genome.fa.s10.2.7.7.80.10.50.1000.7.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_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8461613

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

This is table  7  of  18  ( 2155 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)
3485549--3485632	38	2.2	38	93	4	143	7	29	38	25	1.82
3489497--3489550	23	2.3	23	96	0	99	44	5	9	40	1.60
3493126--3493166	23	1.9	22	85	14	59	58	0	0	41	0.98
3493413--3493479	27	2.5	26	78	4	71	71	0	0	28	0.86
3493413--3493479	13	5.0	13	72	5	53	71	0	0	28	0.86
3493726--3493784	15	3.9	15	81	2	73	42	6	0	50	1.28
3493969--3493994	2	13.0	2	100	0	52	50	0	0	50	1.00
3494203--3494427	122	1.8	122	87	3	337	38	13	10	36	1.80
3499192--3499425	114	2.1	114	88	1	344	34	11	21	32	1.90
3500728--3500762	16	2.2	16	90	5	54	65	0	0	34	0.93
3502700--3502746	21	2.3	20	82	13	60	57	0	12	29	1.36
3503220--3503321	54	1.9	53	89	2	159	52	13	6	26	1.65
3507565--3507610	2	22.5	2	95	4	83	47	2	50	0	1.13
3511348--3511392	21	2.1	21	83	0	54	22	26	11	40	1.87
3524656--3524719	31	2.1	31	87	0	92	48	6	6	39	1.54
3525198--3525279	27	3.0	27	78	0	83	36	29	8	25	1.86
3531515--3531594	31	2.7	30	83	9	101	40	3	11	45	1.58
3533087--3533119	16	2.1	17	88	11	52	39	3	6	51	1.42
3534042--3534080	21	1.9	20	94	5	69	25	15	20	38	1.92
3533942--3534085	45	3.2	46	74	8	143	34	12	18	34	1.89
3534166--3534228	29	2.2	29	85	0	81	44	12	9	33	1.75
3534166--3534240	29	2.7	29	81	4	73	42	13	8	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3544593--3544639	22	2.1	22	84	11	60	29	4	0	65	1.11
3546951--3546996	15	3.1	15	80	0	65	32	10	28	28	1.91
3547215--3547289	6	12.0	6	75	10	53	29	0	0	70	0.87
3547218--3547281	23	2.9	23	82	17	82	31	0	0	68	0.90
3547220--3547292	23	3.4	22	74	12	71	31	0	0	68	0.90
3547141--3547369	113	2.0	114	94	4	401	33	2	0	63	1.12
3547210--3547366	8	18.2	9	63	28	58	33	1	0	64	1.06
3547323--3547408	33	2.6	33	83	5	102	29	2	0	68	1.02
3547386--3547494	24	4.2	25	72	19	80	29	1	0	67	1.07
3561227--3561252	9	2.9	9	100	0	52	42	34	23	0	1.54
3565944--3566015	39	1.9	36	88	8	108	34	13	37	13	1.85
3568744--3568782	2	19.5	2	83	0	51	58	0	0	41	0.98
3575770--3575811	19	2.3	18	84	8	50	30	21	14	33	1.93
3577216--3577639	141	3.0	145	92	3	707	45	11	5	37	1.63
3577235--3577778	142	3.8	138	86	6	576	43	12	6	38	1.68
3577229--3577778	285	1.9	285	83	6	702	43	12	6	38	1.68
3577678--3577964	82	3.5	80	86	6	364	36	13	9	40	1.78
3581111--3581146	17	2.0	17	89	10	54	61	0	2	36	1.11
3586035--3586076	2	21.0	2	100	0	84	50	0	0	50	1.00
3598727--3598768	23	1.9	21	85	9	57	0	42	2	54	1.13
3600898--3600941	23	1.9	23	85	0	61	63	2	0	34	1.07
3602104--3602148	20	2.2	20	88	7	65	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3604433--3604462	13	2.2	14	94	5	53	56	13	6	23	1.60
3604717--3604769	20	2.7	20	93	0	88	41	11	11	35	1.77
3614858--3614932	31	2.4	31	86	0	105	58	6	4	30	1.42
3617253--3617277	3	8.3	3	100	0	50	68	0	32	0	0.90
3619064--3619095	2	16.0	2	100	0	64	50	0	0	50	1.00
3623007--3623048	2	21.0	2	83	9	50	54	2	42	0	1.13
3623390--3623422	2	17.0	2	93	6	59	51	0	48	0	1.00
3626812--3626855	7	6.3	7	84	10	63	40	0	25	34	1.56
3628849--3628902	23	2.2	26	87	9	78	18	18	5	57	1.59
3629845--3629921	33	2.3	33	86	0	109	37	7	7	46	1.62
3640783--3640810	3	9.3	3	100	0	56	32	0	0	67	0.91
3641784--3641810	2	13.5	2	100	0	54	51	0	48	0	1.00
3642895--3642927	2	16.5	2	100	0	66	51	0	0	48	1.00
3653232--3653261	15	2.1	15	93	6	53	26	16	6	50	1.70
