33	20	5	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9698897--9698935	20	2.0	20	90	10	62	41	33	20	5	1.74
9706449--9706517	24	2.9	24	72	10	70	55	1	1	42	1.18
9709268--9709328	27	2.3	27	97	0	113	31	14	6	47	1.70
9711699--9711802	50	2.1	50	98	0	199	26	25	8	38	1.85
9714137--9714188	21	2.5	21	78	6	61	32	48	9	9	1.69
9714257--9714379	39	3.2	39	73	17	137	28	43	8	18	1.80
9714260--9714419	78	2.1	78	87	2	232	28	43	11	16	1.83
9714340--9714515	96	1.8	96	87	0	262	28	42	12	15	1.84
9714340--9714536	96	2.1	96	83	1	243	28	43	11	16	1.83
9714436--9714554	39	3.1	39	71	9	98	30	47	7	15	1.73
9715289--9715337	19	2.6	19	80	9	55	34	0	2	63	1.06
9718958--9718988	2	15.5	2	93	0	53	48	3	0	48	1.17
9727041--9727114	31	2.5	30	82	10	89	40	0	0	59	0.97
9727248--9727285	17	2.2	17	95	0	67	34	0	18	47	1.49
9728789--9728829	13	3.2	13	93	3	66	63	0	4	31	1.15
9728793--9728831	3	12.3	3	84	10	51	66	0	2	30	1.05
9732623--9732647	5	5.0	5	100	0	50	60	0	0	40	0.97
9738120--9738162	20	2.2	20	84	12	54	53	4	2	39	1.34
9745819--9745866	14	3.5	13	77	8	51	54	0	2	43	1.12
9746637--9746666	16	1.9	16	93	6	53	33	0	3	63	1.11
9746617--9746720	53	1.9	53	82	5	129	43	1	1	52	1.23
9758471--9758519	25	1.9	25	84	12	64	42	4	8	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9758887--9758922	2	17.5	2	94	5	63	47	0	2	50	1.15
9762040--9762064	2	12.5	2	100	0	50	52	0	0	48	1.00
9764655--9764702	12	3.9	12	83	5	60	81	2	6	10	0.95
9773442--9773513	34	2.1	35	84	5	94	29	1	1	68	1.07
9776791--9776828	2	19.0	2	94	0	67	2	47	0	50	1.15
9777651--9777690	13	3.3	13	73	20	50	22	2	15	60	1.47
9777645--9777690	23	2.0	23	100	0	92	26	4	13	56	1.55
9786797--9786843	24	2.0	24	87	8	69	25	12	38	23	1.90
9786835--9786989	24	6.5	24	75	1	141	27	20	34	17	1.95
9786835--9787010	24	7.2	24	75	3	138	27	19	35	18	1.95
9787001--9787103	27	3.8	27	85	2	100	20	13	36	29	1.91
9787028--9787125	27	3.6	27	83	0	106	19	18	37	24	1.94
9795640--9795865	117	1.9	117	92	0	380	30	9	23	35	1.87
9796455--9796589	68	2.0	68	91	0	216	20	14	19	45	1.85
9798115--9798201	42	2.1	42	100	0	174	36	26	18	18	1.94
9798470--9799070	306	2.0	306	84	3	798	22	23	26	27	1.99
9799805--9799852	25	1.9	25	82	0	60	77	2	18	2	0.97
9805431--9805485	26	2.1	26	96	0	101	41	10	12	34	1.78
9820124--9820203	30	2.7	30	88	1	117	41	7	12	38	1.71
9822605--9822717	24	4.7	24	69	4	75	20	21	19	38	1.93
9837167--9837208	21	2.0	21	95	0	75	40	21	4	33	1.74
9850100--9850146	12	3.9	12	100	0	94	8	14	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9850106--9850165	24	2.5	24	83	5	68	5	16	6	71	1.25
9852532--9852570	21	1.9	20	84	5	51	35	7	2	53	1.43
9852536--9852598	33	1.9	33	84	12	85	36	3	1	58	1.23
9855729--9856276	303	1.8	298	85	6	784	48	5	4	41	1.47
9857075--9857104	6	5.0	6	91	0	51	3	16	0	80	0.85
9859554--9859707	5	31.4	5	67	18	56	70	1	1	27	1.03
9859548--9859623	33	2.4	34	83	14	99	71	1	1	26	1.02
9859595--9859683	30	3.3	25	74	21	65	69	2	1	26	1.07
9859555--9859702	16	8.7	17	65	23	55	70	1	1	27	1.04
9859686--9859754	33	2.3	28	71	21	66	66	1	4	27	1.19

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