3664405--3664896	203	2.4	201	84	2	615	43	22	11	22	1.85
3665862--3665918	28	2.0	28	89	0	87	33	3	28	35	1.74
3665898--3666285	63	6.1	63	89	0	499	30	8	14	46	1.75
3665898--3666295	189	2.1	189	87	0	564	31	8	14	45	1.75
3668626--3668692	25	2.6	25	83	2	80	59	8	11	19	1.58
3678873--3678978	34	3.0	34	88	4	95	44	14	9	32	1.77
3678892--3678983	34	2.7	34	98	0	175	46	13	8	31	1.73
3683923--3684067	65	2.2	64	95	1	254	33	17	9	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3694796--3694905	42	2.6	41	80	13	116	50	0	2	45	1.22
3694848--3694880	16	2.0	17	94	5	59	48	0	3	48	1.17
3694836--3694935	42	2.4	42	83	5	123	51	1	2	46	1.19
3695316--3695348	16	2.1	16	88	5	50	51	0	0	48	1.00
3695323--3695355	16	2.1	16	88	5	50	51	3	0	45	1.16
3695336--3695387	26	2.0	26	88	7	79	51	3	1	42	1.31
3695378--3695448	27	2.7	26	79	14	76	61	0	1	36	1.05
3695384--3695445	25	2.4	24	79	15	63	62	0	1	35	1.05
3695437--3695509	27	2.7	26	81	8	83	61	1	0	36	1.05
3695569--3695617	21	2.2	21	85	10	62	46	0	0	53	1.00
3695604--3695666	5	11.8	5	77	11	54	23	6	1	68	1.22
3695604--3695666	16	3.9	15	74	12	54	23	6	1	68	1.22
3698757--3698788	2	16.0	2	100	0	64	50	0	0	50	1.00
3727406--3727573	83	2.0	86	81	8	202	45	7	5	41	1.56
3729783--3729813	7	4.4	7	100	0	62	38	16	12	32	1.86
3731949--3731974	3	8.7	3	100	0	52	30	34	0	34	1.58
3740570--3740598	4	7.2	4	100	0	58	48	0	0	51	1.00
3745257--3745350	28	3.4	26	77	5	89	37	8	6	47	1.60
3745273--3745413	28	5.1	27	74	6	104	41	9	6	42	1.62
3745273--3745428	55	2.8	55	82	3	181	42	10	5	41	1.63
3745285--3745425	27	5.1	27	72	6	113	41	10	6	41	1.65
3751570--3751702	32	4.1	32	73	11	110	65	0	2	32	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3751604--3751657	25	2.1	27	82	6	67	64	0	5	29	1.16
3751570--3751686	34	3.5	34	73	10	107	64	0	2	33	1.08
3751641--3751695	16	3.6	16	80	16	55	63	0	1	34	1.05
3751626--3751695	17	4.1	17	75	12	63	64	0	1	34	1.03
3751656--3751705	14	3.5	14	78	19	50	68	0	0	32	0.90
3751570--3751705	64	2.1	66	82	8	163	65	0	2	32	1.05
3755486--3755594	57	1.9	57	94	0	191	30	22	8	38	1.84
3756315--3756499	90	2.1	90	83	8	234	27	11	15	45	1.80
3756866--3756937	26	2.8	26	78	16	94	48	8	8	34	1.63
3770002--3770037	18	1.9	19	88	5	56	69	0	16	13	1.19
3770611--3770676	18	3.7	18	77	4	71	42	12	7	37	1.71
3770640--3770672	17	1.9	17	93	0	57	45	15	6	33	1.70
3772574--3772661	35	2.5	35	81	1	106	32	25	13	28	1.94
3774489--3774557	24	2.9	24	91	0	102	42	17	4	36	1.69
3776920--3776959	2	21.0	2	85	10	57	0	52	0	47	1.00
3803701--3803742	21	1.9	23	90	9	70	26	0	0	73	0.83
3803706--3803742	15	2.5	15	91	4	58	27	0	0	72	0.84
3804049--3804085	16	2.3	17	86	9	51	32	0	10	56	1.34
3814866--3814942	27	2.9	27	88	0	82	12	25	28	32	1.93
3814974--3815236	27	9.9	26	74	10	151	16	30	22	30	1.96
3814964--3815344	53	7.2	53	77	2	203	16	27	23	32	1.96
3815151--3815373	27	8.4	26	71	11	87	15	27	25	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3815090--3815343	27	9.5	27	75	7	151	14	26	25	33	1.94
3814963--3815370	80	5.1	80	73	7	269	16	27	23	32	1.96
3819973--3820011	20	2.0	20	85	9	55	25	7	7	58	1.52
3822651--3822701	26	2.0	26	88	0	75	25	37	3	33	1.74
3822794--3822883	24	3.8	24	86	1	128	22	30	8	38	1.84
3822936--3823200	141	1.9	141	80	1	316	24	26	10	37	1.89
3823077--3823253	92	1.9	91	86	4	248	23	28	9	38	1.86
3822753--3823270	23	22.3	23	69	7	222	23	27	10	38	1.87
3833336--3833443	51	2.1	51	86	6	148	35	17	6	40	1.75
3833492--3833529	17	2.2	18	85	4	51	42	0	7	50	1.31

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